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| Nori Satoh unpublished cDNA library Nori Satoh unpublished cDNA library |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| Nori Satoh unpublished cDNA library, young adult Nori Satoh unpublished cDNA library, young adult |
|
0 clone(s) / 31,366 |
| Nori Satoh unpublished cDNA library, cleavage stage embryo Nori Satoh unpublished cDNA library, cleavage stage embryo |
|
0 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| Nori Satoh unpublished cDNA library, egg Nori Satoh unpublished cDNA library, egg |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| Nori Satoh unpublished cDNA library, larva Nori Satoh unpublished cDNA library, larva |
|
1 clone(s) / 26,704 |
| Nori Satoh unpublished cDNA library, tailbud embryo Nori Satoh unpublished cDNA library, tailbud embryo |
|
0 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| K. Inaba unpublished cDNA library, testis K. Inaba unpublished cDNA library, testis |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| Nori Satoh unpublished cDNA library, blood cells Nori Satoh unpublished cDNA library, blood cells |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| Nori Satoh unpublished cDNA library, endostyle Nori Satoh unpublished cDNA library, endostyle |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| Nori Satoh unpublished cDNA library, cleaving embryo Nori Satoh unpublished cDNA library, cleaving embryo |
|
0 clone(s) / 16,939 |
| Nori Satoh unpublished cDNA library, gastrula and neurula Nori Satoh unpublished cDNA library, gastrula and neurula |
|
0 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| Nori Satoh unpublished cDNA library, gonad Nori Satoh unpublished cDNA library, gonad |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| Nori Satoh unpublished cDNA library, neural complex Nori Satoh unpublished cDNA library, neural complex |
|
0 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| Nori Satoh unpublished cDNA library, heart Nori Satoh unpublished cDNA library, heart |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| Yutaka Satou unpublished cDNA library, adult digestive gland Yutaka Satou unpublished cDNA library, adult digestive gland |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| Yutaka Satou unpublished cDNA library, embryo whole animal Yutaka Satou unpublished cDNA library, embryo whole animal |
|
0 clone(s) / 17,872 |
| Yutaka Satou unpublished cDNA library, mature adult whole animal Yutaka Satou unpublished cDNA library, mature adult whole animal |
|
1 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) |
|
1 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) | |
63 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 :Pax6.
Expression pattern : No signal was detected
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | whole embryo - |
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 :Pax6.
Expression pattern : No distinct zygotic signal was detected
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | whole embryo - |
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 :Pax6.
Expression pattern : No distinct zygotic signal was detected
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | whole embryo - |
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 :Pax6.
Expression pattern : No distinct zygotic signal was detected
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | whole embryo - |
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 :Pax6.
Expression pattern : No distinct zygotic signal was detected
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
Vegetal view of a late gastrula stage wild type embryo probed for Pax6 expression.
Original annotation:
Pax6 was expressed in A9.16 and A9.30 cell pairs.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | A9.16 cell pair - A9.30 cell pair - |
Vegetal view of a late gastrula stage embryo probed for Pax6 expression, following the injection of Delta Like Mo.
Original annotation:
Expression was lost (white arrow).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | A9.16 cell pair - A9.30 cell pair - |
Dorsal view of a mid gastrula stage embryo probed for CiPax6 expression. Arrowheads show Ci-Pax6 expression in bilateral pair of A9.30 cells.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | A9.30 cell pair - |
Vegetal view of a late gastrula stage embryo probed for Pax6 expression following egg micro-injection of a FoxB MO. Pax6 was ectopically expressed in medial part of A-line.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | A line neural plate - |
Vegetal view of a late gastrula stage embryo probed for Pax6 expression following egg micro-injection of a Nodal MO. Pax6 is down-regulated in A-line nerve cord cells.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
Vegetal view of a late gastrula stage embryo probed for Pax6 expression following egg micro-injection of a SoxC MO. Pax6 is ectopically expressed in medial part of A-line nerve cord cells.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | A10.27 cell pair - A10.28 cell pair - A10.31 cell pair - A10.32 cell pair - A9.30 cell pair - |
Vegetal view of a late gastrula stage embryo probed for Pax6 expression following egg micro-injection of a ZicL MO. Pax6 is down-regulated in A-line nerve cord cells.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
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 :Pax6.
