27 results
| Library Name | Percentage | Expression |
|---|---|---|
| Ciona intestinalis whole animal Ciona intestinalis whole animal |
|
0 clone(s) / 0 |
| Nori Satoh unpublished cDNA library Nori Satoh unpublished cDNA library |
|
0 clone(s) / 5,577 |
| Nori Satoh unpublished cDNA library, young adult Nori Satoh unpublished cDNA library, young adult |
|
1 clone(s) / 31,366 |
| Nori Satoh unpublished cDNA library, cleavage stage embryo Nori Satoh unpublished cDNA library, cleavage stage embryo |
|
4 clone(s) / 15,579 |
| Nori Satoh unpublished cDNA library, egg Nori Satoh unpublished cDNA library, egg |
|
0 clone(s) / 31,100 |
| Nori Satoh unpublished cDNA library, larva Nori Satoh unpublished cDNA library, larva |
|
2 clone(s) / 26,704 |
| Nori Satoh unpublished cDNA library, tailbud embryo Nori Satoh unpublished cDNA library, tailbud embryo |
|
7 clone(s) / 26,680 |
| directional larval cDNA library directional larval cDNA library |
|
0 clone(s) / 39 |
| Ascidian hemocytes cDNA library Ascidian hemocytes cDNA library |
|
0 clone(s) / 0 |
| K. Inaba unpublished cDNA library, testis K. Inaba unpublished cDNA library, testis |
|
0 clone(s) / 5,468 |
| Stratagene UniZAP whole-larva library Stratagene UniZAP whole-larva library |
|
0 clone(s) / 0 |
| Ciona intestinalis larva Ciona intestinalis larva |
|
0 clone(s) / 0 |
| Nori Satoh unpublished cDNA library, blood cells Nori Satoh unpublished cDNA library, blood cells |
|
0 clone(s) / 29,579 |
| Nori Satoh unpublished cDNA library, endostyle Nori Satoh unpublished cDNA library, endostyle |
|
0 clone(s) / 2,556 |
| Nori Satoh unpublished cDNA library, cleaving embryo Nori Satoh unpublished cDNA library, cleaving embryo |
|
3 clone(s) / 16,939 |
| Nori Satoh unpublished cDNA library, gastrula and neurula Nori Satoh unpublished cDNA library, gastrula and neurula |
|
5 clone(s) / 25,258 |
| Nori Satoh unpublished cDNA library, gonad Nori Satoh unpublished cDNA library, gonad |
|
0 clone(s) / 16,936 |
| Nori Satoh unpublished cDNA library, neural complex Nori Satoh unpublished cDNA library, neural complex |
|
1 clone(s) / 10,463 |
| Nori Satoh unpublished cDNA library, heart Nori Satoh unpublished cDNA library, heart |
|
0 clone(s) / 13,243 |
| Yutaka Satou unpublished cDNA library, adult digestive gland Yutaka Satou unpublished cDNA library, adult digestive gland |
|
0 clone(s) / 17,765 |
| Yutaka Satou unpublished cDNA library, embryo whole animal Yutaka Satou unpublished cDNA library, embryo whole animal |
|
1 clone(s) / 17,872 |
| Yutaka Satou unpublished cDNA library, mature adult whole animal Yutaka Satou unpublished cDNA library, mature adult whole animal |
|
0 clone(s) / 107,314 |
| Nori Satoh unpublished cDNA library, juvenile whole animal Nori Satoh unpublished cDNA library, juvenile whole animal |
|
0 clone(s) / 24,372 |
| Nori Satoh unpublished cDNA library, mature adult whole animal Nori Satoh unpublished cDNA library, mature adult whole animal |
|
0 clone(s) / 17,126 |
| Ciona intestinalis whole animal stage3 juvenile Ciona intestinalis whole animal stage3 juvenile |
|
0 clone(s) / 3,798 |
| Yutaka Satou unpublished library (cicx) Yutaka Satou unpublished library (cicx) |
|
0 clone(s) / 2,031 |
| Gateway compatible cien cDNA library, Ciona intestinalis mixed embryonic stages (Egg to Neurula) Gateway compatible cien cDNA library, Ciona intestinalis mixed embryonic stages (Egg to Neurula) |
|
12 clone(s) / 188,431 |
3 results
OVERVIEW
Click here to see the RNA-Seq Pipeline Protocol.
You can show/hide lines in the charts by clicking on it in the legend part.
You can see more details by clicking on a point and then, on the link which will appear.
Be careful, FPKM & RPKM does not permit you to compare a gene across different conditions or experiments.
OVERVIEW
Be careful, RLE and 2RLE does not permit you to compare a gene across different experiments.
Oocytes of a single individual of Ciona intestinalis (Roscoff, France) were fertilized by a mixture of sperm of two individuals and development was followed microscopically. Embryos were snapfrozen in liquid nitrogen at the appropriate stage and kept at -80°C. Samples at stage 0, 8, 12, 15, 21, 26 were collected from the same fertilzation, while sample from stage 11 was independently collected from a different individual. Total RNA was prepared with the RNA II kit of Magerey Nagel and the quality was checked with the Bioanalyzer, all samples had a RIN value of higher than 9. Strand specific libraries were constructed and the sequencing (50PE) was performed with Illumina HiSeq 2000 technology (BGI, Hong Kong, China). Reads were aligned onto C.robusta genome and considered to reflect the expression of the C.robusta orthologous genes.
