Cdh13 cadherin 13 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cdh13provided by RGD
Official Full Name: cadherin 13provided by RGD
Primary source: RGD:619745
See related: EnsemblRapid:ENSRNOG00000014371 AllianceGenome:RGD:619745
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
Also known as: Cdht; Tcad; T-cadherin
Summary: Predicted to enable several functions, including adiponectin binding activity; beta-catenin binding activity; and low-density lipoprotein particle binding activity. Involved in cellular response to toxic substance and cellular response to xenobiotic stimulus. Located in perinuclear region of cytoplasm. Is active in GABA-ergic synapse. Used to study substance-related disorder. Biomarker of coronary restenosis. Human ortholog(s) of this gene implicated in breast cancer (multiple); lung non-small cell carcinoma; reproductive organ cancer (multiple); and urinary bladder cancer. Orthologous to human CDH13 (cadherin 13). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Muscle (RPKM 213.3), Heart (RPKM 159.8) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19q12

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (63258251..64296122)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (46349562..47387462)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (50848793..51971618)

Chromosome 19 - NC_086037.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

using rat and murine aortic smooth muscle cells as experimental models, we surveyed the ability of T-cadherin to regulate autophagy in SMCs during serum-starvation stress. Overall our findings have identified T-cadherin as a novel positive regulator of autophagy and survival in smooth muscle cells
Title: T-cadherin promotes autophagy and survival in vascular smooth muscle cells through MEK1/2/Erk1/2 axis activation.
Cdh13 regulates sensitivity to psychomotor stimulants and palatable rewards without producing major changes in other behaviors.
Title: Cdh13 and AdipoQ gene knockout alter instrumental and Pavlovian drug conditioning.
T-cadherin is expressed in deep-layer cell axons projecting to subcortical structures, but not in upper layer callosal axons projecting to the contralateral cortex in the developing brain.
Title: The role of T-cadherin in axonal pathway formation in neocortical circuits.
Crosstalk between high molecular weight adiponectin and T-cadherin may play an important role during liver fibrosis development in rats.
Title: Crosstalk between high-molecular-weight adiponectin and T-cadherin during liver fibrosis development in rats.
both cellular and acellular presentation of T-cadherin can be used to modulate the hepatocyte phenotype in vitro for tissue engineering applications.
Title: T-cadherin modulates hepatocyte functions in vitro.
Data suggest that the aryl hydrocarbon receptor/aryl hydrocarbon nuclear translocator (AhR/ARNT) functions directly in transcriptional repression of T-cadherin.
Title: Aryl hydrocarbon receptor ligands repress T-cadherin expression in vascular smooth muscle cells.
Cytoplasmic domain-free T-cad is expressed in cells sharing a mesenchymal phenotype, pillar cells, and the outer sulcus epithelium.
Title: Comparative expression patterns of T-, N-, E-cadherins, beta-catenin, and polysialic acid neural cell adhesion molecule in rat cochlea during development: implications for the nature of Kölliker's organ.
T-cadherin has a role in growth regulation involving p21(CIP1/WAF1) expression and G2 arrest
Title: T-cadherin-mediated cell growth regulation involves G2 phase arrest and requires p21(CIP1/WAF1) expression.

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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

RH128547 (e-PCR)
- UniSTS:211855

D19Got53 (e-PCR)
- UniSTS:114577

D19Rat107 (e-PCR), detects polymorphism
- UniSTS:226969

BE119741 (e-PCR)
- UniSTS:249256

RH132183 (e-PCR)
- UniSTS:215466

d19mit11 (e-PCR)
- UniSTS:120244

BF391658 (e-PCR)
- UniSTS:249810

AU048918 (e-PCR)
- UniSTS:145368

Cdh13 (e-PCR), detects polymorphism
- UniSTS:507866

BE112937 (e-PCR)
- UniSTS:246244

BG376843 (e-PCR)
- UniSTS:243952

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables adiponectin binding	ISO Inferred from Sequence Orthology more info
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 cadherin binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables lipoprotein particle binding	ISO Inferred from Sequence Orthology more info
enables low-density lipoprotein particle binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in Rac protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in Rho protein signal transduction	ISO Inferred from Sequence Orthology more info
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 calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	ISO Inferred from Sequence Orthology 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	TAS Traceable Author Statement 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 cellular response to toxic substance	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in endothelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	ISO Inferred from Sequence Orthology more info
involved_in keratinocyte proliferation	ISO Inferred from Sequence Orthology more info
involved_in lamellipodium assembly	ISO Inferred from Sequence Orthology more info
involved_in localization within membrane	ISO Inferred from Sequence Orthology more info
involved_in low-density lipoprotein particle mediated signaling	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of calcium-mediated signaling	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 cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of endothelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of positive chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of smooth muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of endocytosis	ISO Inferred from Sequence Orthology more info
involved_in regulation of epidermal growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in sprouting angiogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	IDA Inferred from Direct Assay more info	PubMed
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 caveola	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in external side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: cadherin-13

NP_620244.1

EC 3.6.1.3

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_138889.2 → NP_620244.1 cadherin-13 precursor

See identical proteins and their annotated locations for NP_620244.1

Status: PROVISIONAL

Source sequence(s)

BC085699

UniProtKB/TrEMBL

A0A096MK38, A0A8I6G502, A6IZI0, Q8R490

Related

ENSRNOP00000068368.1, ENSRNOT00000077053.4

Conserved Domains (4) summary

cd11304
Location:488 → 581

Cadherin_repeat; Cadherin tandem repeat domain

smart00112
Location:161 → 243

CA; Cadherin repeats

cl29226
Location:590 → 680

Cadherin; Cadherin domain

pfam08758
Location:27 → 112

Cadherin_pro; Cadherin prodomain like