GEISHA - A Chicken Embryo Gene Expression Database
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LHX3
LIM homeobox 3

The human orthologue of this gene is associated
with the following human disease:
Gene
Official SymbolLHX3
Official Full NameLIM homeobox 3
CGNC ID48967
also known aslim-3, LIM/homeobox protein Lhx3|LIM homeobox protein 3|homeobox protein LIM-3, LIM/homeobox protein Lhx3, Homeobox protein LIM-3, LIM-3
gene typeprotein-coding
Genomic Map
 Ensembl
NCBI
UCSC
Gallus-Browse
Sequence Information
Genomic
RNANM_001030335
PolypeptideNP_001025506
Sequence Clusters/ESTsUnigene
Gene Expression
In Situ HybridizationGEISHA
EST ProfileGga.91
Orthology
Entrez GeneEnsembl GeneGenetic PhenotypesMOD
Fruit Fly35184FBgn0002023
Human8022ENSG00000107187MIM:221750MIM:600577
Mouse16871ENSMUSG00000026934All phenotypic alleles (5):Targeted, knock-out(1) Targeted, other(4) MGI:102673
Xenopus100489308, 397959490074
Zebrafish30455ZDB-GENE-980526-131ZFIN:ZDB-GENE-980526-131
Gene Ontology
Molecular Functionsequence-specific DNA binding, sequence-specific DNA binding transcription factor activity, more...zinc ion binding
Biological Processtranscription, DNA-templated
Cellular Componentnucleus
Links to other databases
Entrez Gene373940
Ensembl GeneENSGALG00000003928
KEGGgga:373940

Entry 1

GEISHA IdLHX3.UApcrData SourceGEISHA ISH Analysis
Reverse cDNA Template Probeshow
GTGCTTGAAATGTTCCGACTGCCAGACGCAGCTGGCCGAGAAGTGCTTCAGCCGAGGGGACGGCGTGTACTGCAAGGAG
GATTTCTTCAAACGCTTCGGGACGAAGTGCGCCGCCTGCCAGCAGGGCATCCCCCCGACCCAGGTGGTGCGCCGGGCCC
AGGACTTCGTGTACCACCTGCACTGCTTCGCCTGCATCGTCTGCAAGCGGCAGCTGGCCACCGGAGATGAGTTCTACCT
GATGGAGGACAGCAGGCTGGTGTGCAAGGCTGACTACGAGACGGCCAAGCAGAGAGAGGCCGAGTCCACGGCCAAGAGG
CCCCGCACCACCATCACAGCCAAGCAGCTGGAGACCCTCAAAAACGCCTACAACAACTCGCCCAAGCCGGCGCGGCACG
TCCGGGAGCAGCTCTCGTCGGAGACGGGGTTGGATATGCGGGTGGTGCAGGTCTGGTTCCAGAACCGCAGGGCCAAGGA
GAAGCGGCTGAAGAAGGACGCGGGGAGGCAGCGCTGGGGGCAGTACTTCAGGAACATGAAGAGGTCCCGGGGGACCTCC
AAGTCCGACAAGGACAGCATCCAGGAGGAGGGGCCCGACAGCGACGCCGAGGTCTCCTTCACAGACGAGCCCTCCATGT
CCGAGATGAGCCACTCCAATGGCATTTACAGCAATCTCAGCGAGGCGTCCCCGGCCCTGGGGAGGCAGGCTGGGACCAA
CGGGGGCTTCTCTCTGGATCACAGTGGCATCCCAGCTCAGGACCAGTACCACGACCTGCGATCCAACAGCCCCTATGGG
ATTCCCCAGTCACCGGCTTCATTGCAAGCGCTGCCGGGCCACCAGCCTTTAGTGAGGNTTATTTTTTTTAAAAA
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
1-3
stage 3
Unlabeled
 
4-6
stage 4
Primitive Streak
 
7-12
stage 10
Oral Pharynx
 
13-18
stage 13
stage 14
stage 15
stage 16
stage 16
stage 18
stage 18
Face Mesenchyme
Oral Pharynx
Spinal Cord
motor horns
19-22
stage 19
stage 19
stage 20
stage 20
stage 21
stage 21
stage 22
Face Mesenchyme
Hindbrain
Oral Pharynx
Spinal Cord
 

