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A chicken embryo gene expression database

	Anatomical Location
	Stage
	Gene Name
	GEISHA ID
	Multiple Parameters

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LHX9
LIM homeobox 9

Gene

Official Symbol	LHX9
Official Full Name	LIM homeobox 9
CGNC ID	1590
also known as	LH-2, LIM/homeobox protein Lhx9\|LIM homeobox protein 9\|homeobox protein, LIM homeobox 9
gene type	protein-coding

Genomic Map

	Ensembl
	NCBI
	UCSC
	Gallus-Browse

Sequence Information

Genomic
RNA	NM_205426
Polypeptide	NP_990757
Sequence Clusters/ESTs	Unigene

Gene Expression

In Situ Hybridization	GEISHA
EST Profile	Gga.2348

Orthology

	Entrez Gene	Ensembl Gene	Genetic Phenotypes	MOD
Fruit Fly
Human	56956			MIM:606066
Mouse	16876	ENSMUSG00000019230	All phenotypic alleles (6):Targeted, knock-out(1) Targeted, other(5)	MGI:1316721
Xenopus	100489035, 447351, 373755			492043
Zebrafish	550405	ENSDARG00000056979	ZDB-GENE-050417-210	ZFIN:ZDB-GENE-050417-210

Gene Ontology

Molecular Function	sequence-specific DNA binding, sequence-specific DNA binding transcription factor activity, more...
Biological Process	motor neuron axon guidance, negative regulation of transcription, DNA-templated, more...
Cellular Component	nucleus

Links to other databases

Entrez Gene	396397
Ensembl Gene	ENSGALG00000002223
KEGG	gga:396397

Entry 1

GEISHA Id	ChEST847c21	Data Source	GEISHA ISH Analysis
Forward cDNA Template Probe	show `AAAGACTCTGGGGTCTGTATATGGAAATAGTGGGGTGCAGAGCAGAAGAAAATACTTGTCCTTTCCGTCCCCCAGCCAT GCTTTTCCACGGGATCTCCGGAGGCCACATCCAAGGAATCATGGAGGAGATGGAGAGGCGATCCAAGACCGAGTCCCGC CTGGCCAAAGGGGGACAGATGAACGGCCGAGAAACGAAGGTTCTCCGTGCAGAGATGTGCCCGCTGCCACCTTGGGATC TCAGCCTCTGAAATGGTCATGAGAGCCAGGAGTCGGTTTATCACTTGAGCTGTTCACCTGCACCACCTTGCAAGACTCT GACCACGGGTGATCACTTTGGCATGAAGGACAACCTGGTTTACTGCAGGGCCCACTTCGAGTCCCTTTTGCAAGGAGAA TACCCCCTCAGTGAGCTACACCGAGTTGGCAGCCAAGACCGGAGGGCTTGGCCTGCCCTACTTCAACGGCACGGGCACC GTGCCAGAAGGG`

Stage

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Location (click to highlight)

Comments (click to highlight)

4-6

stage 4

Unlabeled

7-12

stage 7

stage 8

stage 10

stage 11

stage 12

Forebrain
Neural Plate/Tube

13-18

stage 13

stage 16

stage 17

stage 18

Hindbrain
Leg Mesenchyme
Pineal Gland
Proepicardium
Retina
Telencephalon
Wing Mesenchyme

19-23

stage 19

stage 21

stage 23

Eye
Forebrain
Hindbrain
Intermediate Mesoderm
Leg Mesenchyme
Limb Buds
Pineal Gland
Wing Mesenchyme

