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HOXA6 Gene

protein-coding   GIFtS: 47

GC07M027065
homeobox A6
(Previous name: homeo box A6 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbols: HOX1B, HOX1)
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases & Descriptions
homeobox A61 2     HOX1.22
HOX1B2 3 5     homeobox protein Hox-A62
homeo box A61 2     homeobox protein HOXA62
Homeobox protein Hox-1B2 3     homeo box 1B2
HOX12     

External Ids:    HGNC: 51071   Entrez Gene: 32032   Ensembl: ENSG000001060067   UniProtKB: P312673   

Export aliases for HOXA6 gene to outside databases

Previous GC identifers: GC07M026827 GC07M026927 GC07M026958 GC07M027151


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for HOXA6:
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)

UniProtKB/Swiss-Prot: HXA6_HUMAN, P31267
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 Wiki entry for HOXA6

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the HOXA6 gene promoter:
         C/EBPalpha   c-Myb   GR-beta   GR-alpha   AP-2alphaA   AP-2gamma   NF-kappaB1   Sp1   p53   FOXO1a   
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for HOXA6

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for HOXA6 


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 7p15.2   Ensembl cytogenetic band:  7p15.2   HGNC cytogenetic band: 7p15.2

HOXA6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HOXA6 gene location

GeneLoc gene densities for chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M027065:  view genomic region     (about GC identifiers)

Start:
27,065,504 bp from pter
End:
27,067,754 bp from pter
Size:
2,251 bases
Orientation:
minus strand

1 alternative location:
Chr7- 27,185,015-27,190,222     
RefSeq DNA sequence:
NC_000007.13  NT_007819.17  NT_079592.2  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: HXA6_HUMAN, P31267 (See protein sequence)
Recommended Name: Homeobox protein Hox-A6  
Size: 233 amino acids; 26339 Da
Subcellular location: Nucleus
Secondary accessions: A4D192 Q2M3G3 Q9UPM0

Explore the universe of human proteins at neXtProt for HOXA6: NX_P31267 

REFSEQ proteins: NP_076919.1  

ENSEMBL proteins: 
ENSP00000222728 


Human Recombinant Proteins 
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Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
OriGene Protein Over-expression Lysate: HOXA6
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Novus Biologicals Lysate for HOXA6
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Browse ProSpec Recombinant Proteins

1 Gene Ontology (GO) cellular component term (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005634 nucleus IEA--
About this table

HOXA6 for ontologies           About GeneDecksing



Antibodies for HOXA6: 
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Browse ELISAs at Sigma-Aldrich
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GenScript Custom Assay Services for HOXA6 
Browse Enzo Life Sciences for kits & assays
Uscn ELISAs and CLIAs for HOXA6 


(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

HOXA6 for domains           About GeneDecksing

5/7 InterPro domains/families (see all 7):
 IPR017995 Homeobox_antennapedia
 IPR001827 Homeobox_Antennapedia_CS
 IPR001356 Homeobox
 IPR017970 Homeobox_CS
 IPR020479 Homeobox_eu

Graphical View of Domain Structure for InterPro Entry P31267

ProtoNet protein and cluster: P31267

1 Blocks protein family: IPB001827 Homeobox protein

UniProtKB/Swiss-Prot: HXA6_HUMAN, P31267
Similarity: Belongs to the Antp homeobox family
Similarity: Contains 1 homeobox DNA-binding domain


(According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
About This Section

UniProtKB/Swiss-Prot: HXA6_HUMAN, P31267
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

Inhib.
RNA:
    
Browse for Gene Knock-down Tools from Millipore
Browse Nano Scale siRNA at Sigma-Aldrich
Sigma-Aldrich siRNA for HOXA6
Sigma-Aldrich shRNA for HOXA6
OriGene 29mer shRNA kits in GFP-retroviral vector: HOXA6
OriGene shRNA RFP: HOXA6
OriGene basic RS shRNA: HOXA6
OriGene siRNA: HOXA6
QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of HOXA6 
miRNA:Sigma-Aldrich microRNA Mimics for HOXA6
Sigma-Aldrich microRNA target validation systems for HOXA6 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of HOXA6 
Search SABiosciences for Assays for microRNAs that regulate HOXA6

Gene
Editing:
Browse CompoZr Knockout ZFN at Sigma-Aldrich 

Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
Browse iPSC Reprogramming Factors at Sigma-Aldrich
OriGene GFP tagged cDNA clones in CMV expression vector: HOXA6
OriGene Myc/DDK tagged cDNA clones in CMV expression vector: HOXA6
OriGene untagged cDNA clones in CMV expression vector: HOXA6
Browse 3'-UTR reporter clones for miRNA target validation 
Browse MicroRNA Expression Plasmids 
GenScript cDNA clone with any tag delivered in your preferred vector: HOXA6 
Browse Sino Biological Human cDNA Clones

Cell
Lines:
  
GenScript Custom overexpressing Cell Line Services for HOXA6 

Genatlas biochemistry entry for HOXA6:
homeo box A6(1B),homologous to mouse Hox-1.2,Drosophila Antp,Ubx,abd-A