Entry 2

GEISHA IdLIM3.Hargrave.2000Data SourcePublication
Complete cDNA Template Probeshow
ATGCTGCTGGAGAGGGTCCGCGCCGGCTCGGAGAAGGCAGCGGAGCTCTGCCCCTTCCCTCGGAGCCCAGAGATCCCGC
TGTGCGCCGGCTGCAATCAGCACATCGTGGACAGGTTCATCCTCAAGGTCCTGGACCGGCATTGGCACAGCAAGTGCTT
GAAATGTTCCGACTGCCAGACGCAGCTGGCCGAGAAGTGCTTCAGCCGAGGGGACGGCGTGTACTGCAAGGAGGATTTC
TTCAAACGCTTCGGGACGAAGTGCGCCGCCTGCCAGCAGGGCATCCCCCCGACCCAGGTGGTGCGCCGGGCCCAGGACT
TCGTGTACCACCTGCACTGCTTCGCCTGCATCGTCTGCAAGCGGCAGCTGGCCACCGGAGATGAGTTCTACCTGATGGA
GGACAGCAGGCTGGTGTGCAAGGCTGACTACGAGACGGCCAAGCAGAGAGAGGCCGAGTCCACGGCCAAGAGGCCCCGC
ACCACCATCACAGCCAAGCAGCTGGAGACCCTCAAAAACGCCTACAACAACTCGCCCAAGCCGGCGCGGCACGTCCGGG
AGCAGCTCTCGTCGGAGACGGGGTTGGATATGCGGGTGGTGCAGGTCTGGTTCCAGAACCGCAGGGCCAAGGAGAAGCG
GCTGAAGAAGGACGCGGGGAGGCAGCGCTGGGGGCAGTACTTCAGGAACATGAAGAGGTCCCGGGGGACCTCCAAGTCC
GACAAGGACAGCATCCAGGAGGAGGGGCCCGACAGCGACGCCGAGGTCTCCTTCACAGACGAGCCCTCCATGTCCGAGA
TGAGCCACTCCAATGGCATTTACAGCAATCTCAGCGAGGCGTCCCCGGCCCTGGGGAGGCAGGCTGGGACCAACGGGGG
CTTCTCTCTGGATCACAGTGGCATCCCAGCTCAGGACCAGTACCACGACCTGCGATCCAACAGCCCCTATGGGATTCCC
CAGTCACCGGCTTCATTGCAAGCGCTGCCGGGCCACCAGCCTTTAATCTCCAGCTTGGTTTACCCTGACAGCGGTTTGG
GCATCATGGGACAAGGTGGACAGGGGGTGCCCCAGTCCATGCGGGTCCTGGCCGGGAATGGGCCCAGCTCCGACCTCTC
CACCGGCAGCAGTGGGGGATACCCGGATTTCCCTGCCAGCCCGGCCTCCTGGCTGGATGAAGTCGATCACGCTCAGTTT
TGATAGAGG
CitationHargrave M, Karunaratne A, Cox L, Wood S, Koopman P, Yamada T. The HMG box transcription factor gene Sox14 marks a novel subset of ventral interneurons and is regulated by sonic hedgehog. Dev Biol. 2000 Mar 1;219(1):142-53.
CopyrightReprinted with permission from Elsevier. Copyright © 2000 Elsevier B.V. All rights reserved.
CommentsInsufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (NM_001030335).
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
25-28
stage 25
stage 28
stage 28
Spinal Cord
Figure 3 compares the expression patterns of Sox14, Islet1 and Lim3 in a population of ventral interneurons in chick spinal cord at HH18, HH24 and HH28.
Medial Interneurons
Medial Motor Column
Motor Neurons
Ventral Interneurons

Entry 3

GEISHA IdLIM3.Parkinson.2010Data SourcePublication
Complete cDNA Template Probeshow
CGGACATCCCGTGCACCCGGCGCGCCCGCGATGCTGCTGGAGAGGGTCCGCGCCGGCTCGGAGAAGGCAGCGGAGCTCT
GCCCCTTCCCTCGGAGCCCAGAGATCCCGCTGTGCGCCGGCTGCAATCAGCACATCGTGGACAGGTTCATCCTCAAGGT
CCTGGACCGGCATTGGCACAGCAAGTGCTTGAAATGTTCCGACTGCCAGACGCAGCTGGCCGAGAAGTGCTTCAGCCGA
GGGGACGGCGTGTACTGCAAGGAGGATTTCTTCAAACGCTTCGGGACGAAGTGCGCCGCCTGCCAGCAGGGCATCCCCC
CGACCCAGGTGGTGCGCCGGGCCCAGGACTTCGTGTACCACCTGCACTGCTTCGCCTGCATCGTCTGCAAGCGGCAGCT
GGCCACCGGAGATGAGTTCTACCTGATGGAGGACAGCAGGCTGGTGTGCAAGGCTGACTACGAGACGGCCAAGCAGAGA
GAGGCCGAGTCCACGGCCAAGAGGCCCCGCACCACCATCACAGCCAAGCAGCTGGAGACCCTCAAAAACGCCTACAACA
ACTCGCCCAAGCCGGCGCGGCACGTCCGGGAGCAGCTCTCGTCGGAGACGGGGTTGGATATGCGGGTGGTGCAGGTCTG
GTTCCAGAACCGCAGGGCCAAGGAGAAGCGGCTGAAGAAGGA
CitationParkinson N, Collins MM, Dufresne L, Ryan AK. Expression patterns of hormones, signaling molecules, and transcription factors during adenohypophysis development in the chick embryo. Dev Dyn. 2010 Apr;239(4):1197-210.
CopyrightCopyright © 2010 Wiley-Liss, Inc.
CommentsAs insufficient information is provided in publication to verify exact sequence used to synthesize probe, the sequence below was obtained from NCBI (acc #AF461699).
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
19-24
stage 21
Pituitary (Rudiment)
 