| Assay platform | Illumina HiSeq 2000 | |
| Layout | Paired-end | |
| Stranded | Yes | |
| Read length | 49 | |
| Normalized data types |
|
|
| Wild type - Replica 1 | ||
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 0 (Unfertilized egg) | |
| C. robusta formely Ciona int. type A, Stage 8 (64-cell) | ||
| C. robusta formely Ciona int. type A, Stage 11 (early gastrula) | ||
| C. robusta formely Ciona int. type A, Stage 12 (mid gastrula) | ||
| C. robusta formely Ciona int. type A, Stage 15 (mid neurula) | ||
| C. robusta formely Ciona int. type A, Stage 21 (mid tailbud I) | ||
| C. robusta formely Ciona int. type A, Stage 26 (hatching larva) | ||
| Wild type - Replica 2 | ||
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 0 (Unfertilized egg) | |
| C. robusta formely Ciona int. type A, Stage 8 (64-cell) | ||
| C. robusta formely Ciona int. type A, Stage 11 (early gastrula) | ||
| C. robusta formely Ciona int. type A, Stage 12 (mid gastrula) | ||
| C. robusta formely Ciona int. type A, Stage 15 (mid neurula) | ||
| C. robusta formely Ciona int. type A, Stage 21 (mid tailbud I) | ||
| C. robusta formely Ciona int. type A, Stage 26 (hatching larva) | ||
Ciona robusta adults were obtained from the National Bio-Resource Project for Ciona (NBRP, Japan). 50 unperturbed and Foxd-morphant embryos were collected at the 32-, 64-, and 112-cell stages. RNA was extracted using a Dynabeads mRNA DIRECT Purification Kit (Thermo Fischer Scientific) and libraries were made with an Ion Total RNA-Seq kit ver 2 (Thermo Fischer Scientific). The libraries were sequenced with an Ion PGM instrument (Thermo Fischer Scientific).
| Assay platform | Ion Torrent PGM | |
| Layout | Single-end | |
| Stranded | Yes | |
| Read length | 20-365 | |
| Normalized data types |
|
|
| Wild type | ||
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 6a (early 32-cell) | |
| C. robusta formely Ciona int. type A, Stage 8 (64-cell) | ||
| C. robusta formely Ciona int. type A, Stage 10 (112-cell) | ||
| Mutant | ||
| Deregulated molecule(s) | KH2012:KH.C8.890 - | |
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 6a (early 32-cell) | |
| C. robusta formely Ciona int. type A, Stage 8 (64-cell) | ||
| C. robusta formely Ciona int. type A, Stage 10 (112-cell) | ||
The purpose of this project is to identify genes positively and negatively regulated by signaling molecules that belongs to the TGFbeta superfamily.
| Assay platform | Illumina HiSeq 2500 | |
| Layout | Single-end | |
| Stranded | Yes | |
| Read length | 101 | |
| Normalized data types |
|
|
| Wild type | ||
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 13 (late gastrula) | |
| Mutant 1 | ||
| Deregulated molecule(s) | KH2012:KH.C4.125 - | |
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 13 (late gastrula) | |
| Mutant 2 | ||
| Deregulated molecule(s) | KH2012:KH.C2.573 - | |
| Territories | whole embryo - | |
| Biomaterial(s) | C. robusta formely Ciona int. type A, Stage 13 (late gastrula) | |
109 results
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : No signal was detected.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
WT Ciona robusta 2-cell stage embryo (anterior to the left) probed for Foxa.a expression. Scale bar, 50 mm.
No Foxa.a expression is observed.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Ciona robusta 2-cell stage embryo (anterior to the left) probed for Foxa.a expression and simultaneously injected with MOs targeting Hes.a, Pem and Ccnb3.
No Foxa.a expression is observed.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
WT Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression. Scale bar, 50 mm.
No Foxa.a expression is observed.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Hes.a.
Original annotation: Inhibition of Hes.a had no discernible effect on Foxa.a expression profile.
No Foxa.a expression is observed.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Ccnb3.
Foxa.a precocious expression is observed in Aa3 blastomers (red arrows).
Original annotation:
Inhibition of Ccnb3 resulted in precocious activation of Foxa.a transcription.
Second image is the drawing of a 4-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | aA line - |
Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Pem.
No Foxa.a expression is observed.
Original annotation: Inhibition of Pem had no discernible effect on Foxa.a expression profile.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Hes.a and Pem in combination.
No Foxa.a expression is observed.
Original annotation: Inhibition of Hes.a and Pem had no discernible effect on Foxa.a expression profile.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Hes.a and Ccnb3 in combination.
Foxa.a precocious expression is observed in aA3 blastomers (red arrows).
Original annotation: Inhibition of Ccnb3 resulted in precocious activation of Foxa.a transcription.
Second image is the drawing of a 4-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | aA3 cell pair - |
Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Ccnb3, and Pem in combination.
Foxa.a precocious expression is observed in all blastomers (red arrows).
Original annotation: The Pem and CCnb3 double morphants exhibited precocious expression of Foxa.a in all of the blastomeres of 4-cell embryos, including the B lineage where it is normally silenced.
Second image is the drawing of a 4-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | aA line - bB line - |
WT Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression.
No Foxa.a expression is observed.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Ciona robusta 4-cell stage embryo (anterior to the left) probed for Foxa.a expression and simultaneously injected with MOs targeting Hes.a, Pem and Ccnb3.