Expression pattern : nervous system.
Comment : A9.16, A9.30
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | A10.31 cell pair - A10.32 cell pair - A9.30 cell pair - |
Expression of CiPax6 at early neurula stage.
Original annotation: CiPax6 was expressed as a series of spots in the neural plate at early neurulae.
Aniseed annotation: it seems that the signal is localized in the precursors of the tail nerve cord and in the precursors of the anterior sensory vesicle.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | b9.37 cell pair - row III neural plate - row II neural plate - row I neural plate - row IV neural plate - |
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 :Pax6.
Expression pattern : nervous system.
Aniseed annotation :
4 lateral cells of the SV part of the a-line neural plate, then the chevron type of pattern is unclear. Rosterior A-line nerve cord expression.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | a10.97 cell pair - a10.98 cell pair - a9.50 cell pair - A line neural plate - |
Dorsal view of a mid neurula stage embryo probed for CiPax6 expression.
Original annotation:
Ci-Pax6 expression is shown in bilateral strips of neuroectoderm.
Aniseed annotation:
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | A10.59 cell pair - A10.60 cell pair - |
Lateral view of the motor ganglion of a WT Ciona robusta early tailbud embryo probed for Pax6 expression (red) and electroporated with Fgf8/17/18>LacZ reporter construct (green nuclei).
Pax6 is strongly expressed in A11.119 motor neuron precursor (arrowhead).
Original comment: Nuclei of the A9.30 lineage are visualized by immunofluorescence detection of nuclear β-galactosidase reporter (green) driven by the FGF8/17/18 driver (cf diagram).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | visceral ganglion - |
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 :Pax6.
Expression pattern : nervous system, nerve cord.
Comment : brain and nerve cord
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail nerve cord - |
Dorsal view of an early tailbud stage wild type embryo probed for Pax6 expression.
Red and yellow arrowheads indicate boundaries between the neck and the visceral ganglion, and between the visceral ganglion and the caudal nerve cord, respectively.
Original Annotation :
Pax6 expression was detected in A11.119 cell pair (anterior visceral ganglion) and in A11.116, A11.115, A11.126-8 cell pairs (lateral nerve cord).
Aniseed Annotation :
According to the picture, it seems that there is also expression in the anterior sensory vesicle.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - lateral TNC ependymal precursors - visceral ganglion - |
Dorsal view of an early tailbud stage embryo probed for Pax6 expression following the injection of Snail MO.
Red and yellow arrowheads indicate boundaries between the neck and the visceral ganglion, and between the visceral ganglion and the caudal nerve cord, respectively.
Original Annotation :
Expression in the anterior visceral ganglion and lateral nerve cord was lost (white arrow).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - lateral TNC ependymal precursors - neck - visceral ganglion - |
Dorsal view of an early tailbud stage embryo probed for Pax6 expression, following the injection of Emc MO.
Red and yellow arrowheads indicate boundaries between the neck and the visceral ganglion, and between the visceral ganglion and the caudal nerve cord, respectively.
Original Annotation :
Ectopic expression was observed in the posterior sensory vesicle and in the neck (black arrow).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - lateral TNC ependymal precursors - neck - posterior sensory vesicle - visceral ganglion - |
Dorsal view of an early tailbud stage embryo probed for Pax6 expression, following the injection of Pax6 MO.
Red and yellow arrowheads indicate boundaries between the neck and the visceral ganglion, and between the visceral ganglion and the caudal nerve cord, respectively.
Original Annotation :
Ectopic expression was observed in A11.118 and A11.117 cell pairs (visceral ganglion) (black arrow).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - lateral TNC ependymal precursors - visceral ganglion - |
Dorsal and lateral views of an early tailbud stage embryo probed for CiPax6 expression. Ci-Pax6 expression is in entire anterior-posterior lenght of the nascent CNS.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - |
Expression of CiPax6 at early tailbub stage.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail nerve cord - |
Lateral view of the motor ganglion of a WT Ciona robusta early tailbud embryo probed for Pax6 expression (green) and electroporated with FGF8/17/18>mCherry reporter construct (red).
Pax6 is expressed in A11.119 motor neuron precursor (arrowhead) and in A9.29 progeny.
The A9.30 lineage is visualized using the FGF8/17/18 reporter construct (red nuclei, diagram)
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | visceral ganglion - |
Lateral view of the motor ganglion of a Ciona robusta early tailbud embryo probed for Pax6 expression (green) and electroporated with FGF8/17/18>mCherry reporter construct (red) and FGF8/17/18>Su(H)-DBM overexpression construct.
Pax6 expression is lost in A11.119 (unfilled arrowhead) but maintained in A9.29 progeny.
The A9.30 lineage is visualized using the FGF8/17/18 reporter construct (red nuclei).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
Double in situ with CiPax3/7 in red and CiPax6 in blue. Red arrows indicate the positions of three patches of CiPax3/7 expression, note the overlap of the anterior two patches with CiPax6 expression.
Original annotation: The first two band of CiPax3/7 in the brain correspond to the anterior and posterior boundaries of the anterior patches CiPax6 expression, while the posterior band of CiPax3/7 is anterior but adjaent t othe more posterior domain of CiPax6.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - neck - posterior sensory vesicle - visceral ganglion - |
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 :Pax6.
Expression pattern : nervous system, nerve cord.
Comment : brain and nerve cord.
Aniseed annotation :
Aditional staining is detected in the palps region and in a couple of neurones in the visceral ganglion.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail nerve cord - visceral ganglion - |
Mid tailbud stage wild type embryo probed for Pax6 expression, in the visceral ganglion. No picture available in the article.
Original Annotation :
Pax6 expression was detected in A12.240, A13.473 and A12.239 cell pair (visceral ganglion).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | visceral ganglion - |
Dorsal and lateral views of a mid tailbud stage embryo. CiPax6 transcript expression visualized by whole-mount in situ hybridization.Ci-Pax6 expression is detected on the sensory vesicle (arrow) and nerve cord, but has become down-regulated in the forming visceral ganglion (brackets).
The last picture is an optical section through a mid-tailbud embryo showing transcripts detected in the two lateral cells ranks of the nerve cord (arrows) which consists of only 4 ependymal cells in cross-section, one dorsal, one ventral and two lateral.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail nerve cord - |
Dorsal and lateral views of a late tailbud stage embryo. CiPax6 transcript expression visualized by whole-mount in situ hybridization.Ci-Pax6 expression is detected in visceral ganglion, sensory vesicle and tail nerve cord.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail nerve cord - visceral ganglion - |
Expression of CiPax6 at mild tailbub stage.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail nerve cord - |
Lateral view of a mid tailbud stage embryo. Deletion of 211 bp containing the UA CNE (Conserved non-coding element), named CiP6-1.8U in the paper, results in loss of most CNS expression except for slight expression in the caudal nerve cord (arrowheads). Ectopic expression in mesenchyme appears in this truncated construct (arrows).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | tail nerve cord - |
Lateral view of a mid tailbud stage embryo. This contruct containing intron 1 fragment connected with 200 bp of basal sequence promoter (named CiP6-0.2U/1 in the paper) drives expression of Ci-Pax6 in the central sensory vesicle.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) |
Lateral view of a mid tailbud stage embryo. The construct contained 0.2kb upstream region and intron 4 (named CiP6-0.2U/4 in the paper) is able to drive no Ci-Pax6 expression.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
This contruct, named CiP6-0.6U in the paper, drives no expression in CNS and no ectopic expression at tailbud stage. No picture available in the paper.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
Lateral view of a mid tailbud stage embryo. A construct with 2436bp of upstream sequence and the intron 4 (named CiP6-2.5U/4 in the paper) is able to drive expression of Ci-Pax6 in sensory vesicle, neck and part of tail nerve cord (arrowhead).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - neck - posterior sensory vesicle - tail nerve cord - |
Lateral view of a mid tailbud stage embryo. This construct containing 2.5kb upstream region, intron 1 and intron 4 (named CiP6-2.5U/1/4 in the paper) is able to drive expression of Ci-Pax6 in the entire CNS (showed by arrowheads) and in 2 muscle cells derived from A8.16 lineage (showed by arrows).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - posterior secondary muscle lineage (A9.31 line) - |
Lateral view of a mid tailbud stage embryo. This construct contained 2.5kb upstream region, intron 1 and intron 4 (named CiP6-2.5U/1/4 in the paper) is able to drive expression of Ci-Pax6 in the entire CNS.
