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

    Gene ID: 8515, updated on 27-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
    • 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.
    Submit: New GeneRIF Correction

    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)

    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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    NEW Try the new Transcript table

    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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