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A chicken embryo gene expression database

	Anatomical Location
	Stage
	Gene Name
	GEISHA ID
	Multiple Parameters

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RARB
retinoic acid receptor beta

Gene

Official Symbol	RARB
Official Full Name	retinoic acid receptor beta
CGNC ID	8589
also known as	RARBETA, retinoic acid receptor beta\|RAR-beta\|nuclear receptor subfamily 1 group B member 2\|retinoic acid receptor beta 2\|retinoic acid receptor beta4'\|retinoic acid receptor beta4M\|retinoic acid receptor beta4M', Retinoic acid receptor beta
gene type	protein-coding

Genomic Map

	Ensembl
	NCBI
	UCSC
	Gallus-Browse

Sequence Information

Genomic
RNA	NM_205326
Polypeptide	NP_990657
Sequence Clusters/ESTs	Unigene

Gene Expression

In Situ Hybridization	GEISHA
EST Profile	Gga.51498

Orthology

	Entrez Gene	Ensembl Gene	Genetic Phenotypes	MOD
Fruit Fly
Human	5915	ENSG00000077092		MIM:180220
Mouse	218772	ENSMUSG00000017491	All phenotypic alleles (6):Targeted, knock-out(4) Targeted, other(2)	MGI:97857
Xenopus	100488600, 100049144, 100485387, 397983			481008, 484126
Zebrafish	30606	ENSDARG00000034117	ZDB-GENE-980526-531	ZFIN:ZDB-GENE-980526-531

Gene Ontology

Molecular Function	retinoic acid receptor activity, sequence-specific DNA binding, steroid hormone receptor activity, more...zinc ion binding
Biological Process	beak morphogenesis, limb morphogenesis, response to retinoic acid
Cellular Component	nucleus

Links to other databases

Entrez Gene	396266
Ensembl Gene	ENSGALG00000011298
KEGG	gga:396266

Entry 1

GEISHA Id	RARb2.Cui.2003	Data Source	GEISHA ISH Analysis
Complete cDNA Template Probe	show `CCAACAGCCTACGTGCCAAAAAAGGGGCAGAGTTTGATGGAGTTGGGTGTACTTTTATGTGCCATTTTCCTCCACACCT AGAGGAAAGCACTTTTGCAGGCATTCTGTACAGGGGGAATCATGTTTGACTGTATGGATGTTCTAGCAGTGAGCCCTGC TCAGATGCTGGATTTCTACACTGCGAGTCGGTGTTCCTGCATGC`
Comments	Antisense riboprobes were prepared from chicken RARβ2 (nt 1202) [Noji et al 1991]. Sequence here was taken from this source.

Stage

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Location (click to highlight)

Comments (click to highlight)

4-6

stage 5

stage 6

Lateral Plate Mesoderm

Comparison of several genes.

7-10

stage 7

stage 8

stage 9

stage 10

Heart Tube
Lateral Plate Mesoderm
Neural Crest
Paraxial Mesoderm
Sinus Venosus
Splanchnic Mesoderm
Surface Ectoderm

Cardiogenic region
Comparison of several genes.
Precardiac mesoderm and endoderm

Entry 2

GEISHA Id	Rar.Rodriguez-Guzman.2007	Data Source	Publication
Complete cDNA Template Probe	show CGGCGGCGGGAGGGGCGGCCGCGGAGGATGTCAGACTGGCCTAGGACTTTGAAAACTACCCCATTGTCAAGCTCCCTCT GAGCTGCTTCCAGCCCTCAGGAGCGAAGGTAGAGTTAAGGCGACTCCATCAGTATGCATCTGTAGAGAGCAACTATCCT CACAGAAAAACATTTGAATAAACAACTGAATGGTGGTCTGAGACACGGACTAAGACAACTTTCTGTCCACAGTCTTCAG AGCAGGAATGTCTGGACAAGAGAACAGTAGGAAGCAGCAATGAAATATAGGACGGGACTGATCTAGTGAATTACCTCTT CACCATCACACAGTCCAGCTCAAGCCACACCTGCAGGCTTGACAGCCCTCTCCATTTACAAGTTCAAGTATCTGCTTGC TGGCCTGGAGTGATGCAACATATTATTTATACACTGTGAGCTATTAACATGACAACCAGCAGCCGCACATGTCCAGTGC CGGCAGTGAATGGACATATGACTCACTACCCAGCAGCTCCATACCCGTTACTTTTTCCTCCAGTCATCGGTGGGCTGTC GCTGCCTTCCCTTCATGGACTCCAGAGTCACCCACCAACGAGCGGATGCAGCACCCCATCACCTGCAACAGTTGAAACT CAGAGCACCAGTTCTGAGGAACTTGTTCCAAGCCCTCCTTCACCACTTCCACCCCCGCGTGTTTACAAGCCCTGTTTTG TCTGTCAAGACAAATCATCTGGATATCACTATGGTGTCAGTGCTTGTGAGGGATGTAAGGGCTTTTTCCGCAGGAGTAT CCAGAAGAACATGGTTTACACATGTCATAGAGATAAGAACTGTGTTATCAATAAAGTTACCAGAAATCGCTGCCAGTAC TGCAGACTACAGAAGTGCTTTGAAGTGGGAATGTCCAAAGAATCTGTCAGAAATGATAGGAACAAAAAGAAGAAGGAAC CTACAAAGCAGGAGTCCACAGAAAACTATGAAATGACAGCAGAGCTGGATGATCTCACTGAGAAGATCCGAAAAGCTCA CCAGGAAACCTTCCCCTCGCTCTGCCAGCTGGGAAAGTACACTACAAACTCGAGTGCAGACCATCGGGTTCGACTGGAC CTTGGGCTCTGGGACAAATTCAGTGAACTTGCAACAAAGTGCATTATTAAAATAGTGGAATTTGCAAAACGATTGCCAG GCTTTACAAGCTTGACCATTGCAGACCAGATAACTCTACTTAAAGCAGCCTGCCTGGACATACTGATCCTCAGAATTTG CACAAGATACACACCAGAACAAGACACCATGACATTTTCAGATGGCCTTACCCTGAACCGAACTCAGATGCACAATGCT GGATTTGGCCCCCTGACCGACCTCGTGTTCACCTTTGCCAACCAGCTCCTGCCTTTGGAAATGGATGACACAGAAACCG GTCTCCTTAGTGCCATCTGCTTGATCTGTGGAGATCGCCAGGACCTTGAAGAACCAATGAAAGTGGATAAGCTTCAGGA ACCGTTGCTTGAAGCGCTGAAAATCTATATCCGAAAGAGACGACCCAACAAGCCTCACATGTTTCCAAAGATCTTAATG AAAATCACAGATCTTCGTAGCATCAGTGCAAAAGGTGCAGAACGTGTCATTACGTTGAAAATGGAAATTCCTGGATCCA TGCCACCTCTTATTCAAGAAATGTTGGAGAACTCTGAAGGACACGAACCACTGACACCAACCTCAAATGGAAATACTGC AGAACACAGTCCGAGTATCTCACCGAGCTCAGTGGATAACAGCAGTGTCAGTCAATCCCCTATGGTGCAATAAGACATT TTCCAGCTACTTCAGACATTCCTAACACCTTATGTACAGGGATGAAAAGCAAGAAAAACATTTTTACTGCTGCTTACTT TCTGGACTTAATATATATCTATATATGTATATATATATATATAGATAAAAACTCAACAAGGACCAAGAAATTTTCGTAT GTATCAATATATACTCCTTGCTGTTTAA
Citation	Rodriguez-Guzman m, Montero JA, Santesterban E, Gañan Y, Macias D, Hurle JM. Tendon-muscle crosstalk controls muscle bellies morphogenesis, which is mediated by cell death and retinoic acid signaling. Dev Biol. 2007 Feb 1;302(1):267-80.
Copyright	Reprinted with permission from Elsevier. Copyright © 2007 Elsevier B.V. All rights reserved.
Comments	Authors state the probe was obtained from U. Albrecht. As information provided is insufficient to verify exact sequence used to synthesize the probe, the sequence below was obtained from NCBI (Acc # NM_205326.1)