Precocious Foxa.a expression is observed in aA and bB blastomers (red arrowheads)
Original annotation: Triple knockdowns of Ccnb3, Hes.a, and Pem resulted in the same precocious expression of Foxa.a that seen in Ccnb3 + Pem double morphants.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | aA3 cell pair - bB3 cell pair - |
WT Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression. Scale bar, 50 mm.
Foxa.a expression is observed in a4.2 and A4.1 blastomers.
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - |
Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Hes.a.
Foxa.a expression is observed in matching control A4.1 and a4.2 blastomers (white arrows).
Original annotation:
Inhibition of Hes.a had no discernible effect on Foxa.a expression profile.
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - |
Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Ccnb3.
Foxa.a expression is observed in matching control A4.1 and a4.2 blastomers (white arrows).
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - |
Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Pem.
Foxa.a expression is observed in matching control A4.1 and a4.2 blastomers (white arrowheads) and in b4.2 and B4.1 blastomers (yellow arrowheads).
Original annotation: MO-targeted inhibition of Pem resulted in the previously described expansion of Foxa.a expression in the b/B-lineages of 8-cell embryos.
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - B4.1 cell pair - b4.2 cell pair - |
Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Hes.a, and Pem.
Foxa.a expression is observed in matching control A4.1 and a4.2 blastomers (white arrowheads) and in b4.2 and B4.1 blastomers (yellow arrowheads).
Original annotation: MO-targeted inhibition of Pem resulted in the previously described expansion of Foxa.a expression in the b/B-lineages of 8-cell embryos.
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - B4.1 cell pair - b4.2 cell pair - |
Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Hes.a and Ccnb3.
Foxa.a expression is observed in matching control A4.1 and a4.2 blastomers (white arrowheads).
Original annotation: Inhibition of Hes.a had no discernible effect on Foxa.a expression profile.
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - |
Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression and injected with MOs targeting Ccnb3, and Pem.
Foxa.a expression is observed in matching control A4.1 and a4.2 blastomers (white arrowheads) and in b4.2 and B4.1 blastomers (yellow arrowheads).
Original annotation: The Pem and CCnb3 double morphants exhibited precocious expression of Foxa.a in all of the blastomeres of 8-cell embryos, including the B lineage where it is normally silenced.
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - B4.1 cell pair - b4.2 cell pair - |
WT Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression.
Foxa.a expression is observed in A4.1 and a4.2 blastomers.
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - |
Ciona robusta 8-cell stage embryo (anterior to the left) probed for Foxa.a expression and simultaneously injected with MOs targeting Hes.a, Pem and Ccnb3.
Foxa.a expression is observed in matching-control A4.1 and a4.2 blastomers (white arrowheads) and in B4.1 and b4.2 (yellow arrowheads).
Second image is the drawing of a 8-cell stage embryo where each cell is labelled to indicate its identity.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - B4.1 cell pair - b4.2 cell pair - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation:
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A4.1 cell pair - a4.2 cell pair - |
Lateral view of a 8-cell stage wild type embryo probed for Ci-FoxAa expression.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - |
Vegetal view of a 16-cell stage wild type embryo stained for Ci-fkh mRNA by in situ hybridization.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - B5.1 cell pair - |
Animal view of a WT Ciona robusta 16-cell stage embryo probed for Foxa.a expression (and injected with in vitro-transcribed GFP:H2B control mRNA). Scale bar, 50 mm.
Foxa.a expression is observed in a5.3 and a5.4 blastomers.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a5.3 cell pair - a5.4 cell pair - |
Animal view of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with Ccnb3 mRNA.
No Foxa.a expression is observed.
Original annotation:
Ccnb3 overexpression resulted in the failure to detect any expression of early zygotic genes and a loss of cell adhesion.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Animal view of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected Ccnb3 mRNA with mutations in the cdk-binding domain (Ccnb3 AAA mRNA).
Foxa.a expression is observed in a5.3 and a5.4 blastomers, as in the WT control.
Original annotation: Expression was not lost in embryos injected with a mutant form of the Ccnb3 mRNA harboring inactivating amino acid substitutions in the cdk-binding site (Ccnb3 AAA).
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | b5.3 cell pair - b5.4 cell pair - |
Animal view of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with Ccnb1 mRNA.
Foxa.a expression is observed in a5.3 and a5.4 blastomers, as in the WT control.
Original annotation: Expression was not lost in embryos injected with Ccnb1 mRNA.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | b5.3 cell pair - b5.4 cell pair - |
Animal (left) and vegetal (right) views of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with Ccnb3 mRNA in one blaster at the 2-cell stage.
Foxa.a expression is observed in a5.3, a5.4, A5.1 and A5.2 blastomers, and is weaker in the right side of the embryo (cells that have reduced staining are indicated with a green arrowhead).
Original annotation: Mosaic inhibition of Foxa.a expression was obtained by injecting wild-type Ccnb3 mRNAs into a single blastomere at the 2-cell stage.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 - a5.4 - |
Animal view of a Ciona robusta 16-cell stage embryo (anterior to the left) probed for Foxa.a expression.
Foxa.a expression is observed in a5.4 and a5.3 blastomers.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a5.3 cell pair - a5.4 cell pair - |
Ciona robusta embryo (anterior to the left) probed for Foxa.a expression and treated from the 4-cell stage onwards with cytochalasin B to artificially extend the duration of the 4-cell stage. Developmental time was equivalent of the 16-cell stage ($140 min).
Foxa.a expression is observed in aA blastomers (the lineages where its transcription is activated from the 8-cell stage).
