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

    Gene ID: 67161, updated on 27-Nov-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 and sodium channel regulator activity. Predicted to be involved in cilium assembly and clustering of voltage-gated sodium channels. Located in centriole. Is expressed in cerebral cortex; embryo; eye; limb; and neural tube. 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, Nov 2024]
    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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    See Sclt1 in Genome Data Viewer
    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. Transposition and gene disruption in the male germline of the mouse. Dupuy AJ, et al. Genesis, 2001 Jun. PMID 11416868
    2. Sclt1 deficiency causes cystic kidney by activating ERK and STAT3 signaling. Li J, et al. Hum Mol Genet, 2017 Aug 1. PMID 28486600
    3. Cancer gene discovery in solid tumours using transposon-based somatic mutagenesis in the mouse. Collier LS, et al. Nature, 2005 Jul 14. PMID 16015333
    4. Sleeping beauty--a mouse model for all cancers? Howell VM. Cancer Lett, 2012 Apr 1. PMID 22079740
    5. Conditional gene expression in the mouse using a Sleeping Beauty gene-trap transposon. Geurts AM, et al. BMC Biotechnol, 2006 Jun 26. PMID 16800892, Free PMC Article

    See all (26) 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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables clathrin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables sodium channel regulator activity IEA
    Inferred from Electronic Annotation
    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 cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cilium assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in clustering of voltage-gated sodium channels IEA
    Inferred from Electronic Annotation
    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 centriole ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in centrosome IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of clathrin complex ISO
    Inferred from Sequence Orthology
    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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