Stage

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31-32

stage 32

Leg Mesenchyme

Entry 3

GEISHA Id	RARBETA.Bayha.2009	Data Source	Publication
Complete cDNA Template Probe	show CGGCGGCGGGAGGGGCGGCCGCGGAGGATGTCAGACTGGCCTAGGACTTTGAAAACTACCCCATTGTCAAGCTCCCTCT GAGCTGCTTCCAGCCCTCAGGAGCGAAGGTAGAGTTAAGGCGACTCCATCAGTATGCATCTGTAGAGAGCAACTATCCT CACAGAAAAACATTTGAATAAACAACTGAATGGTGGTCTGAGACACGGACTAAGACAACTTTCTGTCCACAGTCTTCAG AGCAGGAATGTCTGGACAAGAGAACAGTAGGAAGCAGCAATGAAATATAGGACGGGACTGATCTAGTGAATTACCTCTT CACCATCACACAGTCCAGCTCAAGCCACACCTGCAGGCTTGACAGCCCTCTCCATTTACAAGTTCAAGTATCTGCTTGC TGGCCTGGAGTGATGCAACATATTATTTATACACTGTGAGCTATTAACATGACAACCAGCAGCCGCACATGTCCAGTGC CGGCAGTGAATGGACATATGACTCACTACCCAGCAGCTCCATACCCGTTACTTTTTCCTCCAGTCATCGGTGGGCTGTC GCTGCCTTCCCTTCATGGACTCCAGAGTCACCCACCAACGAGCGGATGCAGCACCCCATCACCTGCAACAGTTGAAACT CAGAGCACCAGTTCTGAGGAACTTGTTCCAAGCCCTCCTTCACCACTTCCACCCCCGCGTGTTTACAAGCCCTGTTTTG TCTGTCAAGACAAATCATCTGGATATCACTATGGTGTCAGTGCTTGTGAGGGATGTAAGGGCTTTTTCCGCAGGAGTAT CCAGAAGAACATGGTTTACACATGTCATAGAGATAAGAACTGTGTTATCAATAAAGTTACCAGAAATCGCTGCCAGTAC TGCAGACTACAGAAGTGCTTTGAAGTGGGAATGTCCAAAGAATCTGTCAGAAATGATAGGAACAAAAAGAAGAAGGAAC CTACAAAGCAGGAGTCCACAGAAAACTATGAAATGACAGCAGAGCTGGATGATCTCACTGAGAAGATCCGAAAAGCTCA CCAGGAAACCTTCCCCTCGCTCTGCCAGCTGGGAAAGTACACTACAAACTCGAGTGCAGACCATCGGGTTCGACTGGAC CTTGGGCTCTGGGACAAATTCAGTGAACTTGCAACAAAGTGCATTATTAAAATAGTGGAATTTGCAAAACGATTGCCAG GCTTTACAAGCTTGACCATTGCAGACCAGATAACTCTACTTAAAGCAGCCTGCCTGGACATACTGATCCTCAGAATTTG CACAAGATACACACCAGAACAAGACACCATGACATTTTCAGATGGCCTTACCCTGAACCGAACTCAGATGCACAATGCT GGATTTGGCCCCCTGACCGACCTCGTGTTCACCTTTGCCAACCAGCTCCTGCCTTTGGAAATGGATGACACAGAAACCG GTCTCCTTAGTGCCATCTGCTTGATCTGTGGAGATCGCCAGGACCTTGAAGAACCAATGAAAGTGGATAAGCTTCAGGA ACCGTTGCTTGAAGCGCTGAAAATCTATATCCGAAAGAGACGACCCAACAAGCCTCACATGTTTCCAAAGATCTTAATG AAAATCACAGATCTTCGTAGCATCAGTGCAAAAGGTGCAGAACGTGTCATTACGTTGAAAATGGAAATTCCTGGATCCA TGCCACCTCTTATTCAAGAAATGTTGGAGAACTCTGAAGGACACGAACCACTGACACCAACCTCAAATGGAAATACTGC AGAACACAGTCCGAGTATCTCACCGAGCTCAGTGGATAACAGCAGTGTCAGTCAATCCCCTATGGTGCAATAAGACATT TTCCAGCTACTTCAGACATTCCTAACACCTTATGTACAGGGATGAAAAGCAAGAAAAACATTTTTACTGCTGCTTACTT TCTGGACTTAATATATATCTATATATGTATATATATATATATAGATAAAAACTCAACAAGGACCAAGAAATTTTCGTAT GTATCAATATATACTCCTTGCTGTTTAA
Citation	Bayha E, Jørgensen MC, Serup P, Grapin-Botton A. Retinoic acid signaling organizes endodermal organ specification along the entire antero-posterior axis. PLoS One. 2009 Jun 10;4(6):e5845.
Copyright	http://creativecommons.org/licenses/by/2.5/
Comments	As insufficient information is provided in publication to verify exact sequence used to synthesize probe, the sequence below was obtained from NCBI (acc #NM_205326).

Stage

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Location (click to highlight)

Comments (click to highlight)