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - |
Ciona robusta embryo (anterior to the left) probed for Foxa.a expression and treated from the 4-cell stage onwards with cytochalasin B and Aphidicolin to artificially extend the duration of the 4-cell stage. Developmental time was equivalent of the 16-cell stage ($140 min).
No Foxa.a expression is observed.
Original annotation: To distinguish the contributions of mitotic cycle number and absolute time in the onset of zygotic genome activation, we experimentally extended the duration of the 4-cell stage by treatment with the DNA polymerase inhibitor aphidicolin, which inhibits progression through S-phase without interfering with transcription. After permitting development to the equivalent of the 16-cell stage ($140 min), the treated embryos failed to show detectable Foxa.a transcripts.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Lateral view (animal pole right) of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with a control gfp mRNA.
Foxa.a expression is observed in a5.3, a5.4, A5.1, A5.2 and B5.1 blastomers.
n, number of embryos examined. % : Percentages of embryos that showed the wild-type expression pattern.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 cell pair - a5.4 cell pair - B5.1 cell pair - |
Lateral view (animal pole right) of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with Prdm1-r.a mRNA.
No Foxa.a expression is observed.
Original annotation: Foxa.a expression was drastically decreased in 16-cell embryos injected with Prdm1-r.a mRNA.
Magenta arrowheads indicate loss of expression. n, number of embryos examined. % : Percentages of embryos that showed the wild-type expression pattern.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Lateral view (animal pole right) of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with Prdm1-r.b mRNA.
Foxa.a expression is observed in a5.3, a5.4, A5.1 and A5.2 blastomers.
Original annotation: Because 59% of embryos injected with Prdm1-r.b mRNA lost Foxa.a expression in one or more cells, Prdm1-r.b could repress Foxa.a expression.
Magenta arrowhead indicates loss of expression. n, number of embryos examined. % : Percentages of embryos that showed the wild-type expression pattern.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 cell pair - a5.4 cell pair - |
Lateral view (animal pole right) of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with Hes.a mRNA.
Foxa.a expression is observed in a5.3, a5.4, A5.1, A5.2 and B5.1 blastomers, as in WT embryos.
n, number of embryos examined. % : Percentages of embryos that showed the wild-type expression pattern.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 cell pair - a5.4 cell pair - B5.1 cell pair - |
Vegetal view of a WT Ciona robusta 16-cell stage embryo probed for Foxa.a expression.
Foxa.a is expressed in A5.1, A5.2, B5.1, a5.3 and a5.4 blastomers.
Original comment: Embryos showed expression in all four A-line (NNE) cells in 34/34 embryos, and in B-line cells, in 15/34 embryos.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 cell pair - a5.4 cell pair - a line - A line - B5.1 cell pair - |
Vegetal view of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with β-catenin MO.
Foxa.a is expressed in A5.1, A5.2, a5.4 and a5.3 blastomers.
Original comment: In β-catenin–inhibited embryos, Foxa.a expression persisted in NNE (neuro-mesendodermal cells) and a-lineage cells.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 cell pair - a5.4 cell pair - a line - A line - |
Lateral view, vegetal pole to the right of a WT Ciona robusta 16-cell stage embryo probed for Foxa.a expression.
Foxa.a is expressed in A5.1, A5.2, B5.1, a5.3 and a5.4 blastomers.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 cell pair - a5.4 cell pair - a line - A line - B5.1 cell pair - |
Lateral view, vegetal pole to the right of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and treated with BIO from the eight-cell stage. BIO is a chemical inhibitor of the upstream inhibitory regulator of β-catenin, GSK-3.
Foxa.a is expressed in A5.1, A5.2, B5.1, a5.3, a5.4, b5.3 and b5.4 blastomers.
Original comment: Ectopic stabilisation of nβ-catenin resulted in activation of Foxa.a in ectoderm lineages at the 16-cell stage.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 cell pair - a5.4 cell pair - a line - A line - B5.1 cell pair - b5.3 cell pair - b5.4 cell pair - b line - |
Vegetal view of a WT Ciona robusta 16-cell stage embryo probed for Foxa.a expression.
Foxa.a is expressed in A5.1, A5.2 and B5.1 blastomers.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - A line - B5.1 cell pair - |
Vegetal view of a Ciona robusta 16-cell stage embryo probed for Foxa.a expression and injected with Foxd mRNA.
Foxa.a is expressed in A5.1, A5.2 and B5.1 blastomers, no ectopic expression is observed.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - A line - B5.1 cell pair - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : A5.1, A5.2, a5.3, a5.4, B5.1.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A5.1 cell pair - A5.2 cell pair - a5.3 cell pair - a5.4 cell pair - B5.1 cell pair - |
Lateral view (animal pole right) of a Ciona robusta 32-cell stage embryo probed for Foxa.a expression and injected with a control MO.
Foxa.a expression is observed in A-line, a-line, B6.1 and B6.2 blastomers.
Original annotation:
Cyan arrowheads indicate expression in the a-line. n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - B6.1 cell pair - B6.2 cell pair - |
Lateral view (animal pole right) of a Ciona robusta 32-cell stage embryo probed for Foxa.a expression and injected with morpholino oligo against Prdm1-r.a.
Foxa.a expression is observed in A-line, a-line, B6.1 and B6.2 blastomers.
Original annotation: At the 32-cell stage, Foxa.a was expressed normally in embryos injected with either control, Prdm1-r.a, Prdm1-r.b orHes.a MO.
Cyan arrowheads indicate expression in the a-line. n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - B6.1 cell pair - B6.2 cell pair - |
Lateral view (animal pole right) of a Ciona robusta 32-cell stage embryo probed for Foxa.a expression and injected with morpholino oligo against Prdm1-r.b.
