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A chicken embryo gene expression database

	Anatomical Location
	Stage
	Gene Name
	GEISHA ID
	Multiple Parameters

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IRX4
iroquois homeobox 4

Gene

Official Symbol	IRX4
Official Full Name	iroquois homeobox 4
BirdBase ID	BB-GG4984
CGNC ID	15827
also known as	iroquois-class homeodomain protein IRX-4\|iroquois homeobox protein 4
gene type	protein-coding

Genomic Map

	Ensembl ID not known
	NCBI
	UCSC
	Gallus-Browse

Sequence Information

Genomic
RNA	NM_001001744
Polypeptide	NP_001001744
Sequence Clusters/ESTs	Unigene

Gene Expression

In Situ Hybridization	GEISHA
EST Profile	Gga.416

Orthology

	Entrez Gene	Ensembl Gene	Genetic Phenotypes	MOD
Fruit Fly
Human	50805	ENSG00000113430		MIM:606199
Mouse	50916	ENSMUSG00000021604	All phenotypic alleles (3):Targeted, knock-out(1) Targeted, other(2)	MGI:1355275
Xenopus	100038068, 779102, 100301956			480569
Zebrafish	402999, 474318	ENSDARG00000035648, ENSDARG00000036051	ZDB-GENE-040426-1825, ZDB-GENE-040712-4	ZFIN:ZDB-GENE-040426-1825, ZFIN:ZDB-GENE-040712-4

Gene Ontology

Molecular Function	sequence-specific DNA binding, sequence-specific DNA binding transcription factor activity
Biological Process	multicellular organismal development, transcription, DNA-templated
Cellular Component	nucleus

Links to other databases

Entrez Gene	373974
Ensembl Gene
KEGG	gga:373974

Entry 1

GEISHA Id	ChEST971m9	Data Source	GEISHA ISH Analysis
Complete cDNA Template Probe	show AAATNTATAGGGCGAATTGGAGCTCCACCGCGGTGGCGGCCGCGGCTCGAGGGGGATCGGCCGCCGCNNCCGTCTCCGC CCCGGTCAGCGTCATGGACCGGCACCAGGATTCGCCGGTCACCAACCTCAGGAACTGGGTGGACGGGGTGTTTCACGAC CCGCTGTTCAGGCACAGTACTTTGAATCAAGCCTTGAGCAACACCACGGTGTCCTGGGCCACCACCAAAGGAGCCATTC TGGAAACGGGCGCCTTGGGACGCTCGGTGGGCAATGGTGCCAACGTGCTCAAGGGGCAGCTGGCCAACCTGGCCCACCA GGACTCGAGCAAGGAGTTTCTCGCCTTTCCCAAAGCAGGGAGCAAAATGTTTTGCTCCTAACGGCCCCCCGAGGGGCAA AGAACTTCCCCGCGCTGGAAGAGTCATGTACACTGAAAAGAAACTCGCGAGAGTTGAAATATAAAACTTTTTCCTTTAT TCTTATTTTTCTTTTTTTTTTTTAACAACCAAAACGAGGATTTAACGTTCAGTTCGCTCAGCTCAACAGACACTGCTGT TCTGAAGAATTAATTTCTCCTGGCTGCGAATTCGATATCAAGCTTATCGATACCTCGACCCTCGAGGGGGGCCCNTTCN
Comments	No specific expression detected at or before stage 8.

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

7-12

stage 8

stage 9

stage 11

stage 12

Ear/Otic Placode
Heart Tube
Unlabeled

Dorsal view.
Stages 7 & 8.
Ventral view.