Entry 2

GEISHA Id	Lhx9.Mazaud.2002	Data Source	Publication
Complete cDNA Template Probe	show TCCGGAACTTTAAAGCAACCAGGGACTGCTTGAAAATAGCACTTCTTTTTGCTTTCTTTGTATTCAAAACTGTATCCTC TCCCGACCGGTTCTGCCGCCCCAGGTCCGAGTCTCTCCGGTCAGGAGCCCCGGCTTTCCAGAACAGTAACAGCTCCTTT AGCTCGCTTTTCTTCTTTGATTTTTCAAACTAATTACTATTACGTTTTCTTCCCCTTGTTTGTTTTCCGCACACCTTCA GGAAGCCCTCGGTGCTTGAGCAAAGAGAAGCTCCTATTGCAACCTCCTTCCCTGTGCCGTGCGCCTCGGTGTAAACATT TTGGATGATCTAAAGACTCTGGGGTCTGTATATGGAAATAGTGGGGTGCAGAGCAGAAGAAAATACTTGTCCTTTCCGT CCCCCAGCCATGCTTTTCCACGGGATCTCCGGAGGCCACATCCAAGGAATCATGGAGGAGATGGAGAGGCGATCCAAGA CCGAGTCCCGCCTGGCCAAAGGGGGACAGATGAACGGCCGAGAAACGAACATGCCCCCCATGAGCCCCGAGAAGCCCGC TTTGTGCGCTGGGTGTGGAGGGAAGATCTCAGACAGATATTACCTGCTGGCTGTTGACAAACAATGG
Citation	Mazaud S, Oréal E, Guigon CJ, Carré-Eusèbe D, Magre S. Lhx9 expression during gonadal morphogenesis as related to the state of cell differentiation. Gene Expr Patterns. 2002 Dec;2(3-4):373-7.
Copyright	Reprinted from Gene Expression Patterns, Volume 2, Issue 3-4, S. Mazaud, E Oréal, C.J. Gulgon, D. Carré-Eusèbe, and S. Magre, Lhx9 expression during gonadal morphogenesis as related to the state of cell differentiation, Pages 373-377, Copyright 2002, with permission from Elsevier. Copyright © 2002 Elsevier B.V. All rights reserved.
Comments	The authors said: Chick Lhx9 and AMH probes were described previously ([Oreal et al]), who said: Genbank accession numbers and nucleotide positions are as follows:Lhx9 (also called LH-2B), L35566, position 4-624.

Stage

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Location (click to highlight)

Comments (click to highlight)

31-38

stage 35

stage 38

Testis

testes

Entry 3

GEISHA Id	LHX9.Abellan.2009	Data Source	Publication
Complete cDNA Template Probe	show ATTACCTGCTGGCTGTTGACAAACAATGGCACCTCAGGTGTCTTAAGTGCTGTGAATGTAAACTGGCTTTGGAGTCAGA ACTCACCTGCTTTGCCAAGGACGGCAGTATTTACTGCAAGGAGGATTACTACAGAAGGTTCTCCGTGCAGAGATGTGCC CGCTGCCACCTTGGGATCTCAGCCTCTGAAATGGTCATGAGAGCCAGGGAGTCGGTTTATCACTTGAGCTGCTTCACCT GCACCACCTGCAACAAGACTCTGACCACGGGTGATCACTTTGGCATGAAGGACAACCTGGTTTACTGCAGGGCCCACTT CGAGTCCCTTTTGCAAGGAGAATACCCCCCTCAGCTGAGCTACACCGAGTTGGCAGCCAAGAGCGGAGGGCTGGCCCTG CCCTACTTCAACGGCACGGGCACCGTGCAGAAGGGGAGGCCCAGGAAACGAAAAAGCCCTGCCCTGGGAGTGGACATCG TCAACTACAACTCAGGTTGTAATGAGAACGAGGCAGATCACATGGACAGAGACCAGCAGCCTTATCCCCCATCCCAGAA GACAAAGCGCATGGCGACCTCCTTCAAACACCACCAGCTTCGTACCATGAAGTCCTACTTTGCTATCAACCACAACCCA GATGCCAAGGACCTCAAGCAGCTTGCCCAGAAAACAGGCCTGACCAAGAGAGTTCTGCAGGTTTGGTTTCAAAACGCAA GAGCCAAATTCAGAAGGAACCTTTTGCGGCAGGAGAATGGGGGTGTCGATAAAGCGGACGGCACCTCACTTCCGGCACC GCCCTCCGCAGACAGCGGCGCTCTCACTCCACCCGGCACTGCGACCACTTTAACAGACCTGACCAATCCCACTATCACT GTAGTGACATCAGTGACCTCTAACTTGGACAGCCACGA
Citation	Abellán A, Legaz I, Vernier B, Rétaux S, Medina L. Olfactory and amygdalar structures of the chicken ventral pallium based on the combinatorial expression patterns of LIM and other developmental regulatory genes. J Comp Neurol. 2009 Sep 20;516(3):166-86.
Copyright	Copyright © 2009 Wiley-Liss, Inc.
Comments	The sequence below was obtained from NCBI (acc # NM_205426.1 - Showing 906 bp region from base 596 to 1502) using the information provided in the publication.

