Cdh4 cadherin 4 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Cdh4provided by MGI
Official Full Name: cadherin 4provided by MGI
Primary source: MGI:MGI:99218
See related: Ensembl:ENSMUSG00000000305 AllianceGenome:MGI:99218
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Rcad; R-CAD; R-Cadh
Summary: This gene encodes a member of the cadherin family of calcium-dependent glycoproteins that mediate cell adhesion and regulate many morphogenetic events during development. The encoded preproprotein is further processed to generate a mature protein. The encoded protein is involved in retinal angiogenesis during development where it plays a crucial role in the endothelial-astrocyte interactions. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Oct 2015]
Expression: Biased expression in whole brain E14.5 (RPKM 10.8), CNS E18 (RPKM 10.1) and 12 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2 H4; 2 101.86 cM

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (179084228..179541166)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (179442423..179899377)

Chromosome 2 - NC_000068.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

cadherin 2 (CDH2) and CDH4 cooperate to regulate radial migration in mouse brain via the protein tyrosine phosphatase 1B (PTP1B) and alpha- and beta-catenins.
Title: Cadherin 2/4 signaling via PTP1B and catenins is crucial for nucleokinesis during radial neuronal migration in the neocortex.
suggest that R-cad is an adhesion molecule of the mammary epithelium, which acts as a critical regulator of the normal phenotype
Title: Loss of retinal cadherin facilitates mammary tumor progression and metastasis.
Pioneer axon outgrowth was rescued in vivo by selective replacement of R-cadherin by electroporation into cultured Pax6 mutant embryos
Title: R-cadherin is a Pax6-regulated, growth-promoting cue for pioneer axons.
analysis of subpopulations of HSCs for expression of cell surface adhesion molecules found that R-cadherin was preferentially expressed by HSCs functionally targeting neovascularization in the developing retina
Title: Adult bone marrow-derived stem cells use R-cadherin to target sites of neovascularization in the developing retina.
Killer cell lectin-like receptor G1 (KLRG1) ligation by R-cadherin may regulate the cytotoxicity of killer cells to prevent damage to tissues expressing cadherins.
Title: Killer cell lectin-like receptor G1 binds three members of the classical cadherin family to inhibit NK cell cytotoxicity.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (6) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D3S1621 (e-PCR), detects polymorphism
- UniSTS:82176

D2Mit200 (e-PCR), detects polymorphism
- UniSTS:129072

D4Mit321 (e-PCR), detects polymorphism
- UniSTS:130113

AW120700 (e-PCR)
- UniSTS:164197

D2Mit1002 (e-PCR), detects polymorphism
- UniSTS:142468

Cdh4 (e-PCR), detects polymorphism
- UniSTS:536476

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables beta-catenin binding	IBA Inferred from Biological aspect of Ancestor more info
enables cadherin binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in adherens junction organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of axon extension	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within axon guidance	IDA Inferred from Direct Assay more info	PubMed
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 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
acts_upstream_of_or_within heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of axon extension	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
part_of catenin complex	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: cadherin-4

Names: R-cadherin; retina cadherin; retinal 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)

NM_001316723.2 → NP_001303652.1 cadherin-4 isoform 2 precursor

Status: REVIEWED

Source sequence(s)

AL663028, BX000474

Consensus CDS

CCDS84598.1

UniProtKB/TrEMBL

Q80ZV4

Related

ENSMUSP00000104539.2, ENSMUST00000108911.2

Conserved Domains (2) summary

pfam08758
Location:30 → 119

Cadherin_pro; Cadherin prodomain like

cl09101
Location:170 → 270

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
NM_001416934.1 → NP_001403863.1 cadherin-4 isoform 3

Status: REVIEWED

Source sequence(s)

AL663028, AL663067, AL669921, BX000474
NM_001416935.1 → NP_001403864.1 cadherin-4 isoform 3

Status: REVIEWED

Source sequence(s)

AL663028, AL663067, BX000474
NM_001416936.1 → NP_001403865.1 cadherin-4 isoform 4

Status: REVIEWED

Source sequence(s)

AL663028, BX000474
NM_009867.4 → NP_033997.1 cadherin-4 isoform 1 preproprotein

See identical proteins and their annotated locations for NP_033997.1

Status: REVIEWED

Source sequence(s)

AL663028, AL663067, BX000474

Consensus CDS

CCDS17164.1

UniProtKB/Swiss-Prot

P39038

Related

ENSMUSP00000000314.7, ENSMUST00000000314.13

Conserved Domains (4) summary

cd11304
Location:278 → 385

Cadherin_repeat; Cadherin tandem repeat domain

pfam01049
Location:766 → 908

Cadherin_C; Cadherin cytoplasmic region

pfam08758
Location:30 → 119

Cadherin_pro; Cadherin prodomain like

cl09101
Location:170 → 270

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_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000068.8 Reference GRCm39 C57BL/6J

Range

179084228..179541166

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036157900.1 → XP_036013793.1 cadherin-4 isoform X2

Conserved Domains (5) summary

cd11304
Location:211 → 318

Cadherin_repeat; Cadherin tandem repeat domain

pfam01049
Location:691 → 843

Cadherin_C; Cadherin cytoplasmic region

cl07391
Location:1 → 52

Cadherin_pro; Cadherin prodomain like

cl28889
Location:103 → 203

CA_like; Cadherin repeat-like domain

cl29226
Location:549 → 641

Cadherin; Cadherin domain
XM_011239921.2 → XP_011238223.1 cadherin-4 isoform X1

Conserved Domains (5) summary

cd11304
Location:252 → 359

Cadherin_repeat; Cadherin tandem repeat domain

cl29226
Location:591 → 682

Cadherin; Cadherin domain

pfam01049
Location:728 → 884

Cadherin_C; Cadherin cytoplasmic region

cl07391
Location:31 → 93

Cadherin_pro; Cadherin prodomain like

cl28889
Location:144 → 244

CA_like; Cadherin repeat-like domain
XM_036157902.1 → XP_036013795.1 cadherin-4 isoform X2

Conserved Domains (5) summary

cd11304
Location:211 → 318

Cadherin_repeat; Cadherin tandem repeat domain

pfam01049
Location:691 → 843

Cadherin_C; Cadherin cytoplasmic region

cl07391
Location:1 → 52

Cadherin_pro; Cadherin prodomain like

cl28889
Location:103 → 203

CA_like; Cadherin repeat-like domain

cl29226
Location:549 → 641

Cadherin; Cadherin domain