Expression is reduced in neck and anterior visceral ganglion in transgenes incorporated intron 4 (showed by brackets).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - |
Lateral view of a mid tailbud stage embryo. Construct with 2.5 kb upstream region and entire intron 1 (named CiP6-2.5U/1 in the paper) is able to drive expression of Ci-pax6 in the entire CNS. Ectopic expression is also detected in lineage A8.16 muscle cells (arrows int he picture).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - posterior secondary muscle lineage (A9.31 line) - |
Lateral view of a mid tailbud stage embryo. Construct with 2.5 kb upstream region and entire intron 1 (named CiP6-2.5U/1 in the paper) is able to drive expression of Ci-pax6 in the entire CNS.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - |
Lateral view of a mid tailbud stage embryo. A construct with 2436bp of upstream sequence ( named CiP6-2.5U in the paper) is able to drive expression of Ci-Pax6 in the entire CNS.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - |
Lateral view of a mid tailbud stage embryo. Addition of the distal sequence containing the UB CNE (Conserved Non-coding Element) to the 1.8U contruct (named CiP6-UB1.8U in the paper) results in gain of some sensory vesicle expression (white arrowheads) in addition to the low level expression in the nerve cord (arrowhead).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail nerve cord - |
Lateral view of a mid tailbud stage embryo. The UB element in combination with a short 600bp element of upstream sequence including the basal promoter (named CiP6-UB0.6U in the paper) is inactive in the CNS.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
Lateral view of a mid tailbud stage embryo. The construct with 1986 bp of upstream sequence (named CiP6-UA2.0U in the paper) results in specific expression int the sensory vesicle (SV). Arrowheads show sporadic expression in the caudal nerve cord.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - tail nerve cord - |
Lateral view of a late tailbud stage embryo. This contruct containing intron 1 fragment connected with 200 bp of basal sequence promoter (named CiP6-0.2U/1 in the paper) drives expression of Ci-Pax6 in the central sensory vesicle. Ectopic expression is also in trunk mesenchyme (showed by arrows).
The 2 last pictures show anti beta-gal immunofluorescent detection. White arrowhead indicate expression in photoreceptors.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | pigmented cell precursor (ocellus) - |
Lateral view of a late tailbud stage embryo. The construct contained 0.2kb upstream region and intron 4 (named CiP6-0.2U/4 in the paper) is able to drive Ci-Pax6 expression in trunk mesenchyme.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) |
Lateral views of late tailbud stage embryo. A construct contained 1.8kb of upstream of sequence and a part of this intron 1 (named CiP6-1.8U/1AB in the paper) is able to drive expression of Ci-Pax6 in ventral and caudal portions of the sensory vesicle.
The 2 last pictures show anti beta-gal immunofluorescent detection.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - |
Lateral view of a late tailbud stage embryo. Deletion of 211 bp containing the UA CNE (Conserved non-coding element), named CiP6-1.8U in the paper, results in loss of most CNS expression. Ectopic expression in mesenchyme appears in this truncated construct (arrows).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) |
Lateral views of late tailbud stage embryo. A construct contained 1.8kb of upstream of sequence and distal 300bp of intron 1 containing the I1C CNE (named CiP6-1.8U/1C in the paper) is able to drive expression of Ci-Pax6 in sensory vesicle.
