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Aliases for HOXA6 Gene

Aliases for HOXA6 Gene

  • Homeobox A6 2 3 5
  • Homeobox Protein Hox-1B 3 4
  • Homeo Box A6 2 3
  • HOX1B 3 4
  • Homeobox Protein Hox-A6 3
  • Homeobox Protein HOXA6 3
  • Homeo Box 1B 3
  • HOX1.2 3
  • HOX1 3

External Ids for HOXA6 Gene

Previous HGNC Symbols for HOXA6 Gene

  • HOX1B
  • HOX1

Previous GeneCards Identifiers for HOXA6 Gene

  • GC07M026827
  • GC07M026927
  • GC07M026958
  • GC07M027151
  • GC07M027065
  • GC07M027185

Summaries for HOXA6 Gene

Entrez Gene Summary for HOXA6 Gene

  • In vertebrates, the genes encoding the class of transcription factors called homeobox genes are found in clusters named A, B, C, and D on four separate chromosomes. Expression of these proteins is spatially and temporally regulated during embryonic development. This gene is part of the A cluster on chromosome 7 and encodes a DNA-binding transcription factor which may regulate gene expression, morphogenesis, and differentiation. [provided by RefSeq, Jul 2008]

GeneCards Summary for HOXA6 Gene

HOXA6 (Homeobox A6) is a Protein Coding gene. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and sequence-specific DNA binding. An important paralog of this gene is HOXB6.

UniProtKB/Swiss-Prot for HOXA6 Gene

  • Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Gene Wiki entry for HOXA6 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HOXA6 Gene

Genomics for HOXA6 Gene

Regulatory Elements for HOXA6 Gene

Enhancers for HOXA6 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH07G027095 3.3 VISTA FANTOM5 Ensembl ENCODE dbSUPER 7.7 +12.4 12408 86.3 MLX ZFP64 DMAP1 FEZF1 YY1 ZNF143 ZNF263 SP3 NFYC TBX21 HOTAIRM1 HOXA10-AS HOXA2 HOXA-AS2 HOXA9 HOXA11-AS HOXA10 HOXA11 EIF4HP1 SKAP2
GH07G026855 1.4 Ensembl ENCODE dbSUPER 12.2 +293.1 293056 4.8 HDAC1 PKNOX1 NFIB FEZF1 ZBTB40 TCF12 GLIS2 GATA2 EGR1 ZNF366 HOTAIRM1 HOXA5 HOXA-AS3 HOXA4 HOXA3 HOXA6 HOXA1 HOXA2 HOXA-AS2 SKAP2
GH07G026862 1.4 ENCODE dbSUPER 11.8 +286.5 286489 3.1 HDGF PKNOX1 CREB3L1 ARNT ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 HOTAIRM1 HOXA-AS3 HOXA4 HOXA6 HOXA3 HOXA5 HOXA1 HOXA2 HOXA10-AS HOXA9
GH07G026853 0.9 ENCODE dbSUPER 12 +296.6 296627 0.2 CTCF ZNF654 ZSCAN4 CHD1 BMI1 RAD21 PRDM6 SMC3 REPIN1 SP7 HOXA5 HOXA3 HOXA6 HOXA-AS3 HOXA4 HOXA1 HOTAIRM1 GC07P026846 RPL7AP38
GH07G026860 0.9 ENCODE dbSUPER 11.8 +290.1 290067 0.2 ELF3 CTCF ZNF654 JUND SMC3 RAD21 MIXL1 EZH2 HOXA-AS3 HOXA4 HOXA5 HOXA3 HOXA6 HOTAIRM1 HOXA1 HOXA2 HOXA-AS2 GC07P026846
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HOXA6 on UCSC Golden Path with GeneCards custom track

Promoters for HOXA6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000325319 -297 601 PKNOX1 ARID4B SIN3A ZNF48 GLIS2 ZNF143 ZHX2 REST SMARCB1 ZNF623
ENSR00000209842 603 401 PKNOX1 SUZ12 ZIC2 HIC1 GLIS2 ZNF366 POLR2A SCRT2 EZH2 ZNF263
ENSR00000325320 -1297 201 ZSCAN4 KLF17 FEZF1 GLI4 GLIS2 ZNF366 KLF7 ZNF488 ZEB2 ZNF398

Genomic Location for HOXA6 Gene

Chromosome:
7
Start:
27,145,396 bp from pter
End:
27,150,603 bp from pter
Size:
5,208 bases
Orientation:
Minus strand

Genomic View for HOXA6 Gene

Genes around HOXA6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HOXA6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HOXA6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HOXA6 Gene

Proteins for HOXA6 Gene

  • Protein details for HOXA6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P31267-HXA6_HUMAN
    Recommended name:
    Homeobox protein Hox-A6
    Protein Accession:
    P31267
    Secondary Accessions:
    • A4D192
    • Q2M3G3
    • Q9UPM0

    Protein attributes for HOXA6 Gene

    Size:
    233 amino acids
    Molecular mass:
    26339 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HOXA6 Gene

Post-translational modifications for HOXA6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HOXA6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HOXA6 Gene

Domains & Families for HOXA6 Gene

Gene Families for HOXA6 Gene

Suggested Antigen Peptide Sequences for HOXA6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P31267

UniProtKB/Swiss-Prot:

HXA6_HUMAN :
  • Belongs to the Antp homeobox family.
Family:
  • Belongs to the Antp homeobox family.
genes like me logo Genes that share domains with HOXA6: view