Foxa.a expression is observed in A-line, a-line, B6.1 and B6.2 blastomers.
Original annotation: At the 32-cell stage, Foxa.a was expressed normally in embryos injected with either control, Prdm1-r.a, Prdm1-r.b orHes.a MO.
Cyan arrowheads indicate expression in the a-line. n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - B6.1 cell pair - B6.2 cell pair - |
Lateral view (animal pole right) of a Ciona robusta 32-cell stage embryo probed for Foxa.a expression and injected with morpholino oligo against Hes.a.
Foxa.a expression is observed in A-line, a-line, B6.1 and B6.2 blastomers.
Original annotation: At the 32-cell stage, Foxa.a was expressed normally in embryos injected with either control, Prdm1-r.a, Prdm1-r.b orHes.a MO.
Cyan arrowheads indicate expression in the a-line. n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - B6.1 cell pair - B6.2 cell pair - |
Vegetal view of a WT Ciona robusta 32-cell stage embryo probed for Foxa.a expression.
Foxa.a is expressed in A- and a-line cells.
Red and blue arrowheads shows the A-line margin (notochord and neural cells) and the endoderm respectively.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.2 cell pair - A6.3 cell pair - A6.4 cell pair - a line - A line - B6.1 cell pair - B6.2 cell pair - |
Vegetal view of a WT Ciona robusta 32-cell stage embryo probed for Foxa.a expression and treated with U0126 from the 16-cell stage.
Foxa.a is expressed in A- and a-line cells, as in WT conditions.
Red and blue arrowheads shows the A-line margin (notochord and neural cells) and the endoderm respectively.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.2 cell pair - A6.3 cell pair - A6.4 cell pair - a line - A line - |
Notochord-side view, animal pole up of a Ciona robusta 32-cell stage embryo probed for Foxa.a expression and injected with morpholinos against Foxd.
Foxa.a is expressed in A- and a-line cells, as in WT conditions.
Red and blue arrowheads shows the A-line margin (notochord and neural cells) and the endoderm respectively.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.2 cell pair - A6.3 cell pair - A6.4 cell pair - a line - A line - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : A6.1, A6.2, A6.3, A6.4, B6.1, B6.2.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.2 cell pair - A6.3 cell pair - A6.4 cell pair - B6.1 cell pair - B6.2 cell pair - |
Vegetal view of a WT Ciona robusta late 32-cell stage embryo probed for FoxA-a expression.
Expression is observed in A-line, B6.1 and B6.2 blastomere pairs.
In schematic representation of gene expression, notochord and nerve cord precursors mother cells are in purple. Blastomeres with gene expression are marked by dots.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A6.1 cell pair - A6.2 cell pair - A6.3 cell pair - A6.4 cell pair - A line - B6.1 cell pair - B6.2 cell pair - |
Vegetal view of a 64-cell stage wild type embryo stained for Ci-fkh mRNA by in situ hybridization.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.3 cell pair - A7.5 cell pair - A7.6 cell pair - A7.7 cell pair - B7.1 cell pair - B7.2 cell pair - |
Lateral view (animal pole right) of a Ciona robusta 64-cell stage embryo probed for Foxa.a expression and injected with a control morpholino oligo.
Foxa.a expression is observed in A- and B-line blastomers.
n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells are shown.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A line - B line - |
Lateral view (animal pole right) of a Ciona robusta 64-cell stage embryo probed for Foxa.a expression and injected with morpholino oligos against Prdm1-r.a.
Foxa.a expression is observed in A-, a- and B-line blastomers.
Original annotation: In Prdm1-r.a morphants, Foxa.a continued to be expressed in the a-line cells.
Cyan arrowheads indicate expression in the a-line. n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells are shown.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - B line - |
Lateral view (animal pole right) of a Ciona robusta 64-cell stage embryo probed for Foxa.a expression and injected with morpholino oligos against Prdm1-r.b.
Foxa.a expression is observed in A- and B-line blastomers, as in WT embryos.
Original annotation: At the 64-cell stage, Foxa.a expression disappeared normally in the a-line cells of embryos injected with either control, Prdm1-r.b or Hes.a MO.
n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells are shown.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A line - B line - |
Lateral view (animal pole right) of a Ciona robusta 64-cell stage embryo probed for Foxa.a expression and injected with morpholino oligos against Hesa.a.
Foxa.a expression is observed in A- and B-line blastomers, as in WT embryos.
Original annotation: At the 64-cell stage, Foxa.a expression disappeared normally in the a-line cells of embryos injected with either control, Prdm1-r.b or Hes.a MO.
n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells are shown.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A line - B line - |
Vegetal view of a WT Ciona robusta probed for Foxa.a expression at the 64-cell stage.
Original comment: Foxa.a was expressed strongly in the vegetal blastomeres designated A7.1, A7.2, A7.3, A7.5, A7.7, B7.1, and B7.2, and weakly in B7.3.
Scale bar: 100 μm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.3 cell pair - A7.5 cell pair - A7.7 cell pair - B7.1 cell pair - B7.2 cell pair - B7.3 cell pair - |
Vegetal view of a Ciona robusta Foxd morphant probed for Foxa.a expression at the 64-cell stage.
Original comment: Foxa.a expression was lost only in A7.3, A7.7, and B7.3 in Ciona Foxd morphants (blue cells in the illustration) and was maintained in B7.1, B7.2, A7.1, A7.2 and A7.5 (pink cells).
