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Sclt1 sodium channel and clathrin linker 1 [ Mus musculus (house mouse) ]

Gene ID: 67161, updated on 5-Mar-2024

Summary

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Official Symbol
Sclt1provided by MGI
Official Full Name
sodium channel and clathrin linker 1provided by MGI
Primary source
MGI:MGI:1914411
See related
Ensembl:ENSMUSG00000059834 AllianceGenome:MGI:1914411
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
CAGGS-SB10; 2610207F23Rik; 4931421F20Rik; Tg(CAG-sb10)1Dla; Tg(ACTB-sb10)1Dla
Summary
Predicted to enable clathrin binding activity; protein C-terminus binding activity; and sodium channel regulator activity. Predicted to be involved in cilium assembly and clustering of voltage-gated sodium channels. Located in centriole. Used to study autosomal recessive polycystic kidney disease and ciliopathy. Orthologous to human SCLT1 (sodium channel and clathrin linker 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis adult (RPKM 12.5), CNS E11.5 (RPKM 5.6) and 21 other tissues See more
Orthologs
human all
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Genomic context

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Location:
3 B; 3 19.91 cM
Exon count:
22
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (41581140..41696968, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (41626705..41742551, complement)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2400006E01 gene Neighboring gene STARR-seq mESC enhancer starr_07494 Neighboring gene uncharacterized LOC118568628 Neighboring gene jade family PHD finger 1 Neighboring gene STARR-seq mESC enhancer starr_07506 Neighboring gene STARR-seq mESC enhancer starr_07507 Neighboring gene STARR-seq mESC enhancer starr_07508 Neighboring gene STARR-seq mESC enhancer starr_07509 Neighboring gene STARR-positive B cell enhancer mm9_chr3:41546357-41546658 Neighboring gene DNA segment, Chr 3, ERATO Doi 751, expressed Neighboring gene STARR-seq mESC enhancer starr_07510 Neighboring gene STARR-seq mESC enhancer starr_07511 Neighboring gene heat shock protein 8 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Sclt1 deficiency causes cystic kidney by activating ERK and STAT3 signaling. Li J, et al. Hum Mol Genet, 2017 Aug 1. PMID 28486600
  2. Transposition and gene disruption in the male germline of the mouse. Dupuy AJ, et al. Genesis, 2001 Jun. PMID 11416868
  3. Sleeping beauty--a mouse model for all cancers? Howell VM. Cancer Lett, 2012 Apr 1. PMID 22079740
  4. Cancer gene discovery in solid tumours using transposon-based somatic mutagenesis in the mouse. Collier LS, et al. Nature, 2005 Jul 14. PMID 16015333
  5. Whole-body sleeping beauty mutagenesis can cause penetrant leukemia/lymphoma and rare high-grade glioma without associated embryonic lethality. Collier LS, et al. Cancer Res, 2009 Nov 1. PMID 19843846, Free PMC Article

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

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

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ30655

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables clathrin binding ISO
Inferred from Sequence Orthology
more info
  
enables sodium channel regulator activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cilium assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cilium assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in clustering of voltage-gated sodium channels ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in centriole IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in centriole IDA
Inferred from Direct Assay
more info
 PubMed 
located_in centriole ISO
Inferred from Sequence Orthology
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
part_of ciliary transition fiber ISO
Inferred from Sequence Orthology
more info
  
part_of clathrin complex ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
sodium channel and clathrin linker 1
Names
sodium channel-associated protein 1

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_001081411.1 → NP_001074880.1  sodium channel and clathrin linker 1

    See identical proteins and their annotated locations for NP_001074880.1

    Status: VALIDATED

    Source sequence(s)
    AC102795, AC154098, AC161235
    Consensus CDS
    CCDS38425.1
    UniProtKB/Swiss-Prot
    G5E861, Q6PAJ0, Q9CSV4, Q9CUR9
    Related
    ENSMUSP00000026866.9, ENSMUST00000026866.15
    Conserved Domains (2) summary
    COG1196
    Location:180 → 509
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:378 → 671
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type

RNA

  1. NR_155540.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC102795, AC154098, AC161235
    Related
    ENSMUST00000148769.8

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_000069.7 Reference GRCm39 C57BL/6J

    Range
    41581140..41696968 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006500786.4 → XP_006500849.1  sodium channel and clathrin linker 1 isoform X1

    Conserved Domains (2) summary
    COG1196
    Location:148 → 477
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:346 → 639
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type

RNA

  1. XR_004941381.1 RNA Sequence

  2. XR_004941383.1 RNA Sequence

  3. XR_004941382.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
G5E861.1 GenPept UniProtKB/Swiss-Prot:G5E861

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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