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

Gene ID: 12729, updated on 8-Feb-2024

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
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Genomic context

See Clns1a in Genome Data Viewer
Location:
7 E1; 7 53.57 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 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_000073.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_19602 Neighboring gene remodeling and spacing factor 1 Neighboring gene remodeling and spacing factor 1, opposite strand 1 Neighboring gene STARR-positive B cell enhancer mm9_chr7:104787388-104787688 Neighboring gene STARR-seq mESC enhancer starr_19603 Neighboring gene remodeling and spacing factor 1, opposite strand 2 Neighboring gene STARR-positive B cell enhancer ABC_E11361 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:104870902-104871089 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:104872316-104872580 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:104879154-104879355 Neighboring gene STARR-seq mESC enhancer starr_19606 Neighboring gene aquaporin 11 Neighboring gene STARR-seq mESC enhancer starr_19609 Neighboring gene p21 (RAC1) activated kinase 1

Genomic regions, transcripts, and products

Expression

  • 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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1)  1 citation
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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 mRNA cis splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
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 IBA
Inferred from Biological aspect of Ancestor
more info
 
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
 
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 IBA
Inferred from Biological aspect of Ancestor
more info
 
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
 

General protein information

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.

mRNA and Protein(s)

  1. NM_023671.2NP_076160.1  methylosome subunit pICln

    See identical proteins and their annotated locations for NP_076160.1

    Status: VALIDATED

    Source sequence(s)
    AC151477, AK169259, CX236388
    Consensus CDS
    CCDS21462.1
    UniProtKB/Swiss-Prot
    Q61189
    UniProtKB/TrEMBL
    Q923F1
    Related
    ENSMUSP00000026506.5, ENSMUST00000026506.5
    Conserved Domains (1) summary
    pfam03517
    Location:40141
    Voldacs; Regulator of volume decrease after cellular swelling

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000073.7 Reference GRCm39 C57BL/6J

    Range
    97345864..97370000
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)