Cdh4 cadherin 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Cdh4provided by RGD
Full Name: cadherin 4provided by RGD
Primary source: RGD:621091
See related: EnsemblRapid:ENSRNOG00000052405 AllianceGenome:RGD:621091
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Cdh4l
Summary: Predicted to enable calcium ion binding activity. Predicted to act upstream of or within several processes, including heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules; homophilic cell adhesion via plasma membrane adhesion molecules; and positive regulation of axon extension. Predicted to be located in plasma membrane. Orthologous to human CDH4 (cadherin 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 31.2), Thymus (RPKM 19.3) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q43

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (186902763..187381020)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (166525092..167003380)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (175220520..175283144)

Chromosome 3 - NC_086021.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

R-cadherin plays some role in cells of normal and regenerating muscles
Title: Localization and expression of R-cadherin in skeletal muscle following nerve injury.
R-cadherin expression may be associated with increased cyclin D1 expression and VSMC proliferation and may therefore play an important role in vascular disease.
Title: R-cadherin:beta-catenin complex and its association with vascular smooth muscle cell proliferation.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D3Mco35 (e-PCR)
- UniSTS:517945

D3Mco54 (e-PCR)
- UniSTS:517954

D3Mco52 (e-PCR)
- UniSTS:517959

D3Mco59 (e-PCR)
- UniSTS:517962

D3Mco49 (e-PCR)
- UniSTS:517970

D3Mco47 (e-PCR)
- UniSTS:517974

D3Mco51 (e-PCR)
- UniSTS:517980

D3Mco48 (e-PCR)
- UniSTS:517984

D3Mco56 (e-PCR)
- UniSTS:517992

D3Hmgc8 (e-PCR)
- UniSTS:526185

D3Mco50 (e-PCR)
- UniSTS:517997

D3Mco34 (e-PCR)
- UniSTS:518000

D3Mco57 (e-PCR)
- UniSTS:518001

D3Got173 (e-PCR)
- UniSTS:115573

D3Mco53 (e-PCR)
- UniSTS:518006

D3Hmgc7 (e-PCR)
- UniSTS:526201

BF401071 (e-PCR)
- UniSTS:245376

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

BE100240 (e-PCR)
- UniSTS:249791

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in axon extension	IEA Inferred from Electronic Annotation more info
acts_upstream_of axon extension	ISO Inferred from Sequence Orthology more info
involved_in axon guidance	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
involved_in heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules	ISO Inferred from Sequence Orthology more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of axon extension	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of axon extension	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: cadherin-4

Names: R-CAD; R-cadherin; cadherin 4, type 1, R-cadherin (retinal); 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_001419540.1 → NP_001406469.1 cadherin-4 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A0G2K728, A6KMD4

Related

ENSRNOP00000074038.2, ENSRNOT00000088026.3

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086021.1 Reference GRCr8

Range

186902763..187381020

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039106754.2 → XP_038962682.1 cadherin-4 isoform X1

Related

ENSRNOP00000110624.1, ENSRNOT00000136921.1

Conserved Domains (5) summary

cd11304
Location:232 → 339

Cadherin_repeat; Cadherin tandem repeat domain

pfam01049
Location:712 → 864

Cadherin_C; Cadherin cytoplasmic region

cl07391
Location:8 → 70

Cadherin_pro; Cadherin prodomain like

cl28889
Location:124 → 224

CA_like; Cadherin repeat-like domain

cl29226
Location:570 → 662

Cadherin; Cadherin domain