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.5 cell pair - B7.1 cell pair - B7.2 cell pair - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : A7.1, A7.2, A7.3, A7.5, A7.7, B7.1, B7.2, B7.3
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.3 cell pair - A7.5 cell pair - A7.7 cell pair - B7.1 cell pair - B7.2 cell pair - B7.3 cell pair - |
Vegetal view of a WT Ciona robusta 64-cell stage embryo probed for FoxA-a expression.
Expression is observed in A7.1, A7.2, A7.3, A7.5, a7.7, B7.1, B7.2 and B7.3 blastomere pairs.
In schematic representation of gene expression, notochord precursors are shown in red. Blastomeres with gene expression are marked by dots.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.3 cell pair - A7.5 cell pair - A7.7 cell pair - B7.1 cell pair - B7.2 cell pair - B7.3 cell pair - |
Vegetal view of a 110-cell stage wild type embryo stained for Ci-fkh mRNA by in situ hybridization.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A8.11 cell pair - A8.12 cell pair - A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.1 cell pair - B7.2 cell pair - B7.5 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : A7.1, A7.2, A7.5, A8.5, A8.6, A8.13, A8.14, B7.1, B7.2, B8.5, B8.6.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.5 cell pair - A8.13 cell pair - A8.14 cell pair - A8.5 cell pair - A8.6 cell pair - B7.1 cell pair - B7.2 cell pair - B8.5 cell pair - B8.6 cell pair - |
Vegetal view of a WT Ciona robusta 112-cell stage embryo probed for FoxA-a expression.
Expression is observed in A8.5, A8.6, A8.13, A8.14, A7.1, A7.2, A7.5, B7.1, B7.2, B8.5 and B8.6 blastomere pairs.
In schematic representation of gene expression, notochord precursors are shown in red. Blastomeres with gene expression are marked by dots.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A7.1 cell pair - A7.2 cell pair - A7.5 cell pair - A8.13 cell pair - A8.14 cell pair - A8.5 cell pair - A8.6 cell pair - B7.1 cell pair - B7.2 cell pair - B8.5 cell pair - B8.6 cell pair - |
Vegetal view of a 110 cell stage wild type embryo probed for Ci-fkh expression. A broad staining pattern is observed, which includes precursors of notochord and CNS, gut and some muscles.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A8.11 cell pair - A8.12 cell pair - A8.13 cell pair - A8.14 cell pair - A8.15 cell pair - A8.16 cell pair - A8.5 cell pair - A8.6 cell pair - A8.7 cell pair - A8.8 cell pair - B7.1 cell pair - B7.2 cell pair - B7.5 cell pair - B8.5 cell pair - B8.6 cell pair - B8.7 cell pair - B8.8 cell pair - |
Lateral view (animal pole right) of a Ciona robusta early gastrula embryo probed for Foxa.a expression and injected with a control morpholino oligo.
Foxa.a expression is observed in A- and B-line blastomers.
n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells are shown.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A line - B line - |
Lateral view (animal pole right) of a Ciona robusta early gastrula embryo probed for Foxa.a expression and injected with morpholino oligos against Prdm1-r.a.
Foxa.a expression is observed in A-, a- and B-line blastomers.
Original annotation: In Prdm1-r.a morphants, Foxa.a continued to be expressed in a-line cells even at the early gastrula stage.
Cyan arrowheads indicate expression in the a-line. n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells are shown.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - B line - |
Lateral view (animal pole right) of a Ciona robusta early gastrula embryo probed for Foxa.a expression and injected with morpholino oligos against Prdm1-r.b.
Foxa.a expression is observed in A- and B-line blastomers, as in WT embryos.
n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells are shown.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A line - B line - |
Lateral view (animal pole right) of a Ciona robusta early gastrula embryo probed for Foxa.a expression and injected with morpholino oligos against He's.a.
Foxa.a expression is observed in A- and B-line blastomers, as in WT embryos.
n, number of embryos examined. % : Percentages of embryos with Foxa.a expression in the a-line cells are shown.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A line - B line - |
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | a line - A line - |
Vegetal view of a late gastrula stage wild type embryo probed for Ci-FoxA-a expression.
Original Annotation :
FoxA-a was expressed in A9.13 and A9.15 cell pairs.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A9.13 cell pair - A9.15 cell pair - |
Vegetal view of a late gastrula stage embryo probed for Ci-FoxA-a expression, following the injection of Snail-MO.
Original annotation:
Ectopic expression was observed in A9.29 cells (black arrow).