Stage

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Location (click to highlight)

Comments (click to highlight)

31-44

stage 35

stage 36

stage 37

stage 40

stage 42

stage 44

Telencephalon

frontal section
hatchlings (PO)
horizontal section
horizontal section
sagittal section

Entry 4

GEISHA Id	LHX9.Sun.2008	Data Source	Publication
Complete cDNA Template Probe	show GAATTCCGGAACTTTAAAGCAACCAGGGACTGCTTGAAAATAGCACTTCTTTTTGCTTTCTTTGTATTCAAAACTGTAT CCTCTCCCGACCGGTTCTGCCGCCCCAGGTCCGAGTCTCTCCGGTCAGGAGCCCCGGCTTTCCAGAACAGTAACAGCTC CTTTAGCTCGCTTTTCTTCTTTGATTTTTCAAACTAATTACTATTACGTTTTCTTCCCCTTGTTTGTTTTCCGCACACC TTCAGGAAGCCCTCGGTGCTTGAGCAAAGAGAAGCTCCTATTGCAACCTCCTTCCCTGTGCCGTGCGCCTCGGTGTAAA CATTTTGGATGATCTAAAGACTCTGGGGTCTGTATATGGAAATAGTGGGGTGCAGAGCAGAAGAAAATACTTGTCCTTT CCGTCCCCCAGCCATGCTTTTCCACGGGATCTCCGGAGGCCACATCCAAGGAATCATGGAGGAGATGGAGAGGCGATCC AAGACCGAGTCCCGCCTGGCCAAAGGGGGACAGATGAACGGCCGAGAAACGAACATGCCCCCCATGAGCCCCGAGAAGC CCGCTTTGTGCGCTGGGTGTGGAGGGAAGATCTCAGACAGATATTACCTGCTGGCTGTTGACAAACAATGGCACCTCAG GTGTCTTAAGTGCTGTGAATGTAAACTGGCTTTGGAGTCAGAACTCACCTGCTTTGCCAAGGACGGCAGTATTTACTGC AAGGAGGATTACTACAGAAGGTTCTCCGTGCAGAGATGTGCCCGCTGCCACCTTGGGATCTCAGCCTCTGAAATGGTCA TGAGAGCCAGGGAGTCGGTTTATCACTTGAGCTGCTTCACCTGCACCACCTGCAACAAGACTCTGACCACGGGTGATCA CTTTGGCATGAAGGACAACCTGGTTTACTGCAGGGCCCACTTCGAGTCCCTTTTGCAAGGAGAATACCCCCCTCAGCTG AGCTACACCGAGTTGGCAGCCAAGAGCGGAGGGCTGGCCCTGCCCTACTTCAACGGCACGGGCACCGTGCAGAAGGGGA GGCCCAGGAAACGAAAAAGCCCTGCCCTGGGAGTGGACATCGTCAACTACAACTCAGGTTGTAATGAGAACGAGGCAGA TCACATGGACAGAGACCAGCAGCCTTATCCCCCATCCCAGAAGACAAAGCGCATGGCGACCTCCTTCAAACACCACCAG CTTCGTACCATGAAGTCCTACTTTGCTATCAACCACAACCCAGATGCCAAGGACCTCAAGCAGCTTGCCCAGAAAACAG GCCTGACCAAGAGAGTTCTGCAGGTTTGGTTTCAAAACGCAAGAGCCAAATTCAGAAGGAACCTTTTGCGGCAGGAGAA TGGGGGTGTCGATAAAGCGGACGGCACCTCACTTCCGGCACCGCCCTCCGCAGACAGCGGCGCTCTCACTCCACCCGGC ACTGCGACCACTTTAACAGACCTGACCAATCCCACTATCACTGTAGTGACATCAGTGACCTCTAACTTGGACAGCCACG AACCCGGGAGCCCCTCACAAACTACCTTAACGAACCTTTTCTAACATTGCCG
Citation	Sun X, Saitsu H, Shiota K, Ishibashi M. Expression dynamics of the LIM-homeobox genes, Lhx1 and Lhx9, in the diencephalon during chick development. Int J Dev Biol. 2008;52(1):33-41.
Copyright	© UBC Press and the authors