Clns1a chloride channel, nucleotide-sensitive, 1A [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Clns1aprovided by MGI
Official Full Name: chloride channel, nucleotide-sensitive, 1Aprovided by MGI
Primary source: MGI:MGI:109638
See related: Ensembl:ENSMUSG00000025439 AllianceGenome:MGI:109638
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Clci; ICLN; Clcni; 2610036D06Rik; 2610100O04Rik
Summary: Involved in negative regulation of cell volume. Predicted to be located in nucleoplasm. Predicted to be part of methylosome; pICln-Sm protein complex; and spliceosomal complex. Predicted to be active in cytosol. Is expressed in several structures, including brain; genitourinary system; liver; lung; and spleen. Orthologous to human CLNS1A (chloride nucleotide-sensitive channel 1A). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 20.0), CNS E14 (RPKM 15.6) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 E1; 7 53.57 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (97345864..97370000)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (97696657..97720793)

Chromosome 7 - NC_000073.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

1st demonstration of VSOR Cl- channel expression in somatosensory pyramidal neurons. It is the major anionic pathway for varicosity recovery after NMDA & for persistent NMDA-induced varicosity formation leading to necrosis in cortical neurons.
Title: Roles of volume-sensitive chloride channel in excitotoxic neuronal injury.
ICln associates with the cell membrane after cell swelling
Title: Cell swelling stimulates cytosol to membrane transposition of ICln.

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (1) 1 citation
Endonuclease-mediated (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Homologs of the Clns1a gene: The Clns1a gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, chicken, zebrafish, and frog.
Orthologs from Annotation Pipeline: 493 organisms have orthologs with human gene Clns1a
Orthologs

Gene Ontology Provided by MGI

Process	Evidence Code	Pubs
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in cell volume homeostasis	ISO Inferred from Sequence Orthology more info
involved_in chloride transport	ISO Inferred from Sequence Orthology more info
involved_in histone H4-R3 methylation	NAS Non-traceable Author Statement more info	PubMed
involved_in mRNA cis splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell volume	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of mRNA splicing, via spliceosome	NAS Non-traceable Author Statement more info	PubMed
involved_in spliceosomal snRNP assembly	ISO Inferred from Sequence Orthology more info
involved_in spliceosomal snRNP assembly	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
part_of methylosome	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	NAS Non-traceable Author Statement more info	PubMed
part_of pICln-Sm protein complex	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
part_of spliceosomal complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed

General protein information

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Preferred Names: methylosome subunit pICln

Names: chloride channel current inducer; chloride channel regulator; chloride conductance regulatory protein ICln; chloride ion current inducer protein; 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.