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    CTNNA3 catenin alpha 3 [ Homo sapiens (human) ]

    Gene ID: 29119, updated on 7-Apr-2024

    Summary

    Official Symbol
    CTNNA3provided by HGNC
    Official Full Name
    catenin alpha 3provided by HGNC
    Primary source
    HGNC:HGNC:2511
    See related
    Ensembl:ENSG00000183230 MIM:607667; AllianceGenome:HGNC:2511
    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
    VR22; ARVD13
    Summary
    This gene encodes a protein that belongs to the vinculin/alpha-catenin family. The encoded protein plays a role in cell-cell adhesion in muscle cells. Mutations in this gene are associated with arrhythmogenic right ventricular dysplasia, familial 13. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2014]
    Expression
    Biased expression in heart (RPKM 5.0), brain (RPKM 1.3) and 5 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Location:
    10q21.3
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (65912523..67763594, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (66775664..68632045, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (67672281..69455953, complement)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105378337 Neighboring gene MPRA-validated peak984 silencer Neighboring gene MED14-independent group 3 enhancer GRCh37_chr10:67374664-67375863 Neighboring gene long intergenic non-protein coding RNA 1515 Neighboring gene uncharacterized LOC105378339 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15152 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15172 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15180 Neighboring gene uncharacterized LOC105378340 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15277 Neighboring gene uncharacterized LOC124902440 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15319 Neighboring gene uncharacterized LOC124902441 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15324 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15354 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:68197862-68199061 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15439 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15446 Neighboring gene small nucleolar RNA U13 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15534 Neighboring gene uncharacterized LOC101928961 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:68685181-68686037 Neighboring gene leucine rich repeat transmembrane neuronal 3 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:68990733-68991316 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:68990147-68990732 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15618 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15623 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15629 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:69087266-69087766 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15668 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15678 Neighboring gene ribosomal protein L7a pseudogene 51 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15807 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15830 Neighboring gene microRNA 7151 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15959 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_15994 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3449 Neighboring gene Sharpr-MPRA regulatory region 10071 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_16073 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3450 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3451 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3452 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3453 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3454 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3455 Neighboring gene tRNA-Ser (anticodon TGA) 1-1 Neighboring gene aldo-keto reductase family 1 member B10 pseudogene 1 Neighboring gene ribosomal protein L21 pseudogene 92

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Arrhythmogenic right ventricular dysplasia 13
    MedGen: C3810138 OMIM: 615616 GeneReviews: Not available
    Compare labs

    Copy number response

    Description
    Copy number response
    Triplosensitivity

    No evidence available (Last evaluated 2018-10-24)

    ClinGen Genome Curation PagePubMed
    Haploinsufficency

    No evidence available (Last evaluated 2018-10-24)

    ClinGen Genome Curation PagePubMed

    EBI GWAS Catalog

    Description
    A genome-wide association study (GWAS) for bronchopulmonary dysplasia.
    EBI GWAS Catalog
    Alpha-T-catenin (CTNNA3) gene was identified as a risk variant for toluene diisocyanate-induced asthma by genome-wide association analysis.
    EBI GWAS Catalog
    Gene network analysis in a pediatric cohort identifies novel lung function genes.
    EBI GWAS Catalog
    Genome-wide association study identifies multiple susceptibility loci for pulmonary fibrosis.
    EBI GWAS Catalog
    Genome-wide association study of a heart failure related metabolomic profile among African Americans in the Atherosclerosis Risk in Communities (ARIC) study.
    EBI GWAS Catalog
    Genome-wide meta-analysis identifies new susceptibility loci for migraine.
    EBI GWAS Catalog
    Genome-wide study of association and interaction with maternal cytomegalovirus infection suggests new schizophrenia loci.
    EBI GWAS Catalog
    GWAS of dental caries patterns in the permanent dentition.
    EBI GWAS Catalog
    Novel genes identified in a high-density genome wide association study for nicotine dependence.
    EBI GWAS Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope transmembrane glycoprotein gp41 env HIV-1 gp41 and alpha-catenin co-localize in gp160 and GST-alpha-catenin expressing cells; the leucine zipper-like domain (gp160 residues 791-824) of gp41 interacts strongly with the carboxy terminus (residues 795-906) of alpha-catenin PubMed
    nucleocapsid gag HIV-1 NC is identified to have a physical interaction with catenin (cadherin-associated protein), alpha 3 (CTNNA3) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC26194, MGC75041

