Clns1a chloride nucleotide-sensitive channel 1A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Clns1aprovided by RGD
Official Full Name: chloride nucleotide-sensitive channel 1Aprovided by RGD
Primary source: RGD:61884
See related: Ensembl:ENSRNOG00000012788 AllianceGenome:RGD:61884
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: Clci; Icln; Clcni; pICln
Summary: Predicted to enable intracellular calcium activated chloride channel activity; potassium channel activity; and splicing factor binding activity. Involved in cell volume homeostasis and chloride transport. Located in cytosol. Orthologous to human CLNS1A (chloride nucleotide-sensitive channel 1A). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 280.5), Heart (RPKM 243.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q32

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (161429437..161450904)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (152019369..152039670)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (162676246..162696549)

Chromosome 1 - NC_086019.1 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
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?

ICln associates with the cell membrane after cell swelling
Title: Cell swelling stimulates cytosol to membrane transposition of ICln.

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

RH128462 (e-PCR)
- UniSTS:211770

D1Bda28 (e-PCR)
- UniSTS:239775

RH138518 (e-PCR)
- UniSTS:220605

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables intracellularly calcium-gated chloride channel activity	ISO Inferred from Sequence Orthology more info
enables lipid binding	ISO Inferred from Sequence Orthology more info
enables potassium channel activity	ISO Inferred from Sequence Orthology more info
enables small molecule binding	ISO Inferred from Sequence Orthology more info
enables splicing factor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cell volume homeostasis	IEA Inferred from Electronic Annotation more info
involved_in cell volume homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chloride transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in chloride transport	IDA Inferred from Direct Assay more info	PubMed
involved_in chloride transport	IEA Inferred from Electronic Annotation more info
involved_in mRNA cis splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of cell volume	ISO Inferred from Sequence Orthology more info
involved_in potassium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in spliceosomal snRNP assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in spliceosomal snRNP assembly	IEA Inferred from Electronic Annotation more info
involved_in spliceosomal snRNP assembly	ISO Inferred from Sequence Orthology more info
involved_in spliceosomal snRNP assembly	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
part_of methylosome	IEA Inferred from Electronic Annotation more info
part_of methylosome	ISO Inferred from Sequence Orthology more info
part_of methylosome	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of pICln-Sm protein complex	IBA Inferred from Biological aspect of Ancestor more info
part_of pICln-Sm protein complex	IEA Inferred from Electronic Annotation more info
part_of pICln-Sm protein complex	ISO Inferred from Sequence Orthology more info
part_of pICln-Sm protein complex	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
part_of spliceosomal complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: methylosome subunit pICln

Names: Clns 1a; chloride channel current inducer; chloride channel, nucleotide-sensitive, 1A; chloride conductance regulatory protein ICln; i(Cln)

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_031719.2 → NP_113907.1 methylosome subunit pICln

See identical proteins and their annotated locations for NP_113907.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

Q04753

UniProtKB/TrEMBL

F7FFE2, Q6P9X1

Conserved Domains (1) summary

pfam03517
Location:40 → 141

Voldacs; Regulator of volume decrease after cellular swelling