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CDHR3 cadherin related family member 3 [ Homo sapiens (human) ]

Gene ID: 222256, updated on 12-May-2019

Summary

Official Symbol
CDHR3provided by HGNC
Official Full Name
cadherin related family member 3provided by HGNC
Primary source
HGNC:HGNC:26308
See related
Ensembl:ENSG00000128536 MIM:615610
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
CDH28
Expression
Biased expression in lung (RPKM 2.7), stomach (RPKM 0.9) and 10 other tissues See more
Orthologs

Genomic context

See CDHR3 in Genome Data Viewer
Location:
7q22.3
Exon count:
24
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 7 NC_000007.14 (105876750..106036431)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (105517251..105676877)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene EF-hand calcium binding domain 10 Neighboring gene Y-box binding protein 1 pseudogene 2 Neighboring gene ataxin 7 like 1 Neighboring gene ribosomal protein L13a pseudogene 16 Neighboring gene uncharacterized LOC107986833 Neighboring gene synaptophysin like 1 Neighboring gene DDB1 and CUL4 associated factor 13 pseudogene 1

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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
A genome-wide association study identifies CDHR3 as a susceptibility locus for early childhood asthma with severe exacerbations.
NHGRI GWA Catalog
Genome-wide association study identifies genetic determinants of warfarin responsiveness for Japanese.
NHGRI GWA Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
NHGRI GWA Catalog

General gene information

Markers

Homology

Clone Names

  • FLJ23834, FLJ43271, MGC133292, MGC133293

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cadherin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoskeletal protein binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein homodimerization activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
virus receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
adherens junction organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell-cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell-cell adhesion mediated by cadherin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell-cell junction assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
homophilic cell adhesion via plasma membrane adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
viral entry into host cell IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
catenin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell surface IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell-cell adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
cadherin-related family member 3
Names
cadherin-like protein 28

NCBI Reference Sequences (RefSeq)

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_001301161.1NP_001288090.1  cadherin-related family member 3 isoform 2

    See identical proteins and their annotated locations for NP_001288090.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks part of the 5' coding region, and uses a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC004836, AK304118, BC111696, DC416640
    Consensus CDS
    CCDS75651.1
    UniProtKB/Swiss-Prot
    Q6ZTQ4
    UniProtKB/TrEMBL
    B7Z8X2, E7EQG5
    Related
    ENSP00000417771.1, ENST00000478080.5
    Conserved Domains (1) summary
    cd11304
    Location:377473
    Cadherin_repeat; Cadherin tandem repeat domain
  2. NM_152750.5NP_689963.2  cadherin-related family member 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_689963.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC004836, AK126338, BC111738
    Consensus CDS
    CCDS47684.1
    UniProtKB/Swiss-Prot
    Q6ZTQ4
    Related
    ENSP00000325954.9, ENST00000317716.14
    Conserved Domains (1) summary
    cd11304
    Location:465561
    Cadherin_repeat; Cadherin tandem repeat domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p12 Primary Assembly

    Range
    105876750..106036431
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017011863.2XP_016867352.1  cadherin-related family member 3 isoform X5

    Conserved Domains (1) summary
    cd11304
    Location:283379
    Cadherin_repeat; Cadherin tandem repeat domain
  2. XM_017011866.2XP_016867355.1  cadherin-related family member 3 isoform X9

  3. XM_005250224.5XP_005250281.1  cadherin-related family member 3 isoform X2

    See identical proteins and their annotated locations for XP_005250281.1

    UniProtKB/TrEMBL
    E7EQG5
    Conserved Domains (1) summary
    cd11304
    Location:377473
    Cadherin_repeat; Cadherin tandem repeat domain
  4. XM_017011865.2XP_016867354.1  cadherin-related family member 3 isoform X8

  5. XM_017011867.2XP_016867356.1  cadherin-related family member 3 isoform X10

  6. XM_024446690.1XP_024302458.1  cadherin-related family member 3 isoform X13

    Conserved Domains (1) summary
    cd11304
    Location:66173
    Cadherin_repeat; Cadherin tandem repeat domain
  7. XM_017011862.1XP_016867351.1  cadherin-related family member 3 isoform X1

  8. XM_011515955.2XP_011514257.1  cadherin-related family member 3 isoform X3

    Conserved Domains (1) summary
    cd11304
    Location:465561
    Cadherin_repeat; Cadherin tandem repeat domain
  9. XM_005250225.2XP_005250282.1  cadherin-related family member 3 isoform X6

    Conserved Domains (2) summary
    cd11304
    Location:465561
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam16184
    Location:535613
    Cadherin_3; Cadherin-like
  10. XM_011515957.2XP_011514259.1  cadherin-related family member 3 isoform X7

    Conserved Domains (2) summary
    cd11304
    Location:465561
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam16184
    Location:535613
    Cadherin_3; Cadherin-like
  11. XM_006715905.2XP_006715968.1  cadherin-related family member 3 isoform X4

    Conserved Domains (1) summary
    cd11304
    Location:242341
    Cadherin_repeat; Cadherin tandem repeat domain
  12. XM_011515958.2XP_011514260.1  cadherin-related family member 3 isoform X11

    Conserved Domains (1) summary
    cd11304
    Location:242341
    Cadherin_repeat; Cadherin tandem repeat domain
  13. XM_024446689.1XP_024302457.1  cadherin-related family member 3 isoform X12

    Conserved Domains (1) summary
    cd11304
    Location:113209
    Cadherin_repeat; Cadherin tandem repeat domain
  14. XM_011515956.2XP_011514258.1  cadherin-related family member 3 isoform X5

    See identical proteins and their annotated locations for XP_011514258.1

    Conserved Domains (1) summary
    cd11304
    Location:283379
    Cadherin_repeat; Cadherin tandem repeat domain
  15. XM_017011864.1XP_016867353.1  cadherin-related family member 3 isoform X5

    Conserved Domains (1) summary
    cd11304
    Location:283379
    Cadherin_repeat; Cadherin tandem repeat domain
  16. XM_011515959.2XP_011514261.1  cadherin-related family member 3 isoform X12

    See identical proteins and their annotated locations for XP_011514261.1

    Conserved Domains (1) summary
    cd11304
    Location:113209
    Cadherin_repeat; Cadherin tandem repeat domain

RNA

  1. XR_001744602.1 RNA Sequence

  2. XR_001744603.2 RNA Sequence

  3. XR_001744600.2 RNA Sequence

  4. XR_001744598.1 RNA Sequence

  5. XR_001744601.2 RNA Sequence

  6. XR_001744605.2 RNA Sequence

  7. XR_001744606.2 RNA Sequence

  8. XR_001744607.2 RNA Sequence

  9. XR_927414.2 RNA Sequence

  10. XR_001744604.2 RNA Sequence

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