4 Gene Ontology (GO) molecular function terms (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0003700 sequence-specific DNA binding transcription factor activity IEA--
GO:0005515 protein binding IEA--
GO:0030528 transcription regulator activity IEA--
GO:0043565 sequence-specific DNA binding IEA--
About this table

HOXA6 for ontologies           About GeneDecksing

Animal Models: 1 MGI mutant phenotype (inferred from 1 allele(MGI details for Hoxa6):

skeleton

HOXA6 for phenotypes           About GeneDecksing


(Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
About This Section

    SABiosciences Custom Pathway-Focused PCR Arrays for HOXA6 

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for HOXA6

5 Gene Ontology (GO) biological process terms (GO ID links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006355 regulation of transcription, DNA-dependent IEA--
GO:0007275 multicellular organismal development IEA--
GO:0009952 anterior/posterior pattern formation IEA--
GO:0048704 embryonic skeletal system morphogenesis IEA--
GO:0048706 embryonic skeletal system development ----
About this table

HOXA6 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section
Browse Small Molecules at Sigma-Aldrich
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for HOXA6


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Millipore,
siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
About This Section

Inhib.
RNA:
     
Browse for Gene Knock-down Tools from Millipore
Browse Nano Scale siRNA at Sigma-Aldrich
Sigma-Aldrich siRNA for HOXA6
Sigma-Aldrich shRNA for HOXA6
OriGene 29mer shRNA kits in GFP-retroviral vector: HOXA6
OriGene shRNA RFP: HOXA6
OriGene basic RS shRNA: HOXA6
OriGene siRNA: HOXA6
QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of HOXA6 
miRNA: Sigma-Aldrich microRNA Mimics for HOXA6
Sigma-Aldrich microRNA target validation systems for HOXA6 
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of HOXA6 
Search SABiosciences for Assays for microRNAs that regulate HOXA6
Clones: Sigma-Aldrich FLAG tag genes for HOXA6
OriGene GFP tagged cDNA clones in CMV expression vector: HOXA6
OriGene Myc/DDK tagged cDNA clones in CMV expression vector: HOXA6
OriGene untagged cDNA clones in CMV expression vector: HOXA6
Browse 3'-UTR reporter clones for miRNA target validation 
Browse OriGene MicroRNA Expression Plasmids 
GenScript cDNA clone with any tag delivered in your preferred vector: HOXA6 
Primers: OriGene genome-wide validated SYBR primer pairs: HOXA6
Browse OriGene validated miRNA SYBR primer pairs 
SABiosciences RT2 qPCR Primer Assay for HOXA6: PPH14989A

REFSEQ mRNAs for HOXA6 gene: 

NM_024014.2  

Additional cDNA sequence: 

BC069497.1 BC104915.1 BC104917.1 

1 DOTS entry:

DT.92068629 

7 AceView cDNA sequences:

NM_024014 BC069497 BP871526 BE792613 BG749730 BF738660 BF820847 

highest scoring ESTs for HOXA6:

BE792613 BM020281 BC069497 BG749730 BC104915 BC104917 DQ655986 AW292647 

Unigene Cluster for HOXA6:

Homeobox A6
Hs.679517  [show with all ESTs]
Unigene Representative Sequence: NM_024014


GeneLoc Exon Structure

2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000521478 ENST00000222728(uc003syo.1)

(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Primers from OriGene and/or SABiosciences )
About This Section

HOXA6 expression in normal and diseased human tissues

1  / 2  / 3

2 probe-sets matching HOXA6 gene

Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
208557_at2, 3 U133-A 1 0.91 1.00 -- -- NM_024014 0.20 0.17 0.18 3
208557_at2 U133Plus2 1 0.91 1.00 -- -- -- -- -- -- --
About this table
Data from Genenote  (Publications) and GNF BioGPS
    About these images
HOXA6 gene expression
HOXA6 gene electronic northern expression
HOXA6 gene sage expression
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.679517
Primers: OriGene genome-wide validated SYBR primer pairs: HOXA6
Browse OriGene validated miRNA SYBR primer pairs 
SABiosciences RT2 qPCR Primer Assay for HOXA6: PPH14989A
    SABiosciences Custom PCR Arrays for HOXA6 


(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for HOXA6 gene from 5/6 species (see all 6)
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
HOXA61   -- homeobox A6 97.14(n)
97.85(a)
611383  XM_849048.1  XP_854141.1 
cow
(Bos taurus)
HOXA61   -- homeobox A6 95.85(n)
97.85(a)
614264  XM_865011.2  XP_870104.1 
rat
(Rattus norvegicus)
Hoxa61   -- homeobox A6 94.56(n)
97(a)
685732  XM_001065038.1  XP_001065038.1 
mouse
(Mus musculus)
Hoxa61 , 5 6 (25.40 cM)5
homeobox A65
homeo box A61
92.96(n)1
96.55(a)1
154031  NM_010454.11  NP_034584.11 
 AB2215465  BC1191055  (see all 7)
chicken
(Gallus gallus)
HOXA61   -- homeobox A6 81.1(n)
87.01(a)
420630  NM_001030987.1  NP_001026158.1 
About this table        Species with no ortholog for HOXA6