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A9.13 cell pair - A9.15 cell pair - A9.29 cell pair - |
Vegetal view of a mid gastrula stage wild type probed for Ci-fkh expression. A weak staining is detected in the muscle and the endodermal strand precursors. Staining is restricted mainly to the notochord precursors cells.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | endodermal strand - notochord - tail muscles - |
Dorsal view of a gastrula embryo electroporated with pCES vector. pCES contains a multiple cloning site upstream of a forkhead promoter coupled to a LacZ reporter gene. Original annotation : Expression is activated during gastrulation stages in mesenchymal cell lineages (arrows). Scale bar represents 100 μm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : notochord.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | notochord - tail muscles - |
Side view (anterior is to the left, dorsal is up) of a mid-neurula stage wild type embryo stained for Ci-fkh mRNA by in situ hybridization.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | endoderm - neural plate - notochord - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : notochord, endoderm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | head endoderm - notochord - |
Dorsal view of a neurula embryo electroporated with pCES vector. pCES contains a multiple cloning site upstream of a forkhead promoter coupled to a LacZ reporter gene.. Original annotation : Expression is seen in mesenchymal tissue (arrows). Scale bar represents 100 μm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) |
Mid neurula stage wild type embryo probed for Ci-fkh expression. The first picture is a transversal section. The level of the section is indicated by the arrow of the second picture. Specific staining is observed in the ventralmost region of the neuroepithelium, and not in the lateral ependymal cells. Equally strong staining is also seen in the adjacent notochord. Weaker staining is present in the ventral endoderm. The second picture is a lateral view.Intense expression is observed in the notochord. Weaker staining is also detected in the underlying endoderm. The arrow indicates reactivation of the Ci-fkh gene in the invagination neural plate.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | A10.25 cell pair - A10.29 cell pair - A10.30 cell pair - endodermal strand - notochord - |
Dorsal view of an initial tailbud embryo electroporated with pCES vector. pCES contains a multiple cloning site upstream of a forkhead promoter coupled to a LacZ reporter gene. Original annotation : Expression is seen in mesenchymal tissue (arrows). Expression is also visible posterior to the mesenchyme in variable numbers of tail muscle cells. Expression is also, though very rarely, observed in the centre of the sensory vesicle (black arrowheads) of tailbud stage embryos. Scale bar represents 100 μm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail muscles - |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : notochord, nerve cord, endoderm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | endoderm - notochord - |
Early tailbud stage wild type embryo probed for Ci-FoxA-a expression. No picture available in the article.
Original Annotation :
FoxA-a was expressed in A10.26, A10.30, A10.25, A10.29 cell pairs (ventral nerve cord).
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | ventral TNC ependymal precursors (keel cells) - |
Dorsal and lateral views of mid tailbud embryos showing Ci-FoxAa expression. Strong expression is observed in the notochord, head endoderm, endodermal strand and the ventral ependymal cells of the nerve cord. Part of the anterior sensory vesicle is also stained.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | anterior sensory vesicle - endodermal strand - head endoderm - notochord - ventral TNC ependymal precursors (keel cells) - |
Mid tailbud stage wild type embryo probed for Ci-fkh expression. Stronger staining is observed in the secondary lineage notochord cells at the posterior tip of the tail. The transversal section show a strong staining in the ventral endodermal strand and in the ventralmost ependymal cell of the spinal cord.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | endodermal strand - secondary notochord lineage (B8.6 line) - ventral TNC ependymal precursors (keel cells) - |
Low-magnification microphotographs of Ciona intestinalis embryos electroporated with the Ci-Tbx6b basal promoter.
This construct can't drive muscle, or mesenchyme expression.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
No picture available in the paper. Staining is observed in notochord, endoderm, CNS, trunk epidermis and trunk mesenchyme.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | central nervous system - endoderm - head epidermis - notochord - |
Lateral view of a mid tailbud embryo electroporated with pCES vector. pCES contains a multiple cloning site upstream of a forkhead promoter coupled to a LacZ reporter gene. Original annotation : Expression is seen in mesenchymal tissue (arrow). Expression is also visible posterior to the mesenchyme in variable numbers of tail muscle cells. Expression is also, though very rarely, observed in the centre of the sensory vesicle (black arrowhead) of tailbud stage embryos Scale bar represents 100 μm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | anterior sensory vesicle - tail muscles - |
Picture 1: Lateral view of a late tailbud stage wild type embryo stained for Ci-fkh mRNA by in situ hybridization. Staining is detected in the spinal cord, notochord, and endodermal strand. The line through the tail indicates the approximate position of the optical section show in the picture 2. Picture 2 : Staining is restricted to the ventral-most row of ependymal cells within the spinal cord. Expression is also seen in the large central notochord and lower endodermal strand.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | endodermal strand - notochord - ventral TNC ependymal cells (keel cells) - |
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) |
Conversion to Aniseed format of data from Yutaka Satou's gene expression profiles of transcription factors and signalling molecule ISH screen (Development. 2004 131:4047-58).
Original annotation :
Gene name :FoxA-a.
Expression pattern : mesenchyme, notochord.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | secondary notochord lineage (B8.6 line) - |
Lateral view of a late tailbud stage embryo, electroporated with a lacZ transgene containing the 2,6 kb of the 5' flanking Ci-fkh promoter sequence. This construct contains the "full-length" 1,85kb Ci-fkh promoter region. Staining is detected in the notochord (red arrowhead), endoderm (yellow arrowhead) and central nervous system (blue arrowhead).
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | central nervous system - endoderm - head epidermis - notochord - |
Lateral view of a late tailbud stage embryo, electroporated with a lacZ transgene containing the 1,85 kb of the 5' flanking Ci-fkh promoter sequence which contains an internal 470 bp deletion between -1,45 kb and -985bp. LacZ staining is detected in the notochord (red arrowhead) and endoderm (yellow arrowhead) but is completely absent in the CNS and trunk epidermis.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | endoderm - notochord - |
Lateral view of a late tailbud stage embryo, electroporated with a lacZ transgene containing the truncated 1,75 kb of the 5' flanking Ci-fkh promoter sequence. An essentially normal pattern is observed in notochord and endoderm, variable staining in either the ventral or the lateral ependymal cells of the neural tube is observed.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | anterior sensory vesicle - head endoderm - lateral TNC ependymal cells - neck - neurohypophysis primordium - notochord - posterior sensory vesicle - ventral TNC ependymal cells (keel cells) - visceral ganglion - |
Lateral view of a late tailbud stage embryo, electroporated with a lacZ transgene containing the truncated 1,73 kb of the 5' flanking Ci-fkh promoter sequence. This construct contains the 1,75 kb fusion gene lacking just the distal-most 24 bp. There is reduced expression in the notochord (red arrowhead) and in the endoderm (yellow arrowhead). Occasionally, staining in the lateral ependymal cells is detected (blue arrowhead).