7-10

stage 10

Anterior Intestinal Portal
Endoderm
Gut
Neural Plate/Tube

Entry 4

GEISHA Id	RARB.Mercader.2000	Data Source	Publication
Complete cDNA Template Probe	show CGGCGGCGGGAGGGGCGGCCGCGGAGGATGTCAGACTGGCCTAGGACTTTGAAAACTACCCCATTGTCAAGCTCCCTCT GAGCTGCTTCCAGCCCTCAGGAGCGAAGGTAGAGTTAAGGCGACTCCATCAGTATGCATCTGTAGAGAGCAACTATCCT CACAGAAAAACATTTGAATAAACAACTGAATGGTGGTCTGAGACACGGACTAAGACAACTTTCTGTCCACAGTCTTCAG AGCAGGAATGTCTGGACAAGAGAACAGTAGGAAGCAGCAATGAAATATAGGACGGGACTGATCTAGTGAATTACCTCTT CACCATCACACAGTCCAGCTCAAGCCACACCTGCAGGCTTGACAGCCCTCTCCATTTACAAGTTCAAGTATCTGCTTGC TGGCCTGGAGTGATGCAACATATTATTTATACACTGTGAGCTATTAACATGACAACCAGCAGCCGCACATGTCCAGTGC CGGCAGTGAATGGACATATGACTCACTACCCAGCAGCTCCATACCCGTTACTTTTTCCTCCAGTCATCGGTGGGCTGTC GCTGCCTTCCCTTCATGGACTCCAGAGTCACCCACCAACGAGCGGATGCAGCACCCCATCACCTGCAACAGTTGAAACT CAGAGCACCAGTTCTGAGGAACTTGTTCCAAGCCCTCCTTCACCACTTCCACCCCCGCGTGTTTACAAGCCCTGTTTTG TCTGTCAAGACAAATCATCTGGATATCACTATGGTGTCAGTGCTTGTGAGGGATGTAAGGGCTTTTTCCGCAGGAGTAT CCAGAAGAACATGGTTTACACATGTCATAGAGATAAGAACTGTGTTATCAATAAAGTTACCAGAAATCGCTGCCAGTAC TGCAGACTACAGAAGTGCTTTGAAGTGGGAATGTCCAAAGAATCTGTCAGAAATGATAGGAACAAAAAGAAGAAGGAAC CTACAAAGCAGGAGTCCACAGAAAACTATGAAATGACAGCAGAGCTGGATGATCTCACTGAGAAGATCCGAAAAGCTCA CCAGGAAACCTTCCCCTCGCTCTGCCAGCTGGGAAAGTACACTACAAACTCGAGTGCAGACCATCGGGTTCGACTGGAC CTTGGGCTCTGGGACAAATTCAGTGAACTTGCAACAAAGTGCATTATTAAAATAGTGGAATTTGCAAAACGATTGCCAG GCTTTACAAGCTTGACCATTGCAGACCAGATAACTCTACTTAAAGCAGCCTGCCTGGACATACTGATCCTCAGAATTTG CACAAGATACACACCAGAACAAGACACCATGACATTTTCAGATGGCCTTACCCTGAACCGAACTCAGATGCACAATGCT GGATTTGGCCCCCTGACCGACCTCGTGTTCACCTTTGCCAACCAGCTCCTGCCTTTGGAAATGGATGACACAGAAACCG GTCTCCTTAGTGCCATCTGCTTGATCTGTGGAGATCGCCAGGACCTTGAAGAACCAATGAAAGTGGATAAGCTTCAGGA ACCGTTGCTTGAAGCGCTGAAAATCTATATCCGAAAGAGACGACCCAACAAGCCTCACATGTTTCCAAAGATCTTAATG AAAATCACAGATC
Citation	Mercader N, Leonardo E, Piedra ME, Martínez-A C, Ros MA, Torres M. Opposing RA and FGF signals control proximodistal vertebrate limb development through regulation of Meis genes. Development. 2000 Sep;127(18):3961-70.
Copyright	© The Company of Biologists Limited 2000
Comments	The sequence below was obtained from NCBI (acc #: NM_205326.1 - Showing 1.59kb region up to base 1593) using the information provided in the publication.

Stage

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Location (click to highlight)

Comments (click to highlight)

13-18

stage 17

Limb Buds

left side = control side
right side = RAA +FGF8

19-22

stage 21

stage 22

Limb Buds

left side = control side
right side = -RAA
right side = FGF1 bead
right side = FGF8 bead

Entry 5

GEISHA Id	RARB.Trevers.2023	Data Source	GEISHA ISH Analysis
Complete cDNA Template Probe	show GAGAACTCTGAAGGACACGAACCACTGACACCAACCTCAAATGGAAATACTGCAGAACACAGTCCGAGTATCTCACCGA GCTCAGTGGATAACAGCAGTGTCAGTCAATCCCCTATGGTGCAATAAGACATTTTCCAGCTACTTCAGACATTCCTAAC ACCTTATGTACAGGGATGAAAAGCAAGAAAAACATTTTTACTGCTGCTTACTTTCTGGACTTAATATATATCTATATAT GTATATATATATATAGATAAAAACTCAACAAGGACCAAGAAATTTTCGTATGTATCAATATATACTCCTTGCTGTTTAA ACTCTTAAAATAGAAAATGCAAACTTTTGAAACTCTAAATCAGCCATTTCATGCAAAAAAAAAAAATAGTTAAGCTTCT GTTTCCTCTTCTGAACGTTCAAGACTGCTTGGTGACAAAGACAGATCTCAAACTTTAAATTCTGGTTGCATTTCTGATG ACTTGTGTACATACAGATGTATGGCTGTACTTTCTGTACTGGGATGNTTGGGCTTCCCTTCTGTCTCTCATACCTAAAA CGATCAAGACACCAACCAGCTGAAATGGACTACTGTACACATCCAGAAAAG
Comments	The complete cDNA template sequence was obtained from the information from the publication as described in Trevers et al. 2023.