Geisha

home

contact

A chicken embryo gene expression database

	Anatomical Location
	Stage
	Gene Name
	GEISHA ID
	Multiple Parameters

Quick Search

Data Class

Enter Text:

Gene Family QuickSearch

	Transcription Factors
	Growth Factors
	Receptors
	MicroRNAs

Human Disease Gene Search

	Downloads
	Protocols
	About GEISHA
	Contact Us

	Transgenic Birds
	Model Organism Databases
	Gene Expression Databases
	Genomic Resources
	Anatomical Atlases
	Chicken Stage Series

IRX4
iroquois homeobox 4

Gene

Official Symbol	IRX4
Official Full Name	iroquois homeobox 4
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

Sequence Information

Genomic
RNA	NM_001001744
Polypeptide	NP_001001744

Gene Expression

In Situ Hybridization

GEISHA

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)