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A chicken embryo gene expression database

	Anatomical Location
	Stage
	Gene Name
	GEISHA ID
	Multiple Parameters

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HMX3
H6 family homeobox 3

Gene

Official Symbol	HMX3
Official Full Name	H6 family homeobox 3
CGNC ID	16346
also known as	NKX5-1, homeobox protein HMX3\|NK homeobox\|cNkx5-1\|homeo box (H6 family) 3\|homeobox (H6 family) 3\|homeobox protein H6 family member 3\|homeobox protein Nkx-5.1
gene type	protein-coding

Genomic Map

	Ensembl
	NCBI
	UCSC
	Gallus-Browse

Sequence Information

Genomic
RNA	NM_001007985
Polypeptide	NP_001007986
Sequence Clusters/ESTs	Unigene

Gene Expression

In Situ Hybridization	GEISHA
EST Profile	Gga.22889

Orthology

	Entrez Gene	Ensembl Gene	Genetic Phenotypes	MOD
Fruit Fly
Human	340784	ENSG00000188620		MIM:613380
Mouse	15373	ENSMUSG00000040148	All phenotypic alleles (6):Targeted, knock-out(4) Targeted, other(2)	MGI:107160
Xenopus	780290, 373845			483775
Zebrafish	60310	ENSDARG00000070955	ZDB-GENE-001020-1	ZFIN:ZDB-GENE-001020-1

Gene Ontology

Molecular Function	sequence-specific DNA binding, sequence-specific DNA binding transcription factor activity
Biological Process	cell differentiation, nervous system development, transcription, DNA-templated
Cellular Component	nucleus

Links to other databases

Entrez Gene	429199
Ensembl Gene	ENSGALG00000023415
KEGG	gga:429199

Entry 1

GEISHA Id	cNkx5-1.Adamska.2001	Data Source	Publication
Complete cDNA Template Probe	show CCCCCCCCCCGCCGCGCTTTTCCCCGGCGCCGCCGGGAGCCGCCAACCCGCGGCGGGCAGGAAGCGGGCGGGCAGCGGA GGATGCCGGAGACCGGGCAGGAGCCGCCCAGCGCCCCGCCGCCGCCGCCCCCTCCCAAGGAGTCCTTCTACATCAAGAA CCTGCTCAACGGAGACCCCCCCAAAGCGGCCCCCAAGCAGCCGAGGGCTCTGTTCGCCCCTTCGGGCAAAGCGGACGGC TCCGGCTTCGCCCTCTCGCAGGTGGGAGATCTCTCCTTTCCCCGCTTCGAGATCCCGGCGCCGCGCTTCGCTCTGAGCG CGCACTGCCTGGAGCGAGCCCAGACCTGGTGGTACCCCTACGCGCTGACGCCGGCCGGAGCCCACCTGCCCCGCACCGA AGGTACCGCTCCCTCCGACCCTCCGTCCCTCCTTCCTTCCATCCGTCCCTCCGTCCTCCCATCCGTCCCCTCCATCTGT CCATCCCCGACGGACGGGGGTGGCACCGCGGGCGGCGGCGGCGGCCGTTCGGGGGGCAGCGCAGGGCCTGAAGGTGTCT CTTTGTGTCCCTCTGTCCCCGTTCAGCCGCGGAGAAATCCCTCCTGCGGGACTCGTCCCCCGCGTCGGGCACCGACAGG GACTCCCCGGAGCCGCTGCTCCAGGGGGGGGACGCGGAACAGAAGGAGCGGGACCCCAAGAGCCCCGCCGAGATCGTGC TGGAGGAGAGCGACTCGGAGGAGGGGAAGAAGGAGGGCGGCGCGGAGGACTGGAAGAAGCGGGAGGAGAGCCCCGAGAA GAAGCCGTGCCGCAAGAAGAAGACGCGCACGGTGTTCAGCCGCAGCCAGGTCTTCCAGCTCGAGTCCACCTTCGACATG AAGCGCTACCTGAGCAGCTCGGAGCGGGCCGGCCTGGCCGCTTCGCTGCACCTCACAGAGACCCAGGTGAAGATCTGGT TCCAGAACCGCCGCAACAAGTGGAAGCGGCAGCTGGCGGCCGAGCTGGAGGCGGCCAACCTCAGCCACGCGGCCGCGCA GCGCATCGTGCGCGTCCCCATCCTCTACCACGAGAACTCGGGCGCGGAGAGCAGCGCGGCGGGAGGCGGCGGCCCCGGC CCGCAGCCTCTGCTCACCTTCCCCCACCCCGTTTATTACTCCCACCCCAGTGTCACCTCCGTACCGCTCCTGCGGCCCG TCTGA
Citation	Adamska M, Herbrand H, Adamski M, Krüger M, Braun T, Bober E. FGFs control the patterning of the inner ear but are not able to induce the full ear program. Mech Dev. 2001 Dec;109(2):303-13.
Copyright	Copyright © 2001 Elsevier Science Ireland Ltd.
Comments	The complete cDNA template sequence was obtained from the information from the publication as described in Adamska et al. 2001. Nkx5-1 is also known as HMX3 in NCBI.