Function for HOXA6 Gene

Molecular function for HOXA6 Gene

GENATLAS Biochemistry:
homeo box A6(1B),homologous to mouse Hox-1.2,Drosophila Antp,Ubx,abd-A
UniProtKB/Swiss-Prot Function:
Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Gene Ontology (GO) - Molecular Function for HOXA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003700 transcription factor activity, sequence-specific DNA binding IEA --
GO:0043565 sequence-specific DNA binding IEA --
genes like me logo Genes that share ontologies with HOXA6: view
genes like me logo Genes that share phenotypes with HOXA6: view

Animal Models for HOXA6 Gene

MGI Knock Outs for HOXA6:

Animal Model Products

CRISPR Products

miRNA for HOXA6 Gene

miRTarBase miRNAs that target HOXA6

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HOXA6 Gene

Localization for HOXA6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HOXA6 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HOXA6 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for HOXA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with HOXA6: view

Pathways & Interactions for HOXA6 Gene

SuperPathways for HOXA6 Gene

No Data Available

Gene Ontology (GO) - Biological Process for HOXA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007275 multicellular organism development IEA --
GO:0009952 anterior/posterior pattern specification IEA --
GO:0048704 embryonic skeletal system morphogenesis IEA --
genes like me logo Genes that share ontologies with HOXA6: view

No data available for Pathways by source and SIGNOR curated interactions for HOXA6 Gene

Transcripts for HOXA6 Gene

mRNA/cDNA for HOXA6 Gene

(1) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(7) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for HOXA6 Gene

Homeobox A6:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HOXA6 Gene

No ASD Table

Relevant External Links for HOXA6 Gene

GeneLoc Exon Structure for
HOXA6
ECgene alternative splicing isoforms for
HOXA6

Expression for HOXA6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HOXA6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HOXA6 Gene

This gene is overexpressed in Fallopian Tube (x7.1) and Colon - Transverse (x5.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for HOXA6 Gene



NURSA nuclear receptor signaling pathways regulating expression of HOXA6 Gene:

HOXA6

SOURCE GeneReport for Unigene cluster for HOXA6 Gene:

Hs.679517
genes like me logo Genes that share expression patterns with HOXA6: view

Primer Products

No data available for Protein differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for HOXA6 Gene

Orthologs for HOXA6 Gene

This gene was present in the common ancestor of animals.

Orthologs for HOXA6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HOXA6 35 34
  • 99.86 (n)
OneToOne
dog
(Canis familiaris)
Mammalia HOXA6 35 34
  • 97.14 (n)
OneToOne
cow
(Bos Taurus)
Mammalia HOXA6 35 34
  • 95.85 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Hoxa6 34
  • 94.56 (n)
mouse
(Mus musculus)
Mammalia Hoxa6 16 35 34
  • 92.96 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia HOXA6 35
  • 91 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia HOXA6 35
  • 90 (a)
OneToOne
chicken
(Gallus gallus)
Aves HOXA6 35 35 35
  • 87 (a)
OneToMany
LOC100857163 34
  • 81.39 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia hoxa6 34
  • 68.54 (n)
fruit fly
(Drosophila melanogaster)
Insecta Antp 35 36
  • 22 (a)
OneToMany
Species where no ortholog for HOXA6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for HOXA6 Gene

ENSEMBL:
Gene Tree for HOXA6 (if available)
TreeFam:
Gene Tree for HOXA6 (if available)

Paralogs for HOXA6 Gene

(12) SIMAP similar genes for HOXA6 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with HOXA6: view

Variants for HOXA6 Gene

Sequence variations from dbSNP and Humsavar for HOXA6 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs1000241812 -- 27,147,143(+) AGCCC(C/G)ATTGG intron-variant, upstream-variant-2KB
rs1000312377 -- 27,145,740(+) TCATG(C/T)GGCGG intron-variant, upstream-variant-2KB, reference, missense
rs1001081480 -- 27,145,492(+) GTTTT(G/T)TTTTG intron-variant, downstream-variant-500B, upstream-variant-2KB
rs1001745979 -- 27,148,014(+) CGCAC(A/G)GCTAG intron-variant, upstream-variant-2KB
rs1001779499 -- 27,147,829(+) CTGGT(C/T)TGTTT intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HOXA6 Gene

Variant ID Type Subtype PubMed ID
dgv1094n67 CNV gain 20364138
dgv11244n54 CNV loss 21841781
nsv526526 CNV loss 19592680
nsv5674 CNV deletion 18451855
nsv606465 CNV loss 21841781
nsv7393 OTHER inversion 18451855
nsv824042 CNV gain 20364138

Variation tolerance for HOXA6 Gene

Residual Variation Intolerance Score: 26.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.34; 7.47% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HOXA6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HOXA6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HOXA6 Gene

Disorders for HOXA6 Gene

Relevant External Links for HOXA6

Genetic Association Database (GAD)
HOXA6
Human Genome Epidemiology (HuGE) Navigator
HOXA6
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HOXA6

No disorders were found for HOXA6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HOXA6 Gene

Publications for HOXA6 Gene

  1. High-density association study of 383 candidate genes for volumetric BMD at the femoral neck and lumbar spine among older men. (PMID: 19453261) Yerges L.M. … Zmuda J.M. (J. Bone Miner. Res. 2009) 3 46 64
  2. 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 64
  3. Human chromosome 7: DNA sequence and biology. (PMID: 12690205) Scherer S.W. … Tsui L.-C. (Science 2003) 3 4 64
  4. The DNA sequence of human chromosome 7. (PMID: 12853948) Hillier L.W. … Wilson R.K. (Nature 2003) 3 4 64
  5. Vertebrate homeobox gene nomenclature. (PMID: 1358459) Scott M.P. (Cell 1992) 2 3 64

Products for HOXA6 Gene

Sources for HOXA6 Gene

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