Clca4 chloride channel accessory 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Clca4provided by RGD
Official Full Name: chloride channel accessory 4provided by RGD
Primary source: RGD:1303234
See related: EnsemblRapid:ENSRNOG00000029889 AllianceGenome:RGD:1303234
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: Prp3; Clca6
Summary: Predicted to enable intracellularly calcium-gated chloride channel activity. Predicted to be involved in chloride transmembrane transport. Predicted to act upstream of or within chloride transport. Predicted to be active in plasma membrane. Orthologous to human CLCA4 (chloride channel accessory 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Uterus (RPKM 18.3), Kidney (RPKM 7.3) and 4 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2q44

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (236543975..236565096, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (233883625..233904993, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (250842939..250864060, complement)

Chromosome 2 - NC_086020.1 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
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?

The identification and characterization of rat Clca4 help decipher the contribution of Ca(2+)-activated Cl(-) conductance in myometrial contractility.
Title: Cloning and characterization of a calcium-activated chloride channel in rat uterus.

Submit: New GeneRIF Correction

General gene information

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Markers

Clca4 (e-PCR), detects polymorphism
- UniSTS:547970

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chloride channel activity	ISO Inferred from Sequence Orthology more info
enables intracellularly calcium-gated chloride channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables ligand-gated monoatomic ion channel activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables metallopeptidase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in chloride transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chloride transport	ISO Inferred from Sequence Orthology more info
involved_in proteolysis	IEA Inferred from Electronic Annotation more info

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

General protein information

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Preferred Names: calcium-activated chloride channel regulator 4

Names: chloride channel calcium activated 4; chloride channel calcium activated 6 protein; chloride channel regulator 4; chloride channel, calcium activated, family member 4; parturition-related protein PRP3

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_201419.1 → NP_958822.1 calcium-activated chloride channel regulator 4 precursor

See identical proteins and their annotated locations for NP_958822.1

Status: PROVISIONAL

Source sequence(s)

AY333961

UniProtKB/TrEMBL

A0A8I5ZJ95, Q6VPP3

Related

ENSRNOP00000017943.4, ENSRNOT00000017943.6

Conserved Domains (2) summary

cd00198
Location:306 → 460

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

pfam08434
Location:25 → 897

CLCA; Calcium-activated chloride channel

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_086020.1 Reference GRCr8

Range

236543975..236565096 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282230.1 → XP_063138300.1 calcium-activated chloride channel regulator 4 isoform X1

UniProtKB/TrEMBL

Q6VPP3
XM_063282231.1 → XP_063138301.1 calcium-activated chloride channel regulator 4 isoform X2