13-18

stage 15

stage 16

Heart

19-24

stage 20

stage 21

stage 23

stage 24

Heart
Ventricles

Entry 2

GEISHA Id	IRX4.López-Sánchez.2010	Data Source	Publication
Complete cDNA Template Probe	show AATCAATGCAATTATTGTCGGCGACGAGGACAACGATTGGAGTGGCAGCGCTAATTTTACCAACCCGCTATTAATTATG GTGTCCCCCACGCCCCAGCCGGCGTTTATAACGCGAGGAGGCGAGAGGCTCCGGCTGCCGCTGTTTTAAAAGGAAAAGT TGGGAGCCGAGCGCGTGGAAAGTGTTAATCGGCAGCGGAGCAGCGGAGCCGCGCTGGGACGTCACTAGGACAGGGGTGA GGGACGTGGTGGCGGCGGCGCCGGGGGAGCGGAGGCACTGCGCGCTGCCGTCAGGTGCCGCACGCTGAGAAATGCGCGC GGCGGCTCCGCGCAGCGATCCGCGCAGAGAGCGGGAGGAGAGGAGCGCTGCCATGGCACTGCGAGGCGCTAGCCGGAGC CGGGCGTGATCGCAGATCACCGGGAGCCTCTGGACCATGTCCTACCCGCAGTTCGGCTATCCCTACTCCTCCGCGCCCC AGTTCCTGATGAGCACCAACTCCCTGACGCCCTGCTGCGAGTCCGGCGGCCGCACGCTGCCCGAATCGGGCCCGGCCGC CCCAGCACAGACGCCGGTCTATTGTCCCGTCTACGAGAGCCGTCTGCTCGCCACCGCTCGCCACGAGCTCAACTCCGCC GCCGCTCTGGGGGTCTACGGCGGCCCCTACGGCGGCCCCCAGGGCTACGGGAACTACGTGACCTACGGCACCGAGGCGC CCGCCTTCTACTCTCTGAACACTTTGGAGGCGAAGGACGGCGGCGGCTCTGCGCATGCGGGCATCTCCCCGGCGGCTGC TTACTACCCCTACGAGCACAGCCTCAGCCAGTACCAGTACGACAGGTACGGGGCGATGGACGGCGGCACGCGGCGGAAG AACGCCACCCGGGAGACCACCAGCACGCTGAAGGCCTGGCTGCAGGAGCACCGCAAGAACCCCTACCCCACCAAGGGCG AGAAGATCATGCTGGCCATCATCACCAAGATGACTCTCACCCAGGTCTCCACCTGGTTTGCCAACGCCCGCCGCCGCCT CAAGAAGGAGAACAAGATGACGTGGCCGCCTCGGAACAAGTGCTCGGACGAGAAGCGGCCCTACGAAGAAGAGGAGGAG GAGGAGGAGGAATGCTCGCAGGAAGACGCCATGAAGAGCGAGAAGGCCGAGGAGCCCACGGGCAAGGAGGAGAAGGAGC TGGAGCTCAGCGACCTGGAGGATTTGGACGCCGCCGAGTCGGAGAGCTCCGAGTGCGAGATGAGGCGGCCCTTCCCGCA CCCGCATCCTCACCCGCTGCCGGGCGGCGGCCCCCCGCCCCGCGCCGCCGAGCCCCCCGCCGCCGCCGCCGAGGAGGAG GAGGAGGAGGCGGCGGAGAGGGCCCGCGGCTGCCTGAAGCCGGCGGCGGAGGAGTGCGAGGCGGCCCTGCTCGGGGCTC GGCCGCGCGGCTGCGAGGCCAAGCTGTGCTTCCCGCAGGGCCAGCCGCTGCTGGAGGCCAAGCCCCGCATCTGGTCCCT GGCGCACACCGCCACCTCCCTCAACCAGGCCGAGTACCCCTCCTGCATGCTGAAGCGGTCGGGGGGATCGGCCGCCGCC GCCGTCTCCGCCCCGGTCAGCGTCATGGACCGGCACCAGGATTCGCCGGTCACCAACCTCAGGAACTGGGTGGACGGGG TGTTTCACGACCCGCTGTTCAGGCACAGTACTTTGAATCAAGCCTTGAGCAACACCACGGTGTCCTGGGCCACCACCAA AGGAGCCATTCTGGAAACGGGCGCCTTGGGACGCTCGGTGGGCAATGGTGCCAACGTGCTCAAGGGGCAGCTGGCCAAC CTGGCCCACCAGGACTCGAGCAAGGAGTTTCTCGCCTTTCCCAAAGCAGGGAGCAAAATGTTTTGCTCCTAACGGCCCC CCGAGGGGCAAAGAACTTCCCCGCGCTGGAAGAGTCATGTACACTGAAAAGAAACTCGCGAGAGTTGAAATATAAAACT TTTTCCTTTATTCTTATTTTTCTTTTTTTTTTTTAACAACCAAAACGAGGATTTAACGTTCAGTTCGCTCAGCTCAACA GACACTGCTGTTCTGAAGAATTAATTTCTCCTGGCTGCGAATTCAAAGGGATCAGTGTCGTGAGAGTTATTTAATTCCA TGTCCCAAAGCACGGTACTATAGCGTAGACCTACTTAACAAAGTTTACATCCGAAAGTTTACAGACGAGAAATTTTAAT TCAGCTTTAATTTAAGGCATGCCGACATTAGTTATAAAGACTTTTCGAGAGTTTTTCCTCCTGATTTCCTTGTTAGCAT ATAATTCACAAACAGCACTTCCACTAAGTTTACACCTACTGCACAAATTTATCTTGACAAAAAAAAAAAAATGTTAAAG GGTATGTTCACTCCAATAAATGGTCTGTTTCAGAGGTAAAAAAAAA
Citation	López-Sánchez C, Bártulos O, Martínez-Campos E, Gañán C, Valenciano AI, García-Martínez V, De Pablo F, Hernández-Sánchez C. Tyrosine hydroxylase is expressed during early heart development and is required for cardiac chamber formation. Cardiovasc Res. 2010 Oct 1;88(1):111-20. Epub 2010 Jun 3.
Copyright	© The Author 2010.
Comments	Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (acc # NM_001001744).