The 2 last pictures show anti beta-gal immunofluorescent detection.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - |
Lateral view of a late tailbud stage embryo.A construct with 2436bp of upstream sequence and the intron 4 (named CiP6-2.5U/4 in the paper) is able to drive expression of Ci-Pax6 in sensory vesicle, neck and part of tail nerve cord.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - neck - posterior sensory vesicle - tail nerve cord - |
Lateral view of a late tailbud stage embryo. This construct containing 2.5kb upstream region, intron 1 and intron 4 (named CiP6-2.5U/1/4 in the paper) is able to drive expression of Ci-Pax6 in the entire CNS (showed by arrowheads) and in 2 muscle cells derived from A8.16 lineage (showed by arrows).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - posterior secondary muscle lineage (A9.31 line) - |
Lateral view of a late tailbud stage embryo. This construct contained 2.5kb upstream region, intron 1 and intron 4 (named CiP6-2.5U/1/4 in the paper) is able to drive expression of Ci-Pax6 in the entire CNS.
Expression is reduced in neck and anterior visceral ganglion in transgenes incorporated intron 4. At this stage, this expression is also represses in nerve cord (showed by arrows).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - visceral ganglion - |
Lateral view of a late tailbud stage embryo. Construct with 2.5 kb upstream region and entire intron 1 (named CiP6-2.5U/1 in the paper) is able to drive expression of Ci-pax6 in the entire CNS. Ectopic expression is also detected in lineage A8.16 muscle cells (arrows in the picture) (sv, sensory vesicle; vg, visceral ganglion).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - posterior secondary muscle lineage (A9.31 line) - |
Lateral view of a late tailbud stage embryo. Construct with 2.5 kb upstream region and entire intron 1 (named CiP6-2.5U/1 in the paper) is able to drive expression of Ci-pax6 in the entire CNS.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - |
Lateral view of a late tailbud stage embryo. A construct with 2436bp of upstream sequence ( named CiP6-2.5U in the paper) is able to drive expression of Ci-Pax6 in the entire CNS, as well as ectopic expression in epidermis ( shown by arrows).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | central nervous system - epidermis - |
Lateral view of a late tailbud stage embryo. Addition of the distal sequence containing the UB CNE (Conserved Non-coding Element) to the 1.8U contruct (named CiP6-UB1.8U in the paper) results in gain of some sensory vesicle expression (white arrowheads) in addition to the low level expression in the nerve cord. This construct exhibits some ectopic expression in tail muscle cells at late stages (arrows).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - tail muscles - tail nerve cord - |
Lateral view of a late tailbud stage embryo. The UB element in combination with a short 600bp element of upstream sequence including the basal promoter (named CiP6-UB0.6U in the paper) is inactive in the CNS, exhibit only ectopic expression in trunk mesenchyme (arrows).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) |
Right lateral view of late tailbud embryo with CiP6-2.0U transgene expression detected with an anti-lacZ antibody. Expression can be seen in the sensory vesicle surrounding the pigmented otolith and ocellus. A cell in the caudal visceral ganglion also reacts with the lacZ antibody (white arrowhead).
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - visceral ganglion - |
Lateral view of a late tailbud stage embryo. The construct with 1986 bp of upstream sequence (named CiP6-UA2.0U in the paper) results in specific expression in the sensory vesicle.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - posterior sensory vesicle - |
Original annotation :Dorsal view of the head of a tailbud embryo electroporated with Pax6_ciCNE2. Reporter expression (arrow, blue stain) is confined to the sensory vesicle.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | anterior sensory vesicle - |
Expression of CiPax6 at larval stage.
| Stained molecule | KH2012:KH.C9.68 (PAX3; PAX4; PAX6) |
| Stained region(s) | No expression - |
