Pcdh12 protocadherin 12 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pcdh12provided by RGD
Official Full Name: protocadherin 12provided by RGD
Primary source: RGD:619917
See related: EnsemblRapid:ENSRNOG00000019265 AllianceGenome:RGD:619917
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
Summary: Predicted to enable calcium ion binding activity. Predicted to be involved in cell adhesion. Predicted to act upstream of or within several processes, including calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules; glycogen metabolic process; and homophilic cell adhesion via plasma membrane adhesion molecules. Predicted to be located in cell-cell junction. Predicted to be integral component of plasma membrane. Orthologous to human PCDH12 (protocadherin 12). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 141.6), Heart (RPKM 111.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 18p11

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (30354910..30370485, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (30103728..30119307, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (31415533..31431108, complement)

Chromosome 18 - NC_086036.1 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?

Tyrosine phosphorylation of adherens junction vascular endothelial cadherin (VEC) is required for successful transendothelial lymphocyte migration.
Title: Phosphorylation of vascular endothelial cadherin controls lymphocyte emigration.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

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

Process	Evidence Code	Pubs
acts_upstream_of_or_within calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	ISO Inferred from Sequence Orthology more info
involved_in cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within glycogen metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within labyrinthine layer development	ISO Inferred from Sequence Orthology more info
involved_in spermatogenesis	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: protocadherin-12

Names: vascular endothelial cadherin 2

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_053944.1 → NP_446396.1 protocadherin-12

See identical proteins and their annotated locations for NP_446396.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000018

UniProtKB/TrEMBL

A6J3F5, F1MA46

Related

ENSRNOP00000026065.5, ENSRNOT00000026065.8

Conserved Domains (3) summary

cd11304
Location:250 → 347

Cadherin_repeat; Cadherin tandem repeat domain

pfam13254
Location:863 → 1092

DUF4045; Domain of unknown function (DUF4045)

cl09101
Location:30 → 110

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus