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Aliases for SCLT1 Gene

Aliases for SCLT1 Gene

  • Sodium Channel And Clathrin Linker 1 2 3
  • Sodium Channel-Associated Protein 1 3 4
  • CAP1A 3 6
  • CAP-1A 3
  • SAP1 4

External Ids for SCLT1 Gene

Previous GeneCards Identifiers for SCLT1 Gene

  • GC04M130024
  • GC04M129805
  • GC04M125535

Summaries for SCLT1 Gene

Entrez Gene Summary for SCLT1 Gene

  • This gene encodes an adaptor protein. Studies of a related gene in rat suggest that the encoded protein functions to link clathrin to the sodium channel protein type 10 subunit alpha protein. The encoded protein has also been identified as a component of distal appendages of centrioles that is necessary for ciliogenesis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]

GeneCards Summary for SCLT1 Gene

SCLT1 (Sodium Channel And Clathrin Linker 1) is a Protein Coding gene. GO annotations related to this gene include protein C-terminus binding and clathrin binding.

UniProtKB/Swiss-Prot for SCLT1 Gene

  • Adapter protein that links SCN10A to clathrin. Regulates SCN10A channel activity, possibly by promoting channel internalization (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCLT1 Gene

Genomics for SCLT1 Gene

Regulatory Elements for SCLT1 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SCLT1 Gene

128,864,921 bp from pter
129,093,609 bp from pter
228,689 bases
Minus strand

Genomic View for SCLT1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SCLT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCLT1 Gene

Proteins for SCLT1 Gene

  • Protein details for SCLT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Sodium channel and clathrin linker 1
    Protein Accession:
    Secondary Accessions:
    • A4QN04
    • Q0VAH2
    • Q6P2M4

    Protein attributes for SCLT1 Gene

    688 amino acids
    Molecular mass:
    80910 Da
    Quaternary structure:
    • Interacts with SCN10A and clathrin. Identified in a complex containing SCN10A, clathrin and SCLT1 (By similarity).

    Alternative splice isoforms for SCLT1 Gene


neXtProt entry for SCLT1 Gene

Proteomics data for SCLT1 Gene at MOPED

Post-translational modifications for SCLT1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SCLT1 Gene

Domains for SCLT1 Gene

Protein Domains for SCLT1 Gene


Suggested Antigen Peptide Sequences for SCLT1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SCLT1: view

No data available for Gene Families and UniProtKB/Swiss-Prot for SCLT1 Gene

Function for SCLT1 Gene

Molecular function for SCLT1 Gene

UniProtKB/Swiss-Prot Function: Adapter protein that links SCN10A to clathrin. Regulates SCN10A channel activity, possibly by promoting channel internalization (By similarity).

Gene Ontology (GO) - Molecular Function for SCLT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008022 protein C-terminus binding IEA --
GO:0017080 sodium channel regulator activity IEA --
GO:0030276 clathrin binding IEA --
genes like me logo Genes that share ontologies with SCLT1: view

Phenotypes for SCLT1 Gene

GenomeRNAi human phenotypes for SCLT1:
genes like me logo Genes that share phenotypes with SCLT1: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for SCLT1 Gene

Localization for SCLT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCLT1 Gene

Cytoplasm, cytoskeleton, microtubule organizing center, centrosome, centriole. Note=Localizes to the distal appendage region of the centriole, which anchors the mother centriole to the plasma membrane.

Subcellular locations from

Jensen Localization Image for SCLT1 Gene COMPARTMENTS Subcellular localization image for SCLT1 gene
Compartment Confidence
cytoskeleton 5
cytosol 3
nucleus 3
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SCLT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm --
GO:0005813 centrosome IDA 21399614
GO:0005814 centriole IDA 23348840
GO:0005829 cytosol TAS --
GO:0015630 microtubule cytoskeleton --
genes like me logo Genes that share ontologies with SCLT1: view

Pathways for SCLT1 Gene

SuperPathways for SCLT1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCLT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006996 organelle organization TAS --
GO:0042384 cilium assembly IMP 23348840
GO:0045162 clustering of voltage-gated sodium channels IEA --
genes like me logo Genes that share ontologies with SCLT1: view

No data available for Pathways by source for SCLT1 Gene

Transcripts for SCLT1 Gene

Unigene Clusters for SCLT1 Gene

Sodium channel and clathrin linker 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SCLT1