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

7-12

stage 12

Heart Tube

control embryo - non-electroporated

Entry 3

GEISHA Id	IRX4.Anderson.2021	Data Source	Direct Submission
Complete cDNA Template Probe	show AGCTGTGCTTCCGCAGGNNCAGCCGCTGCTGGANGCCAANCCCCGCATCTGGTCCCTGGCGCACACCGCCACCTCCCTC NNCCAGGCCGAGTACCCTCCTGCATGCTGAAGCGGTCGGGGGGATCGGCCGCCGCCGCCGTCTCCGCCCCGGTCAGCGT CATGGACCGGCACCAGGATTCGCCGGTCACCAACCTCAGGAACTGGGTGGACGGGGTGTTTCACGACCCGCTGTTCAGG CACAGTACTTTGAATCAAGCCTTGAGCAACACCACGGTGTCCTGGGCCACCACCAAAGGAGCCATTCTGGAAACGGGCG CCTTGGGACGCTCGGTGGGCAATGGTGCCAACGTGCTCAAGGGGCAGCTGGCCAACCTGGCCCACCAGGACTCGAGCAA GGAGTTTCTCGCCTTTCCCAAAGCAGGGAGCAAAATGTTTTGCTCCTAACGGCCCCCCGAGGGGCAAAGAACTTCCCCG CGCTGGAAGAGTCATGTACACTGAAAAGAAACTCGCGAGAGTTGAAATATAAAACTTTTTCCTTTATTCTTATTTTTCT TTTTTTTTTTTAACAACCAAAACGAGGATTTAACGTTCAGTTCGCTCAGCTCAACAGACACTGCTGTTCTGAAGAATTA ATTTCTCCTGGCTGCGAATTCAAAGGGATCAGTGTCGTGAGAGTTATTTAATTCCATGTCCCAAAGCACGTACTATAGC GTAGACCTACTTAACAAAGTTTACATCCGAAAGTTTACAGACGAGAAATTTTAATTCAGCTTTAATTTAAGGCATGCCG ACATTAGTTATAAAGACTTTTCGAGAGTTTTTCCTCCTGATTTCCTTGTTAGCATATAATTCACAAACAGCACTTCCAC TAAGTTTACACCTACTGCACAAATTTATCTTGACAAAAAAAAAAAAATGTTAAAGGGTATGTTCACTCCAATAAATGGT CTGTTTCAGAGGTAAAAAAAAA
Comments	Images and probe sequence provided by Claire Anderson. Related paper: Anderson C, Hill B, Lu HC, Moverley A, Yang Y, Oliveira NMM, Baldock RA, Stern CD. A 3D molecular atlas of the chick embryonic heart. Dev Biol. 2019 Dec 1;456(1):40-46. doi: 10.1016/j.ydbio.2019.07.003. Epub 2019 Jul 5.

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

4-6

stage 5

stage 6

Unlabeled

HH5-

7-12

stage 7

stage 8

stage 9

stage 11

stage 12

Unlabeled
Ventricles

HH12+, ventral view
HH7-
HH8-
HH9+, ventral view
section 21
section 41
ventral view