25-30
stage 27
Pituitary (Rudiment)
 
31-36
stage 32
stage 36
stage 36
Pituitary (Rudiment)
 

Entry 4

GEISHA IdLHX3.Inoue.2006Data SourcePublication
Complete cDNA Template Probeshow
ATGCTGCTGGAGAGGGTCCGCGCCGGCTCGGAGAAGGCAGCGGAGCTCTGCCCCTTCCCTCGGAGCCCAGAGATCCCGC
TGTGCGCCGGCTGCAATCAGCACATCGTGGACAGGTTCATCCTCAAGGTCCTGGACCGGCATTGGCACAGCAAGTGCTT
GAAATGTTCCGACTGCCAGACGCAGCTGGCCGAGAAGTGCTTCAGCCGAGGGGACGGCGTGTACTGCAAGGAGGATTTC
TTCAAACGCTTCGGGACGAAGTGCGCCGCCTGCCAGCAGGGCATCCCCCCGACCCAGGTGGTGCGCCGGGCCCAGGACT
TCGTGTACCACCTGCACTGCTTCGCCTGCATCGTCTGCAAGCGGCAGCTGGCCACCGGAGATGAGTTCTACCTGATGGA
GGACAGCAGGCTGGTGTGCAAGGCTGACTACGAGACGGCCAAGCAGAGAGAGGCCGAGTCCACGGCCAAGAGGCCCCGC
ACCACCATCACAGCCAAGCAGCTGGAGACCCTCAAAAACGCCTACAACAACTCGCCCAAGCCGGCGCGGCACGTCCGGG
AGCAGCTCTCGTCGGAGACGGGGTTGGATATGCGGGTGGTGCAGGTCTGGTTCCAGAACCGCAGGGCCAAGGAGAAGCG
GCTGAAGAAGGACGCGGGGAGGCAGCGCTGGGGGCAGTACTTCAGGAACATGAAGAGGTCCCGGGGGACCTCCAAGTCC
GACAAGGACAGCATCCAGGAGGAGGGGCCCGACAGCGACGCCGAGGTCTCCTTCACAGACGAGCCCTCCATGTCCGAGA
TGAGCCACTCCAATGGCATTTACAGCAATCTCAGCGAGGCGTCCCCGGCCCTGGGGAGGCAGGCTGGGACCAACGGGGG
CTTCTCTCTGGATCACAGTGGCATCCCAGCTCAGGACCAGTACCACGACCTGCGATCCAACAGCCCCTATGGGATTCCC
CAGTCACCGGCTTCATTGCAAGCGCTGCCGGGCCACCAGCCTTTAATCTCCAGCTTGGTTTACCCTGACAGCGGTTTGG
GCATCATGGGACAAGGTGGACAGGGGGTGCCCCAGTCCATGCGGGTCCTGGCCGGGAATGGGCCCAGCTCCGACCTCTC
CACCGGCAGCAGTGGGGGATACCCGGATTTCCCTGCCAGCCCGGCCTCCTGGCTGGATGAAGTCGATCACGCTCAGTTT
TGATAGAGG
CitationInoue M, Kawakami M, Tatsumi K, Manabe T, Makinodan M, Matsuyoshi H, Kirita T, Wanaka A. Expression and regulation of the LIM homeodomain gene L3/Lhx8 suggests a role in upper lip development of the chick embryo. Anat Embryol (Berl). 2006 Jun;211(3):247-53. Epub 2006 Feb 3.
Copyright© Springer-Verlag 2006
CommentsThe cDNA template used to generate the probe was obtained from EST Clone ID: 604159366F1 using the information provided in the publication.
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
25-30
stage 25
stage 25
stage 26
stage 26
stage 27
stage 29
Eye
Head Mesenchyme
Nasal Placode/Nerve
Mn - mandible
Mx - maxilla
Mx - maxilla (arrows)
31
stage 31
Eye
 

