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    CDH24 cadherin 24 [ Homo sapiens (human) ]

    Gene ID: 64403, updated on 28-Oct-2024

    Summary

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    Official Symbol
    CDH24provided by HGNC
    Official Full Name
    cadherin 24provided by HGNC
    Primary source
    HGNC:HGNC:14265
    See related
    Ensembl:ENSG00000139880 MIM:618599; AllianceGenome:HGNC:14265
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CDH11L
    Summary
    Enables several functions, including alpha-catenin binding activity; beta-catenin binding activity; and delta-catenin binding activity. Acts upstream of or within cell-cell adhesion. Located in cell-cell junction. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in endometrium (RPKM 4.3), gall bladder (RPKM 3.2) and 23 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CDH24 in Genome Data Viewer
    Location:
    14q11.2
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (23047067..23057520, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (17247688..17258139, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (23516276..23526729, complement)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene proteasome 20S subunit beta 5 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr14:23503835-23505034 Neighboring gene proteasome subunit beta 11 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:23521379-23521879 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5600 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5601 Neighboring gene collagen alpha-2(I) chain-like Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr14:23530845-23532044 Neighboring gene apoptotic chromatin condensation inducer 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:23537671-23538195 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8159 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8160 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8161 Neighboring gene uncharacterized LOC124903288 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr14:23547601-23548800

    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. Frameshift mutations of cadherin genes DCHS2, CDH10 and CDH24 genes in gastric and colorectal cancers with high microsatellite instability. An CH, et al. Pathol Oncol Res, 2015 Jan. PMID 24898286
    2. Characterization of cadherin-24, a novel alternatively spliced type II cadherin. Katafiasz BJ, et al. J Biol Chem, 2003 Jul 25. PMID 12734196
    3. E-cadherin and APC compete for the interaction with beta-catenin and the cytoskeleton. Hülsken J, et al. J Cell Biol, 1994 Dec. PMID 7806582, Free PMC Article
    4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. Clark HF, et al. Genome Res, 2003 Oct. PMID 12975309, Free PMC Article
    5. A human protein-protein interaction network: a resource for annotating the proteome. Stelzl U, et al. Cell, 2005 Sep 23. PMID 16169070

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Unconventional CDH10, CDH24 and DCHS2 genes harbored frameshift mutations.
      Title: Frameshift mutations of cadherin genes DCHS2, CDH10 and CDH24 genes in gastric and colorectal cancers with high microsatellite instability.
    2. cadherin-24 is a novel alternatively spliced type II cadherin
      Title: Characterization of cadherin-24, a novel alternatively spliced type II cadherin.
    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)

    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

    Clone Names

    • FLJ25193, MGC131880

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables alpha-catenin 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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables delta-catenin 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 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
    		  
    acts_upstream_of_or_within cell-cell adhesion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 junction assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in adherens 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-cell junction IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    cadherin-24
    Names
    cadherin 24, type 2

    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_022478.4 → NP_071923.2  cadherin-24 isoform 1 precursor

      See identical proteins and their annotated locations for NP_071923.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AY260901, BC009332, DC310509
      Consensus CDS
      CCDS9585.1
      UniProtKB/Swiss-Prot
      D3DS44, Q86UP0, Q86UP1, Q9NT84
      UniProtKB/TrEMBL
      A8K0L1
      Related
      ENSP00000380517.3, ENST00000397359.7
      Conserved Domains (4) summary
      cd11304
      Location:154 → 255
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:70 → 148
      CA; Cadherin repeats
      pfam01049
      Location:671 → 812
      Cadherin_C; Cadherin cytoplasmic region
      cl09101
      Location:521 → 615
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    2. NM_144985.4 → NP_659422.2  cadherin-24 isoform 2

      See identical proteins and their annotated locations for NP_659422.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AY260900, AY358199, BC009332, DC310509
      Consensus CDS
      CCDS9586.1
      UniProtKB/TrEMBL
      A8K0L1
      Related
      ENSP00000434821.2, ENST00000487137.7
      Conserved Domains (4) summary
      cd11304
      Location:379 → 475
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:70 → 148
      CA; Cadherin repeats
      pfam01049
      Location:633 → 774
      Cadherin_C; Cadherin cytoplasmic region
      cl09101
      Location:483 → 577
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    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_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      23047067..23057520 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047431697.1 → XP_047287653.1  cadherin-24 isoform X2

    2. XM_011537089.2 → XP_011535391.1  cadherin-24 isoform X1

      UniProtKB/TrEMBL
      Q96LQ7
      Conserved Domains (2) summary
      cd11304
      Location:154 → 255
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:70 → 148
      CA; Cadherin repeats

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      17247688..17258139 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054376605.1 → XP_054232580.1  cadherin-24 isoform X2

    2. XM_054376604.1 → XP_054232579.1  cadherin-24 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q86UP0.1 GenPept UniProtKB/Swiss-Prot:Q86UP0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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