Free for academic non-profit institutions. Other users need a Commercial license

Aliases for LHX6 Gene

Aliases for LHX6 Gene

  • LIM Homeobox 6 2 3
  • LIM/Homeobox Protein Lhx6.1 3 4
  • LHX6.1 3 4
  • LIM Homeodomain Protein 6.1 3
  • LIM/Homeobox Protein Lhx6 3
  • LIM Homeobox Protein 6 4

External Ids for LHX6 Gene

Previous GeneCards Identifiers for LHX6 Gene

  • GC09M116069
  • GC09M116611
  • GC09M118418
  • GC09M120340
  • GC09M122044
  • GC09M124004
  • GC09M124964
  • GC09M094579

Summaries for LHX6 Gene

Entrez Gene Summary for LHX6 Gene

  • This gene encodes a member of a large protein family that contains the LIM domain, a unique cysteine-rich zinc-binding domain. The encoded protein may function as a transcriptional regulator and may be involved in the control of differentiation and development of neural and lymphoid cells. Two alternatively spliced transcript variants encoding distinct isoforms have been described for this gene. Alternatively spliced transcript variants have been identified, but their biological validity has not been determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for LHX6 Gene

LHX6 (LIM Homeobox 6) is a Protein Coding gene. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and sequence-specific DNA binding. An important paralog of this gene is LHX4.

UniProtKB/Swiss-Prot for LHX6 Gene

  • Probable transcription factor required for the expression of a subset of genes involved in interneurons migration and development. Functions in the specification of cortical interneuron subtypes and in the migration of GABAergic interneuron precursors from the subpallium to the cerebral cortex (By similarity).

Gene Wiki entry for LHX6 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LHX6 Gene

Genomics for LHX6 Gene

Regulatory Elements for LHX6 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for LHX6 Gene

Start:
122,202,577 bp from pter
End:
122,229,626 bp from pter
Size:
27,050 bases
Orientation:
Minus strand

Genomic View for LHX6 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for LHX6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LHX6 Gene

Proteins for LHX6 Gene

  • Protein details for LHX6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UPM6-LHX6_HUMAN
    Recommended name:
    LIM/homeobox protein Lhx6
    Protein Accession:
    Q9UPM6
    Secondary Accessions:
    • A6PVQ1
    • A6PVQ2
    • A8K1B2
    • B7Z4D0
    • H0YN76
    • Q5T7S7
    • Q5T7S8
    • Q9NTK3
    • Q9UPM5

    Protein attributes for LHX6 Gene

    Size:
    363 amino acids
    Molecular mass:
    40045 Da
    Quaternary structure:
    • Interacts with LDB1 (via the LIM zinc-binding domains).
    SequenceCaution:
    • Sequence=AAI03937.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAI03938.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAB66505.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for LHX6 Gene

neXtProt entry for LHX6 Gene

Proteomics data for LHX6 Gene at MOPED

Post-translational modifications for LHX6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

No data available for DME Specific Peptides for LHX6 Gene

Domains for LHX6 Gene

Gene Families for LHX6 Gene

HGNC:
  • LIM :Homeoboxes / LIM class

Protein Domains for LHX6 Gene

Graphical View of Domain Structure for InterPro Entry

Q9UPM6

UniProtKB/Swiss-Prot:

LHX6_HUMAN :
  • Q9UPM6
Domain:
  • Contains 1 homeobox DNA-binding domain.
  • Contains 2 LIM zinc-binding domains.
genes like me logo Genes that share domains with LHX6: view

Function for LHX6 Gene

Molecular function for LHX6 Gene

UniProtKB/Swiss-Prot Function: Probable transcription factor required for the expression of a subset of genes involved in interneurons migration and development. Functions in the specification of cortical interneuron subtypes and in the migration of GABAergic interneuron precursors from the subpallium to the cerebral cortex (By similarity).

Gene Ontology (GO) - Molecular Function for LHX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding --
GO:0003700 sequence-specific DNA binding transcription factor activity NAS 10393337
GO:0005515 protein binding IPI 25416956
GO:0008270 zinc ion binding IEA --
GO:0043565 sequence-specific DNA binding IEA --
genes like me logo Genes that share ontologies with LHX6: view
genes like me logo Genes that share phenotypes with LHX6: view

Animal Models for LHX6 Gene

MGI Knock Outs for LHX6:

Animal Model Products

CRISPR Products

miRNA for LHX6 Gene

miRTarBase miRNAs that target LHX6

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LHX6

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for LHX6 Gene

Localization for LHX6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LHX6 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LHX6 Gene COMPARTMENTS Subcellular localization image for LHX6 gene
Compartment Confidence
nucleus 4

Gene Ontology (GO) - Cellular Components for LHX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
genes like me logo Genes that share ontologies with LHX6: view