Stage

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7-12

stage 10

Ear/Otic Placode

31-44

stage 44

Entry 2

GEISHA Id	Nkx5.1.Freter.2012	Data Source	Publication
Complete cDNA Template Probe	show ATGCCGGAGACCGGGCAGGAGCCGCCCAGCGCCCCGCCGCCGCCGCCCCCTCCCAAGGAGTCCTTCTACATCAAGAACC TGCTCAACGGAGACCCCCCCAAAGCGGCCCCCAAGCAGCCGAGGGCTCTGTTCGCCCCTTCGGGCAAAGCGGACGGCTC CGGCTTCGCCCTCTCGCAGGTGGGAGATCTCTCCTTTCCCCGCTTCGAGATCCCGGCGCCGCGCTTCGCTCTGAGCGCG CACTGCCTGGAGCGAGCCCAGACCTGGTGGTACCCCTACGCGCTGACGCCGGCCGGAGCCCACCTGCCCCGCACCGAAG CCGCGGAGAAATCCCTCCTGCGGGACTCGTCCCCCGCGTCGGGCACCGACAGGGACTCCCCGGAGCCGCTGCTCCAGGG GGGGGACGCGGAACAGAAGGAGCGGGACCCCAAGAGCCCCGCCGAGATCGTGCTGGAGGAGAGCGACTCGGAGGAGGGG AAGAAGGAGGGCGGCGCGGAGGACTGGAAGAAGCGGGAGGAGAGCCCCGAGAAGAAGCCGTGCCGCAAGAAGAAGACGC GCACGGTGTTCAGCCGCAGCCAGGTCTTCCAGCTCGAGTCCACCTTCGACATGAAGCGCTACCTGAGCAGCTCGGAGCG GGCCGGCCTGGCCGCTTCGCTGCACCTCACAGAGACCCAGGTGAAGATCTGGTTCCAGAACCGCCGCAACAAGTGGAAG CGGCAGCTGGCGGCCGAGCTGGAGGCGGCCAACCTCAGCCACGCGGCCGCGCAGCGCATCGTGCGCGTCCCCATCCTCT ACCACGAGAACTCGGGCGCGGAGAGCAGCGCGGCGGGAGGCGGCGGCCCCGGCCCGCAGCCTCTGCTCACCTTCCCCCA CCCCGTTTATTACTCCCACCCCAGTGTCACCTCCGTACCGCTCCTGCGGCCCGTCTGA
Citation	Freter S, Muta Y, O'Neill P, Vassilev VS, Kuraku S, Ladher RK. Pax2 modulates proliferation during specification of the otic and epibranchial placodes. Dev Dyn. 2012 Nov;241(11):1716-28
Copyright	Copyright © 2012 Wiley Periodicals, Inc.
Comments	Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence was obtained from NCBI (NM_001007985.1).