Entry 5

GEISHA IdLIM3.Davey.2006Data SourcePublication
Complete cDNA Template Probeshow
ATGCTGCTGGAGAGGGTCCGCGCCGGCTCGGAGAAGGCAGCGGAGCTCTGCCCCTTCCCTCGGAGCCCAGAGATCCCGC
TGTGCGCCGGCTGCAATCAGCACATCGTGGACAGGTTCATCCTCAAGGTCCTGGACCGGCATTGGCACAGCAAGTGCTT
GAAATGTTCCGACTGCCAGACGCAGCTGGCCGAGAAGTGCTTCAGCCGAGGGGACGGCGTGTACTGCAAGGAGGATTTC
TTCAAACGCTTCGGGACGAAGTGCGCCGCCTGCCAGCAGGGCATCCCCCCGACCCAGGTGGTGCGCCGGGCCCAGGACT
TCGTGTACCACCTGCACTGCTTCGCCTGCATCGTCTGCAAGCGGCAGCTGGCCACCGGAGATGAGTTCTACCTGATGGA
GGACAGCAGGCTGGTGTGCAAGGCTGACTACGAGACGGCCAAGCAGAGAGAGGCCGAGTCCACGGCCAAGAGGCCCCGC
ACCACCATCACAGCCAAGCAGCTGGAGACCCTCAAAAACGCCTACAACAACTCGCCCAAGCCGGCGCGGCACGTCCGGG
AGCAGCTCTCGTCGGAGACGGGGTTGGATATGCGGGTGGTGCAGGTCTGGTTCCAGAACCGCAGGGCCAAGGAGAAGCG
GCTGAAGAAGGACGCGGGGAGGCAGCGCTGGGGGCAGTACTTCAGGAACATGAAGAGGTCCCGGGGGACCTCCAAGTCC
GACAAGGACAGCATCCAGGAGGAGGGGCCCGACAGCGACGCCGAGGTCTCCTTCACAGACGAGCCCTCCATGTCCGAGA
TGAGCCACTCCAATGGCATTTACAGCAATCTCAGCGAGGCGTCCCCGGCCCTGGGGAGGCAGGCTGGGACCAACGGGGG
CTTCTCTCTGGATCACAGTGGCATCCCAGCTCAGGACCAGTACCACGACCTGCGATCCAACAGCCCCTATGGGATTCCC
CAGTCACCGGCTTCATTGCAAGCGCTGCCGGGCCACCAGCCTTTAATCTCCAGCTTGGTTTACCCTGACAGCGGTTTGG
GCATCATGGGACAAGGTGGACAGGGGGTGCCCCAGTCCATGCGGGTCCTGGCCGGGAATGGGCCCAGCTCCGACCTCTC
CACCGGCAGCAGTGGGGGATACCCGGATTTCCCTGCCAGCCCGGCCTCCTGGCTGGATGAAGTCGATCACGCTCAGTTT
TGATAGAGG
CitationDavey MG, Paton IR, Yin Y, Schmidt M, Bangs FK, Morrice DR, Smith TG, Buxton P, Stamataki D, Tanaka M, Münsterberg AE, Briscoe J, Tickle C, Burt DW. The chicken talpid3 gene encodesa novel protein essentialfor Hedgehog signaling. Genes Dev. 2006 May 15; 20(10): 1365–1377.
CopyrightCopyright © 2006, Cold Spring Harbor Laboratory Press
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
19-20
stage 20
stage 20
Spinal Cord
 

Entry 6

GEISHA IdLIM3.Fischer.2009Data SourcePublication
Complete cDNA Template Probeshow
CTGGTGTGCAAGGCTGACTACGAGACGGCCAAGCAGAGAGAGGCCGAGTCCACGGCCAAGAGGCCCCGCACCACCATCA
CAGCCAAGCAGCTGGAGACCCTCAAAAACGCCTACAACAACTCGCCCAAGCCGGCGCGGCACGTCCGGGAGCAGCTCTC
GTCGGAGACGGGGTTGGATATGCGGGTGGTGCAGGTCTGGTTCCAGAACCGCAGGGCCAAGGAGAAGCGGCTGAAGAAG
GA
CitationFischer AJ, Foster S, Scott MA, Sherwood P.. The transient expression of LIM-domain transcription factors is coincident with the delayed maturation of photoreceptors in the chicken retina. J Comp Neurol. 2008 February 1; 506(4): 584–603.
CopyrightCopyright © 2007 Wiley-Liss, Inc.
CommentsThe probe was amplified by PCR using the following primers: 5′-CTG GTG TGC AAG GCT GAC TA-3′ and 5′-AGG TCG TGG TAC TGG TCC TG-3′ and was extracted from NCBI Acc# AF461699.1.
StageImage (click image to view full size)Location (click to highlight)Comments (click to highlight)
31-38
stage 38
stage 38
Retina
 
 Data from NCBI Unigene EST Profile
Unigene ID: Gga.91

Mouse

EmageMGI:102673
EurexpressMGI:102673
MGI GXDMGI:102673

Frog

Xenbase490074

Fruit Fly

BDGPFBgn0002023

Zebra Finch

ZEBrA

Zebrafish

ZFINZDB-GENE-980526-131
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