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    CDH5 cadherin 5 [ Homo sapiens (human) ]

    Gene ID: 1003, updated on 2-Nov-2024

    Summary

    Official Symbol
    CDH5provided by HGNC
    Official Full Name
    cadherin 5provided by HGNC
    Primary source
    HGNC:HGNC:1764
    See related
    Ensembl:ENSG00000179776 MIM:601120; AllianceGenome:HGNC:1764
    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
    7B4; CD144
    Summary
    This gene encodes a classical cadherin of the cadherin superfamily. The encoded preproprotein is proteolytically processed to generate the mature glycoprotein. This calcium-dependent cell-cell adhesion molecule is comprised of five extracellular cadherin repeats, a transmembrane region and a highly conserved cytoplasmic tail. Functioning as a classical cadherin by imparting to cells the ability to adhere in a homophilic manner, this protein plays a role in endothelial adherens junction assembly and maintenance. This gene is located in a gene cluster in a region on the long arm of chromosome 16 that is involved in loss of heterozygosity events in breast and prostate cancer. [provided by RefSeq, Nov 2015]
    Expression
    Biased expression in placenta (RPKM 108.8), lung (RPKM 57.5) and 12 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See CDH5 in Genome Data Viewer
    Location:
    16q21
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (66366691..66404784)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (72161057..72198985)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (66400594..66438687)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371317 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:66339117-66339617 Neighboring gene RNA, 5S ribosomal pseudogene 428 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:66358401-66358938 Neighboring gene uncharacterized LOC105371318 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:66400487-66401036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66401847-66402553 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7557 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:66404897-66405398 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66406597-66407126 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66407769-66408342 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66413378-66414004 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66417102-66417626 Neighboring gene Sharpr-MPRA regulatory region 12004 Neighboring gene long intergenic non-protein coding RNA 920 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:66462026-66462626 Neighboring gene nuclear envelope phosphatase-regulatory subunit 1-like Neighboring gene brain expressed associated with NEDD4 1 Neighboring gene uncharacterized LOC124903698

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat HIV-1 Tat C treated human brain microvascular endothelial cells result in downregulation and dissociation of VE-PTP and SHP2 from VE-cadherin PubMed
    tat HIV-1 Tat C induces phosphorylation of adherens junction proteins VE-cadherin and beta-catenin in human brain microvascular endothelial cells PubMed
    tat Treatment of human brain microvascular endothelial cells with HIV-1 Tat downregulates the expression of VE-cadherin, claudin-5, ZO-1, and occludin proteins in a dose- and time-dependent manner 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

    • FLJ17376

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables BMP receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables fibrinogen binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein phosphatase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein phosphatase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein tyrosine kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables signaling receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transmembrane transporter binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables vascular endothelial growth factor receptor 2 binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in adherens junction organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in adherens junction organization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in bicellular tight junction assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in blood vessel endothelial cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in blood vessel maturation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell-cell adhesion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell-cell adhesion mediated by cadherin IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell-cell adhesion mediated by cadherin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell-cell junction assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell-cell junction assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in endothelial cell morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in intracellular calcium ion homeostasis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in maintenance of blood-brain barrier NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of cell population proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of negative regulation of endothelial cell apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of inflammatory response IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in negative regulation of microtubule polymerization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of BMP signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of angiogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of establishment of endothelial barrier IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of protein-containing complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein localization to bicellular tight junction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of establishment of cell polarity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of protein phosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of vascular permeability IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in transforming growth factor beta receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in adherens junction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in adherens junction IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in adherens junction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    is_active_in bicellular tight junction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of catenin complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cell junction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell-cell junction IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in external side of plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in nuclear membrane IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    cadherin-5
    Names
    7B4 antigen
    VE-cadherin
    cadherin 5, type 2 (vascular endothelium)
    cadherin 5, type 2, VE-cadherin (vascular epithelium)
    cd144 antigen
    endothelial-specific cadherin
    vascular endothelial cadherin

    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.

    mRNA and Protein(s)

    1. NM_001795.5NP_001786.2  cadherin-5 preproprotein

      See identical proteins and their annotated locations for NP_001786.2

      Status: REVIEWED

      Source sequence(s)
      AB209908, BQ716387, X59796, X79981
      Consensus CDS
      CCDS10804.1
      UniProtKB/Swiss-Prot
      P33151, Q4VAI5, Q4VAI6
      UniProtKB/TrEMBL
      Q59EA3
      Related
      ENSP00000344115.3, ENST00000341529.8
      Conserved Domains (4) summary
      cd11304
      Location:156254
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:79149
      CA; Cadherin repeats
      pfam00028
      Location:263364
      Cadherin; Cadherin domain
      pfam01049
      Location:633775
      Cadherin_C; Cadherin cytoplasmic region

    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_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      66366691..66404784
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047433470.1XP_047289426.1  cadherin-5 isoform X1

    2. XM_047433469.1XP_047289425.1  cadherin-5 isoform X1

    3. XM_047433471.1XP_047289427.1  cadherin-5 isoform X2

      UniProtKB/Swiss-Prot
      P33151, Q4VAI5, Q4VAI6
      Related
      ENSP00000497290.1, ENST00000649567.1
    4. XM_011522801.3XP_011521103.1  cadherin-5 isoform X1

      UniProtKB/TrEMBL
      Q59EA3
      Conserved Domains (4) summary
      cd11304
      Location:156254
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:79149
      CA; Cadherin repeats
      pfam00028
      Location:272373
      Cadherin; Cadherin domain
      pfam01049
      Location:635786
      Cadherin_C; Cadherin cytoplasmic region

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      72161057..72198985
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054379335.1XP_054235310.1  cadherin-5 isoform X1

    2. XM_054379334.1XP_054235309.1  cadherin-5 isoform X1

    3. XM_054379336.1XP_054235311.1  cadherin-5 isoform X2

    4. XM_054379333.1XP_054235308.1  cadherin-5 isoform X1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001114117.1: Suppressed sequence

      Description
      NM_001114117.1: This RefSeq was temporarily suppressed because currently there is not sufficient data to support this transcript.