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ITGA10 integrin subunit alpha 10 [ Homo sapiens (human) ]

Gene ID: 8515, updated on 2-Nov-2024

Summary

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Official Symbol
ITGA10provided by HGNC
Official Full Name
integrin subunit alpha 10provided by HGNC
Primary source
HGNC:HGNC:6135
See related
Ensembl:ENSG00000143127 MIM:604042; AllianceGenome:HGNC:6135
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PRO827
Summary
Integrins are integral transmembrane glycoproteins composed of noncovalently linked alpha and beta chains. They participate in cell adhesion as well as cell-surface mediated signalling. This gene encodes an integrin alpha chain and is expressed at high levels in chondrocytes, where it is transcriptionally regulated by AP-2epsilon and Ets-1. The protein encoded by this gene binds to collagen. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]
Expression
Broad expression in lung (RPKM 2.4), heart (RPKM 1.3) and 22 other tissues See more
Orthologs
mouse all
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Genomic context

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See ITGA10 in Genome Data Viewer
Location:
1q21.1
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (145891208..145910050, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (145008042..145026867, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (145525030..145543868)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ankyrin repeat domain 35 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1266 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:145562391-145562908 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:145556249-145557232 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1267 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1268 Neighboring gene uncharacterized LOC107985593 Neighboring gene peroxisomal biogenesis factor 11 beta Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:145516673-145517219 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:145516125-145516672 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1616 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1617 Neighboring gene gonadotropin releasing hormone receptor 2 (pseudogene) Neighboring gene RNA binding motif protein 8A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Chondrocyte-matrix attachment complexes mediate survival and differentiation. Svoboda KK. Microsc Res Tech, 1998 Oct 15. PMID 9822998
  2. The integrin alpha10 subunit: expression pattern, partial gene structure, and chromosomal localization. Lehnert K, et al. Cytogenet Cell Genet, 1999. PMID 10702680
  3. Collagen-binding I domain integrins--what do they do? Gullberg DE, et al. Prog Histochem Cytochem, 2002. PMID 11876085
  4. Epigenetic and in vivo comparison of diverse MSC sources reveals an endochondral signature for human hematopoietic niche formation. Reinisch A, et al. Blood, 2015 Jan 8. PMID 25406351, Free PMC Article
  5. Integrin genes and susceptibility to human melanoma. Lenci RE, et al. Mutagenesis, 2012 May. PMID 22189006

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ZIP10 drives osteosarcoma proliferation and chemoresistance through ITGA10-mediated activation of the PI3K/AKT pathway.
    Title: ZIP10 drives osteosarcoma proliferation and chemoresistance through ITGA10-mediated activation of the PI3K/AKT pathway.
  2. Systematic screening identifies a 2-gene signature as a high-potential prognostic marker of undifferentiated pleomorphic sarcoma/myxofibrosarcoma.
    Title: Systematic screening identifies a 2-gene signature as a high-potential prognostic marker of undifferentiated pleomorphic sarcoma/myxofibrosarcoma.
  3. Unique charge-dependent constraints on collagen recognition by integrin alpha10beta1 have been described.
    Title: Unique charge-dependent constraint on collagen recognition by integrin α10β1.
  4. CNS disease was associated with enhanced expression of cytoplasmic and membranous ITGA10 and nuclear PTEN (P < 0.0005, P = 0.002, P = 0.024, respectively). sCNSL presented decreased membranous CD44 and nuclear and cytoplasmic cadherin-11 expressions (P = 0.001, P = 0.006, P = 0.048, respectively). In PCNSL lactoferrin expression was upregulated (P < 0.0005).
    Title: Integrin alpha 10, CD44, PTEN, cadherin-11 and lactoferrin expressions are potential biomarkers for selecting patients in need of central nervous system prophylaxis in diffuse large B-cell lymphoma.
  5. Analyses of the functional regulatory domains of the integrin alpha 10 promoter suggest that AP-2epsilon and Ets-1 are involved in the transcriptional regulation of this gene in chondrocytes.
    Title: Regulation of integrin alpha10 expression in chondrocytes by the transcription factors AP-2epsilon and Ets-1.
  6. Mouse and human articular chondrocytes express extracellular splice variants of the alpha10 subunit
    Title: Characterization of the mouse integrin subunit alpha10 gene and comparison with its human homologue. Genomic structure, chromosomal localization and identification of splice variants.
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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables collagen binding TAS
Traceable Author Statement
more info
 PubMed 
enables collagen binding involved in cell-matrix adhesion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables integrin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell adhesion mediated by integrin IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell-cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell-matrix adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell-matrix adhesion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in cell-matrix adhesion NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in integrin-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in integrin-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in integrin-mediated signaling pathway NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of integrin alpha10-beta1 complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of integrin alpha10-beta1 complex IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of integrin complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
integrin alpha-10

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001303040.2 → NP_001289969.1  integrin alpha-10 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks three alternate exons in the 5' coding region and uses an alternate start codon compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC243547, AF112345, AK304155, BM311010
    UniProtKB/TrEMBL
    B4E282
    Conserved Domains (3) summary
    smart00191
    Location:414 → 468
    Int_alpha; Integrin alpha (beta-propellor repeats)
    cd01469
    Location:35 → 215
    vWA_integrins_alpha_subunit; Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta ...
    pfam08441
    Location:511 → 919
    Integrin_alpha2; Integrin alpha