ENSEMBL Gene Tree for HOXA6 (if available)

(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section
Paralogs for HOXA6 gene
HOXB82  HOXC82  HOXD82  HOXB62  

HOXA6 for paralogs           About GeneDecksing



(SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
About This Section

10/48 NCBI SNPs in HOXA6 are shown (see all 48)
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidChr 7 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
----------
rs9831841,2
C,F,A,H,27188379(+) CTCAGT/CATCCA 1 -- ng5116Minor allele frequency- C:0.21EA NA NS WA 2436
rs9831851,2
C,F,A,H,27188607(+) GGACCA/GCAGGG 1 -- ng518Minor allele frequency- G:0.20EA NA WA 392
rs9831861,2
C,F,A,H,27188659(+) TCACCA/GGCTCC 1 -- ng5113Minor allele frequency- G:0.43NS EA NA WA 948
rs37355291,2
C,F,27186771(+) GGGAAC/GTGATT 1 -- int18Minor allele frequency- G:0.18EA NS NA 2182
rs38075971,2
C,F,H,27189195(+) GGCAAT/CGGGGG 1 -- ng5112Minor allele frequency- C:0.15NS EA NA WA 676
rs38237641,2
C,F,A,27187753(+) CAGGTT/CCCCTC 1 -- ng51 trp310Minor allele frequency- C:0.32NS EA NA 514
rs47198851,2
C,F,A,27185723(+) TTTTCC/GACCTA 1 -- int124Minor allele frequency- N:0.00EA NA NS 1822
rs102567871,2
C,27189001(+) CGGTTC/TAGGAC 1 -- ng512Minor allele frequency- T:0.04NS WA 164
rs106859701,2
--27185882(+) gtgtg-/TGtgtgt 1 -- int10--------
rs119832001,2
C,F,H,27186596(+) AGGGTA/GCTCAG 1 -- int17Minor allele frequency- G:0.14NS EA NA 740
About this table

HapMap Linkage Disequilibrium images for HOXA6 (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
      Database of Genomic Variants (DGV) variations for HOXA6: --

QIAGEN SeqTarget long-range PCR primers for resequencing HOXA6 

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
About This Section

HOXA6 for disorders           About GeneDecksing

OMIM: 142951

Human Genome Epidemiology (HuGE) Navigator: HOXA6 (1 document)

Export disorders and mutations for HOXA6 gene to outside databases

(Possibly Related Articles in Doctor's Guide)
About This Section
  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6UniProtKB/TrEMBL, and/or 7Novoseek)
About This Section

10/13 PubMed articles for HOXA6 gene, integrated from 7 sources (see all 13):
(articles sorted by number of sources associating them with HOXA6)
  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
  2. Human chromosome 7: DNA sequence and biology. (PubMed id 12690205)1, 2 Scherer S.W.... Tsui L.-C. (2003)
  3. The DNA sequence of human chromosome 7. (PubMed id 12853948)1, 2 Hillier L.W.... Wilson R.K. (2003)
  4. Vertebrate homeobox gene nomenclature. (PubMed id 1358459)1, 3 Scott M.P. (1992)
  5. Nomenclature for human homeobox genes. (PubMed id 1973146)1, 3 McAlpine P.J. and Shows T.B. (1990)
  6. Organization of human class I homeobox genes. (PubMed id 2576652)1, 2 Boncinelli E.... Simeone A. (1989)
  7. High-density association study of 383 candidate genes for volumetric BMD at the femoral neck and lumbar spine among older men. (PubMed id 19453261)1 Yerges L.M....Zmuda J.M. (2009)
  8. Hoxa6 potentiates short-term hemopoietic cell proliferation and extended self-renewal. (PubMed id 19157684)1 Dickson G.J....Thompson A. (2009)
  9. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
  10. Complete mutation analysis panel of the 39 human HOX genes. (PubMed id 11857506)1 Kosaki K.... Matsuo N. (2002)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 3203 HGNC: 5107 AceView: HOXA6 Ensembl:ENSG00000106006 euGenes: HUgn3203
ECgene: HOXA6 H-InvDB: HOXA6

(According to HUGE)
About This Section
  --

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from XenneX, Inc.)
About This Section
Patent Information for HOXA6 gene:
Search GeneIP for patents involving HOXA6

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
About This Section

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 "Your Favorite Gene" Pathways and Molecular Interaction Networks Browse Nano Scale siRNA at Sigma-Aldrich
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 FLAG tag genes for HOXA6 Browse ELISAs at Sigma-Aldrich
 microRNA Target Validation Systems for HOXA6 Browse CompoZr Knockout ZFN at Sigma-Aldrich
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 SeqTarget long-range PCR primers for resequencing HOXA6
 QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for HOXA6
 QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of HOXA6
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The GeneCards human gene database gene index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

HOXA6 gene at Home site.
hostname: www-ab3 db genecards_305 index build: 81e solr: 1.4