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables actin filament binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables beta-catenin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables beta-catenin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables cadherin binding TAS
    Traceable Author Statement
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in adherens junction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
     
    located_in desmosome IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in fascia adherens IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in fascia adherens IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in lamellipodium IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    catenin alpha-3
    Names
    alpha-T-catenin
    alpha-catenin-like protein
    catenin (cadherin-associated protein), alpha 3

    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_034072.2 RefSeqGene

      Range
      72399..1856071
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001127384.3NP_001120856.1  catenin alpha-3 isoform a

      See identical proteins and their annotated locations for NP_001120856.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein (isoform a).
      Source sequence(s)
      AC018979, AK289756, AL731538, BC030646, BX103986
      Consensus CDS
      CCDS7269.1
      UniProtKB/Swiss-Prot
      Q5VSR2, Q6P056, Q9UI47
      UniProtKB/TrEMBL
      A8K141
      Related
      ENSP00000508047.1, ENST00000682758.1
      Conserved Domains (1) summary
      pfam01044
      Location:83856
      Vinculin; Vinculin family
    2. NM_001291133.2NP_001278062.1  catenin alpha-3 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) has multiple differences compared to variant 1. These differences result in distinct 5' and 3' UTRs and cause translation initiation at an alternate start codon compared to variant 1. The encoded protein (isoform b) has a longer N-terminus, a distinct C-terminus, and is shorter compared to isoform a.
      Source sequence(s)
      AC022401, AC026394, BC030646
      UniProtKB/TrEMBL
      Q8WW10
      Conserved Domains (1) summary
      pfam01044
      Location:95369
      Vinculin; Vinculin family
    3. NM_013266.4NP_037398.2  catenin alpha-3 isoform a

      See identical proteins and their annotated locations for NP_037398.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC018979, AF091606, AK313882, AL607022, BX103986
      Consensus CDS
      CCDS7269.1
      UniProtKB/Swiss-Prot
      Q5VSR2, Q6P056, Q9UI47
      UniProtKB/TrEMBL
      A8K141
      Related
      ENSP00000389714.1, ENST00000433211.7
      Conserved Domains (1) summary
      pfam01044
      Location:83856
      Vinculin; Vinculin family

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      65912523..67763594 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047425124.1XP_047281080.1  catenin alpha-3 isoform X3

    2. XM_017016152.2XP_016871641.1  catenin alpha-3 isoform X2

      UniProtKB/TrEMBL
      A8K141
    3. XM_017016151.2XP_016871640.1  catenin alpha-3 isoform X1

      UniProtKB/TrEMBL
      A8K141
    4. XM_017016155.3XP_016871644.1  catenin alpha-3 isoform X4

    5. XM_017016156.2XP_016871645.1  catenin alpha-3 isoform X4

    6. XM_017016157.3XP_016871646.1  catenin alpha-3 isoform X5

    7. XM_017016158.3XP_016871647.1  catenin alpha-3 isoform X6

      UniProtKB/TrEMBL
      Q8WW10
      Conserved Domains (1) summary
      pfam01044
      Location:95369
      Vinculin; Vinculin family

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      66775664..68632045 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054365669.1XP_054221644.1  catenin alpha-3 isoform X3

    2. XM_054365668.1XP_054221643.1  catenin alpha-3 isoform X2

    3. XM_054365667.1XP_054221642.1  catenin alpha-3 isoform X1

    4. XM_054365671.1XP_054221646.1  catenin alpha-3 isoform X4

    5. XM_054365670.1XP_054221645.1  catenin alpha-3 isoform X4

    6. XM_054365672.1XP_054221647.1  catenin alpha-3 isoform X5

    7. XM_054365673.1XP_054221648.1  catenin alpha-3 isoform X6