  2. NM_001303041.2 → NP_001289970.1  integrin alpha-10 isoform 3 precursor

    See identical proteins and their annotated locations for NP_001289970.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks four alternate exons in the 5' coding region but maintains the reading frame compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AF112345, BC140831
    Consensus CDS
    CCDS76204.1
    UniProtKB/TrEMBL
    B4E282
    Related
    ENSP00000439894.1, ENST00000539363.2
    Conserved Domains (3) summary
    smart00191
    Location:402 → 456
    Int_alpha; Integrin alpha (beta-propellor repeats)
    cd01469
    Location:23 → 203
    vWA_integrins_alpha_subunit; Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta ...
    pfam08441
    Location:499 → 907
    Integrin_alpha2; Integrin alpha

  3. NM_003637.5 → NP_003628.2  integrin alpha-10 isoform 1 precursor

    See identical proteins and their annotated locations for NP_003628.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC243547, AF074015, AF112345
    Consensus CDS
    CCDS72869.1
    UniProtKB/Swiss-Prot
    B2RAM4, B2RTV5, O75578, Q6UXJ6, Q9UHZ8
    UniProtKB/TrEMBL
    B4E2A1
    Related
    ENSP00000358310.3, ENST00000369304.8
    Conserved Domains (3) summary
    smart00191
    Location:545 → 599
    Int_alpha; Integrin alpha (beta-propellor repeats)
    cd01469
    Location:166 → 346
    vWA_integrins_alpha_subunit; Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta ...
    pfam08441
    Location:642 → 1050
    Integrin_alpha2; Integrin alpha

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    145891208..145910050 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047432909.1 → XP_047288865.1  integrin alpha-10 isoform X8

  2. XM_047432895.1 → XP_047288851.1  integrin alpha-10 isoform X3

  3. XM_047432924.1 → XP_047288880.1  integrin alpha-10 isoform X12

  4. XM_047432906.1 → XP_047288862.1  integrin alpha-10 isoform X7

  5. XM_047432904.1 → XP_047288860.1  integrin alpha-10 isoform X6

  6. XM_047432915.1 → XP_047288871.1  integrin alpha-10 isoform X10

  7. XM_017002626.1 → XP_016858115.1  integrin alpha-10 isoform X11

    UniProtKB/TrEMBL
    B4E282

  8. XM_017002623.1 → XP_016858112.1  integrin alpha-10 isoform X2

    UniProtKB/TrEMBL
    B4E2A1

  9. XM_047432910.1 → XP_047288866.1  integrin alpha-10 isoform X9

  10. XM_017002625.1 → XP_016858114.1  integrin alpha-10 isoform X5

    UniProtKB/TrEMBL
    B4E2A1

  11. XM_017002624.1 → XP_016858113.1  integrin alpha-10 isoform X4

    UniProtKB/TrEMBL
    B4E2A1

  12. XM_017002622.1 → XP_016858111.1  integrin alpha-10 isoform X1

    UniProtKB/TrEMBL
    B4E2A1

  13. XM_011510083.2 → XP_011508385.1  integrin alpha-10 isoform X13

    UniProtKB/TrEMBL
    B4E282
    Conserved Domains (3) summary
    smart00191
    Location:380 → 434
    Int_alpha; Integrin alpha (beta-propellor repeats)
    cd01469
    Location:1 → 181
    vWA_integrins_alpha_subunit; Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta ...
    pfam08441
    Location:477 → 885
    Integrin_alpha2; Integrin alpha

  14. XM_011510084.1 → XP_011508386.1  integrin alpha-10 isoform X15

    Conserved Domains (2) summary
    smart00191
    Location:36 → 90
    Int_alpha; Integrin alpha (beta-propellor repeats)
    pfam08441
    Location:133 → 541
    Integrin_alpha2; Integrin alpha

  15. XM_017002627.1 → XP_016858116.1  integrin alpha-10 isoform X14

RNA

  1. XR_007064482.1 RNA Sequence

  2. XR_001737504.2 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    145008042..145026867 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054339308.1 → XP_054195283.1  integrin alpha-10 isoform X8

  2. XM_054339303.1 → XP_054195278.1  integrin alpha-10 isoform X3

  3. XM_054339312.1 → XP_054195287.1  integrin alpha-10 isoform X12

  4. XM_054339307.1 → XP_054195282.1  integrin alpha-10 isoform X7

  5. XM_054339306.1 → XP_054195281.1  integrin alpha-10 isoform X6

  6. XM_054339310.1 → XP_054195285.1  integrin alpha-10 isoform X10

  7. XM_054339311.1 → XP_054195286.1  integrin alpha-10 isoform X11

  8. XM_054339302.1 → XP_054195277.1  integrin alpha-10 isoform X2

  9. XM_054339309.1 → XP_054195284.1  integrin alpha-10 isoform X9

  10. XM_054339305.1 → XP_054195280.1  integrin alpha-10 isoform X5

  11. XM_054339304.1 → XP_054195279.1  integrin alpha-10 isoform X4

  12. XM_054339301.1 → XP_054195276.1  integrin alpha-10 isoform X1

  13. XM_054339313.1 → XP_054195288.1  integrin alpha-10 isoform X13

  14. XM_054339315.1 → XP_054195290.1  integrin alpha-10 isoform X15

  15. XM_054339314.1 → XP_054195289.1  integrin alpha-10 isoform X14

RNA

  1. XR_008486186.1 RNA Sequence

  2. XR_008486187.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O75578.2 GenPept UniProtKB/Swiss-Prot:O75578

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