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for SCLT1

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCLT1 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10
SP1: -
SP2: - -

Relevant External Links for SCLT1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SCLT1 Gene

mRNA expression in normal human tissues for SCLT1 Gene

mRNA differential expression in normal tissues according to GTEx for SCLT1 Gene

This gene is overexpressed in Whole Blood (4.0).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SCLT1 Gene

SOURCE GeneReport for Unigene cluster for SCLT1 Gene Hs.654690

genes like me logo Genes that share expressions with SCLT1: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for SCLT1 Gene

Orthologs for SCLT1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCLT1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SCLT1 35
  • 99.85 (n)
  • 99.85 (a)
SCLT1 36
  • 100 (a)
(Bos Taurus)
Mammalia SCLT1 35
  • 88.23 (n)
  • 82.53 (a)
SCLT1 36
  • 82 (a)
(Canis familiaris)
Mammalia SCLT1 35
  • 89.97 (n)
  • 84.45 (a)
SCLT1 36
  • 83 (a)
(Mus musculus)
Mammalia Sclt1 35
  • 82.61 (n)
  • 75.44 (a)
Sclt1 16
Sclt1 36
  • 75 (a)
(Monodelphis domestica)
Mammalia SCLT1 36
  • 77 (a)
(Ornithorhynchus anatinus)
Mammalia SCLT1 36
  • 56 (a)
(Rattus norvegicus)
Mammalia Sclt1 35
  • 83.24 (n)
  • 76.16 (a)
(Gallus gallus)
Aves SCLT1 35
  • 68.43 (n)
  • 60.87 (a)
SCLT1 36
  • 60 (a)
(Anolis carolinensis)
Reptilia SCLT1 36
  • 63 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia sclt1 35
  • 63.69 (n)
  • 55.13 (a)
Str.17503 35
(Danio rerio)
Actinopterygii sclt1 35
  • 56.27 (n)
  • 49.71 (a)
sclt1 36
  • 49 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7157 36
  • 32 (a)
Species with no ortholog for SCLT1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SCLT1 Gene

Gene Tree for SCLT1 (if available)
Gene Tree for SCLT1 (if available)

Paralogs for SCLT1 Gene

Selected SIMAP similar genes for SCLT1 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with SCLT1: view

No data available for Paralogs for SCLT1 Gene

Variants for SCLT1 Gene

Sequence variations from dbSNP and Humsavar for SCLT1 Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type MAF
rs4052 -- 128,924,772(-) AGGTT(A/C/G/T)GTTTC intron-variant
rs4165 -- 129,020,933(+) aaata(A/G)taagc intron-variant
rs167618 -- 128,884,561(-) CTTAC(C/T)GATTG intron-variant
rs167619 -- 128,896,936(+) aagat(C/G/T)aaatg intron-variant
rs170325 -- 128,888,223(+) TTTTT(G/T)TTGTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SCLT1 Gene

Variant ID Type Subtype PubMed ID
nsv517249 CNV Gain 19592680
nsv4505 CNV Insertion 18451855
esv2670641 CNV Deletion 23128226
nsv522694 CNV Loss 19592680
esv2656466 CNV Deletion 23128226
nsv879931 CNV Loss 21882294
nsv822718 CNV Gain 20364138

Relevant External Links for SCLT1 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SCLT1 Gene

Disorders for SCLT1 Gene

No disorders were found for SCLT1 Gene.

No data available for UniProtKB/Swiss-Prot for SCLT1 Gene

Publications for SCLT1 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  2. CAP-1A is a novel linker that binds clathrin and the voltage-gated sodium channel Na(v)1.8. (PMID: 15797711) Liu C. … Dib-Hajj S.D. (Mol. Cell. Neurosci. 2005) 2 3
  3. Centriole distal appendages promote membrane docking, leading to cilia initiation. (PMID: 23348840) Tanos B.E. … Tsou M.F. (Genes Dev. 2013) 3 4
  4. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. (PMID: 23376485) Prunotto M. … Moll S. (J Proteomics 2013) 3
  5. Identification of submicroscopic genetic changes and precise breakpoint mapping in myelofibrosis using high resolution mate-pair sequencing. (PMID: 23733509) Lasho T. … Tefferi A. (Am. J. Hematol. 2013) 3

Products for SCLT1 Gene

Sources for SCLT1 Gene

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