Pathways for LHX6 Gene

SuperPathways for LHX6 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LHX6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0021799 cerebral cortex radially oriented cell migration ISS --
GO:0021800 cerebral cortex tangential migration ISS --
GO:0021853 cerebral cortex GABAergic interneuron migration ISS --
genes like me logo Genes that share ontologies with LHX6: view

No data available for Pathways by source for LHX6 Gene

Transcripts for LHX6 Gene

Unigene Clusters for LHX6 Gene

LIM homeobox 6:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LHX6

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for LHX6

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LHX6 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10a · 10b · 10c ^ 11 ^ 12a · 12b · 12c ^ 13 ^ 14a · 14b · 14c · 14d
SP1: - - - - - - -
SP2: - - - - - - - -
SP3: - - - -
SP4:
SP5:
SP6:
SP7: - - -
SP8: -
SP9: - -

Relevant External Links for LHX6 Gene

GeneLoc Exon Structure for
LHX6
ECgene alternative splicing isoforms for
LHX6

Expression for LHX6 Gene

mRNA expression in normal human tissues for LHX6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for LHX6 Gene

SOURCE GeneReport for Unigene cluster for LHX6 Gene Hs.103137

genes like me logo Genes that share expressions with LHX6: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for LHX6 Gene

Orthologs for LHX6 Gene

This gene was present in the common ancestor of animals.

Orthologs for LHX6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LHX6 35
  • 99.83 (n)
  • 99.74 (a)
LHX6 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LHX6 35
  • 93.88 (n)
  • 98.98 (a)
LHX6 36
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LHX6 35
  • 93.54 (n)
  • 98.21 (a)
LHX6 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lhx6 35
  • 92.35 (n)
  • 97.96 (a)
Lhx6 16
Lhx6 36
  • 98 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LHX6 36
  • 93 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LHX6 36
  • 75 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lhx6 35
  • 92.96 (n)
  • 98.2 (a)
chicken
(Gallus gallus)
Aves LHX6 35
  • 73.67 (n)
  • 77.36 (a)
LHX6 36
  • 74 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lhx6 35
  • 71.89 (n)
  • 82.52 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.12957 35
zebrafish
(Danio rerio)
Actinopterygii lhx6 35
  • 72.84 (n)
  • 79.37 (a)
lhx6 36
  • 75 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006537 35
  • 59.67 (n)
  • 52.5 (a)
fruit fly
(Drosophila melanogaster)
Insecta Awh 36
  • 41 (a)
OneToMany
Awh 37
  • 48 (a)
worm
(Caenorhabditis elegans)
Secernentea lim-4 36
  • 32 (a)
OneToMany
lim-4 37
  • 44 (a)
Species with no ortholog for LHX6:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for LHX6 Gene

ENSEMBL:
Gene Tree for LHX6 (if available)
TreeFam:
Gene Tree for LHX6 (if available)

Paralogs for LHX6 Gene

Paralogs for LHX6 Gene

Selected SIMAP similar genes for LHX6 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with LHX6: view

Variants for LHX6 Gene

Sequence variations from dbSNP and Humsavar for LHX6 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type MAF
rs913934 -- 122,221,505(-) CTTCA(G/T)GCAAG intron-variant, utr-variant-5-prime
rs932922 -- 122,218,269(-) GGTGA(C/G)TCATC intron-variant
rs932923 -- 122,218,254(-) TTAAA(A/G)AACAC intron-variant
rs989798 -- 122,209,763(-) ATCCT(A/G)TGTGC intron-variant
rs1004308 -- 122,214,995(+) TTAAC(C/T)GGCGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LHX6 Gene

Variant ID Type Subtype PubMed ID
nsv831715 CNV Gain 17160897
dgv8280n71 CNV Loss 21882294

Relevant External Links for LHX6 Gene

HapMap Linkage Disequilibrium report
LHX6
Human Gene Mutation Database (HGMD)
LHX6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LHX6 Gene

Disorders for LHX6 Gene

Relevant External Links for LHX6

Genetic Association Database (GAD)
LHX6
Human Genome Epidemiology (HuGE) Navigator
LHX6
genes like me logo Genes that share disorders with LHX6: view

No data available for UniProtKB/Swiss-Prot for LHX6 Gene

Publications for LHX6 Gene

  1. A brain region-specific gene product Lhx6.1 interacts with Ldb1 through tandem LIM-domains. (PMID: 10393337) Kimura N. … Taga T. (J. Biochem. 1999) 2 3 4 23
  2. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S. … Poustka A. (Genome Res. 2001) 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. DNA sequence and analysis of human chromosome 9. (PMID: 15164053) Humphray S.J. … Dunham I. (Nature 2004) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for LHX6 Gene

Sources for LHX6 Gene

Back to Top

Content