13-14

stage 14

Ventricles

ventral view

Entry 4

GEISHA Id	IRX4.Anderson.2019	Data Source	Publication
Complete cDNA Template Probe	show GTGGTGGCGGCGGCGCCGGGGGAGCGGAGGCACTGCGCGCTGCCGTCAGGTGCCGCACGCTGAGAAATGCGCGCGGCGG CTCCGCGCAGCGATCCGCGCAGAGAGCGGGAGGAGAGGAGCGCTGCCATGGCACTGCGAGGCGCTAGCCGGAGCCGGGC GTGATCGCAGATCACCGGGAGCCTCTGGACCATGTCCTACCCGCAGTTCGGCTATCCCTACTCCTCCGCGCCCCAGTTC CTGATGAGCACCAACTCCCTGACGCCCTGCTGCGAGTCCGGCGGCCGCACGCTGCCCGAGTCGGGCCCGGCCGCCCCAG CACAGACGCCGGTCTATTGTCCCGTCTACGAGAGCCGCCTGCTCGCCACCGCTCGCCACGAGCTCAACTCCGCCGCCGC TCTGGGGGTCTACGGCGGCCCCTACGGCGGCCCCCAGGGCTACGGGAACTACGTGACCTACGGCACCGAGGCGCCCGCC TTCTACTCTCTGAACACTTTGGAGGCGAAGGACGGCGGCGGCTCTGCGCATGCGGGCATCTCCCCGGCGGCTGCTTACT ACCCGTACGAGCACAGCCTCAGCCAGTACCAGTACGACAGGTACGGGGCGATGGACGGCGGCACGCGGCGGAAGAACGC CACCCGGGAGACCACCAGCACGCTGAAGGCCTGGCTGCAGGAGCACCGCAAGAACCCCTACCCCACCAAGGGCGAGAAG ATCATGCTGGCCATCATCACCAAGATGACCCTCACCCAGGTCTCCACCTGGTTTGCCAACGCCCGCCGCCGCCTCAAGA AGGAGAACAAGATGACGTGGCCGCCTCGGAACAAGTGCTCGGACGAAAAGCGGCCCTACGAAGAAGAGGAGGAGGAGGA GGAGGAATGCTCGCAGGAAGACGCCATGAAGAGCGAGAAGGCCGAGGAGCCCACGGGCAAGGAGGAGAAGGAGCTGGAG CTCAGCGACCTGGAGGATTTGGACGCCGCCGAGTCGGAGAGCTCCGAGTGCGAGATGAGGCGGCCCTTCCCGCACCCGC ATCCTCACCCGCTGCCGGGCGGCGGCCCCCCGCCCCGCGCCGCCGAGCCCCCCGCCGCCGCCGCCGAGGAGGAGGAGGA GGAGGCGGCGGAGAGGGCCCGCGGCTGCCTGAAGCCGGCGGCGGAGGAGTGCGAGGCGGCCCTGCTCGGGGCTCGGCCG CGCGGCTGCGAGGCCAAGCTGTGCTTCCCGCAGGGCCAGCCGCTGCTGGAGGCCAAGCCCCGCATCTGGTCCCTGGCGC ACACCGCCACCTCCCTCAACCAGGCCGAGTACCCCTCCTGCATGCTGAAGCGGTCGGGGGGATCGGCCGCCGCCGCCGT CTCCGCCCCGGTCAGCGTCATGGACCGGCACCAGGATTCGCCGGTCACCAACCTCAGGAACTGGGTGGACGGGGTGTTT CACGACCCGCTGTTCAGGCACAGTACTTTGAATCAAGCCTTGAGCAACACCACGGTGTCCTGGGCCACCACCAAAGGAG CCATTCTGGAAACGGGCGCCTTGGGACGCTCGGTGGGCAATGGTGCCAACGTGCTCAAGGGGCAGCTGGCCAACCTGGC CCACCAGGACTCGAGCAAGGAGTTTCTCGCCTTTCCCAAAGCAGGGAGCAAAATGTTTTGCTCCTAACGGCCCCCCGAG GGGCAAAGAACTTCCCCGCGCTGGAAGAGTCATGTACACTGAAAAGAAACTCGCGAGAGTTGAAATATAAAACTTTTTC CTTTATTCTTATTTTTCTTTTTTTTTTTTTTAACAACCAAAACGAGGATTTAACGTTCAGTTCGCTCAGCTCAACAGAC ACTGCTGTTCTGAAGAATTAATTTCTCCTGGCTGCGAATTCAAAGGGATCAGTGTCGTGAGAGTTATTTAATTCCATGT CCCAAAGCACGTACTATAGCGTAGACCTACTTAACAAAGTTTACATCCGAAAGTTTACAGACGAGAAATTTTAATTCAG CTTTAATTTAAGGCATGCCGACATTAGTTATAAAGACTTTTCGAGAGTTTTTCCTCCTGATTTCCTTGTTAGCATATAA TTCACAAACAGCACTTCCACTAAGTTTACACCTACTGCACAAATTTATCTTGACAAAAAAAAAAAAAATGTTAAAGGGT ATGTTCACTCCAATAAATGGTCTGTTTCAGAGGTA
Citation	Anderson C, Hill B, Lu HC, Moverley A, Yang Y, Oliveira NMM, Baldock RA, Stern CD. A 3D molecular atlas of the chick embryonic heart. Dev Biol. 2019 Dec 1;456(1):40-46. doi: 10.1016/j.ydbio.2019.07.003. Epub 2019 Jul 5.
Copyright	Copyright © 2019 Elsevier Inc. All rights reserved.
Comments	Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (NM_001001744)

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