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | endoderm - lateral TNC ependymal cells - notochord - |
Lateral view of a late tailbud stage embryo, electroporated with a lacZ transgene containing the truncated 1,71 kb of the 5' flanking Ci-fkh promoter sequence. This construct contains the 1,73 kb fusion gene lacking just the distal-most 20 bp. There is a dramatic loss of staining in the endoderm. In addition, strong ectopic expression is consistently observed in the A8.16 muscles (orange arrowhead) and lateral ependymal cells.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | head endoderm - lateral TNC ependymal cells - notochord - posterior secondary muscle lineage (A9.31 line) - |
Picture 1: Lateral view of a late tailbud stage wild type embryo Electroporated with the 1,45 kb of the 5'-flanking region. Staining is detected in the trunk epidermis, cerebral vesicle, spinal cord, and A8.16 tail muscle. The inset shows a high-magnification view of the ectopic staining in the tail muscles. The line through the tail indicates the approximate position of the optical section showed in the picture 2.
Picture 2 : Staining is detected in the lateral ependymal cells. There is no obvious staining in the ventral row of cells.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | anterior sensory vesicle - head epidermis - lateral TNC ependymal cells - notochord - posterior secondary muscle lineage (A9.31 line) - posterior sensory vesicle - |
Lateral view of a late tailbud stage embryo, electroporated with a lacZ transgene containing the truncated 1,45kb of the 5' flanking Ci-fkh promoter sequence. Ectopic staining is detected in the central nervous system, A8.16 muscles (orange arrowhead), and trunk epidermis. Only residual residual expression is detected in the notochord, whereas staining in the endoderm is lost.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | central nervous system - head epidermis - notochord - posterior secondary muscle lineage (A9.31 line) - |
Lateral view of a late tailbud embryo electroporated with the -985bp Ci-fkh/lacZ fusion gene. The deleted region contains the CIF3 binding site. This deletion result in a loss of expression in the trunk epidermis, lateral ependymal cells of the spinal cord and in the tail muscles.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) |
Lateral view of a late tailbud embryo electroporated with pCES vector. pCES contains a multiple cloning site upstream of a forkhead promoter coupled to a LacZ reporter gene. Original annotation : Expression is seen in mesenchymal tissue (arrow). Scale bar represents 100 μm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) |
Lateral view of a late tailbud embryo electroporated with pCES vector. pCES contains a multiple cloning site upstream of a forkhead promoter coupled to a LacZ reporter gene. Original annotation : Expression is seen in mesenchymal tissue (arrow). Expression is also visible posterior to the mesenchyme in variable numbers of tail muscle cells. Expression is also, though very rarely, observed in the centre of the sensory vesicle (black arrowhead) of tailbud stage embryos Scale bar represents 100 μm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | anterior sensory vesicle - tail muscles - |
Lateral view of a Tadpole stage wild type embryo stained for Ci-fkh mRNA by in situ hybridization.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | central nervous system - endoderm - secondary notochord lineage (B8.6 line) - |
Tadpole stage embryos, electroporated with a lacZ transgene containing the truncated 1,85 kb of the 5' flanking Ci-fkh promoter sequence. Staining is detected in the head and tail include the notochord, central nervous system and endoderm.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | central nervous system - endoderm - notochord - |
Tadpole stage embryos, electroporated with a lacZ transgene containing the truncated 1,85kb of the 5' flanking Ci-fkh promoter sequence with point mutation in the Fox1 site. There is reduced staining in all of the tissues in which Ci-fkh is normally expressed. This reduction is particularly evident in the tails.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | central nervous system - head endoderm - |
Lateral view of a late tailbud stage embryo, electroporated with a lacZ transgene containing the truncated -1045bp of the 5' flanking Ci-fkh promoter sequence. Strong ectopic staining is observed in the trunk epidermis, lateral ependymal cells of the spinal cord, and A8.16 tail muscles.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | anterior sensory vesicle - head epidermis - lateral TNC ependymal cells - neck - posterior secondary muscle lineage (A9.31 line) - posterior sensory vesicle - visceral ganglion - |
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Original annotation:
0% of larvae express the construct in Brain vesicle
0% in the motor ganglion
0% in ACIN
11% in mesenchyme
Aniseed annotation:
there is currently no anatomical ontology available for this stage in Aniseed, that's why we cannot annotate this entry.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) |
Conversion to Aniseed format of Ghost database entry from Ogasawara et al., Dev Genes Evol. 2002; 212:173-185. Original annotation: . Expression pattern: not detected
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) | No expression - |
Lateral view of a juvenile stage probed for Ci-fkh/FoxA-a expression.
Original annotation:
Ci-fkh/FoxA-a was expressed in the juvenile endostyle.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) |
Transverse section of an adult probed for Ci-fkh/FoxA-a expression.
Original annotation:
Ci-fkh/FoxA-a was detected in the endostyle, mainly in zones 3 and the medial medial part of zone 8, as well as faintly in zone 1.
| Stained molecule | KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3) |
| Stained region(s) |
