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Cdh5 cadherin 5 [ Rattus norvegicus (Norway rat) ]

Gene ID: 307618, updated on 24-Apr-2022

Summary

Official Symbol
Cdh5provided by RGD
Official Full Name
cadherin 5provided by RGD
Primary source
RGD:1307370
See related
Ensembl:ENSRNOG00000013324 AllianceGenome:RGD:1307370
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable several functions, including beta-catenin binding activity; enzyme binding activity; and signaling receptor binding activity. Predicted to be involved in several processes, including cell-cell junction organization; regulation of protein modification process; and regulation of protein-containing complex assembly. Predicted to act upstream of or within blood vessel maturation; cell-cell adhesion; and negative regulation of cell population proliferation. Predicted to be located in cell-cell junction; external side of plasma membrane; and nucleus. Predicted to be part of catenin complex. Predicted to be active in adherens junction and bicellular tight junction. Biomarker of pulmonary hypertension. Orthologous to human CDH5 (cadherin 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Lung (RPKM 824.9), Heart (RPKM 362.5) and 7 other tissues See more
Orthologs
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Genomic context

See Cdh5 in Genome Data Viewer
Location:
19p14
Exon count:
13
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (815415..854478, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (1025122..1074333, complement)

Chromosome 19 - NC_051354.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S20, pseudogene 7 Neighboring gene brain expressed, associated with NEDD4, 1 Neighboring gene uncharacterized LOC108348888 Neighboring gene uncharacterized LOC103694278 Neighboring gene uncharacterized LOC102556295

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables BMP receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables beta-catenin binding ISO
Inferred from Sequence Orthology
more info
 
enables cadherin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables fibrinogen binding ISO
Inferred from Sequence Orthology
more info
 
enables protein phosphatase binding ISO
Inferred from Sequence Orthology
more info
 
enables protein tyrosine kinase binding ISO
Inferred from Sequence Orthology
more info
 
enables signaling receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables transmembrane transporter binding ISO
Inferred from Sequence Orthology
more info
 
enables vascular endothelial growth factor receptor 2 binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in adherens junction organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in adherens junction organization ISO
Inferred from Sequence Orthology
more info
 
involved_in bicellular tight junction assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in blood vessel endothelial cell migration ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within blood vessel maturation ISO
Inferred from Sequence Orthology
more info
 
involved_in calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within cell-cell adhesion ISO
Inferred from Sequence Orthology
more info
 
involved_in cell-cell adhesion ISO
Inferred from Sequence Orthology
more info
 
involved_in cell-cell adhesion mediated by cadherin ISO
Inferred from Sequence Orthology
more info
 
involved_in cell-cell adhesion via plasma-membrane adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell-cell junction assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell-cell junction assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular calcium ion homeostasis ISO
Inferred from Sequence Orthology
more info
 
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
Inferred from Electronic Annotation
more info
 
involved_in multicellular organism development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within negative regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of negative regulation of endothelial cell apoptotic process ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of inflammatory response ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of microtubule polymerization ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of BMP signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of angiogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of establishment of endothelial barrier ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein dephosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein-containing complex assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in protein localization to bicellular tight junction ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of complement-dependent cytotoxicity ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of establishment of cell polarity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of establishment of cell polarity ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of protein phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of vascular permeability ISO
Inferred from Sequence Orthology
more info
 
involved_in transforming growth factor beta receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in vasculature development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in adherens junction ISO
Inferred from Sequence Orthology
more info
 
is_active_in bicellular tight junction IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in bicellular tight junction ISO
Inferred from Sequence Orthology
more info
 
part_of catenin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cell junction ISO
Inferred from Sequence Orthology
more info
 
located_in cell periphery ISO
Inferred from Sequence Orthology
more info
 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
located_in cell-cell junction ISO
Inferred from Sequence Orthology
more info
 
located_in external side of plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
located_in nuclear membrane IEA
Inferred from Electronic Annotation
more info
 
located_in nuclear membrane ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
cadherin-5
Names
VE-cadherin
vascular endothelial cadherin

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_001107407.1NP_001100877.1  cadherin-5

    See identical proteins and their annotated locations for NP_001100877.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474006
    Related
    ENSRNOP00000017983.7, ENSRNOT00000017983.7
    Conserved Domains (3) summary
    cd11304
    Location:145244
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:69139
    CA; Cadherin repeats
    pfam01049
    Location:623767
    Cadherin_C; Cadherin cytoplasmic region

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051354.1 Reference mRatBN7.2 Primary Assembly

    Range
    815415..854478 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039097688.1XP_038953616.1  cadherin-5 isoform X1

    Related
    ENSRNOP00000071462.2, ENSRNOT00000086995.2
    Conserved Domains (3) summary
    cd11304
    Location:145244
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:69139
    CA; Cadherin repeats
    pfam01049
    Location:619770
    Cadherin_C; Cadherin cytoplasmic region
  2. XM_039097689.1XP_038953617.1  cadherin-5 isoform X1

    Conserved Domains (3) summary
    cd11304
    Location:145244
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:69139
    CA; Cadherin repeats
    pfam01049
    Location:619770
    Cadherin_C; Cadherin cytoplasmic region