SCLT1 Gene
protein-coding GIFtS: 43
GCID: GC04M129805
|
|
sodium channel and clathrin linker 1
| |
Aliases
for SCLT1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Sodium Channel And Clathrin Linker 11 2 | | CAP-1A2 | | HCAP-1A1 | | CAP1A2 | | Sodium Channel-Associated Protein 12 3 | | SAP13 | | FLJ306551 | | |
Export aliases for SCLT1 gene to outside databasesPrevious GC identifers: GC04M130024 GC04M125535 |
Summaries
for SCLT1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for SCLT1:
SCLT1 acts as a linker protein between the voltage-gated sodium channel Na(v)1.8 (SCN10A; MIM 604427) and clathrin (seeCLTC, MIM 118955) (Liu et al., 2005 (PubMed 15797711)).(supplied by OMIM, Mar 2008)
UniProtKB/Swiss-Prot: SCLT1_HUMAN, Q96NL6Function: Adapter protein that links SCN10A to clathrin. Regulates SCN10A channel activity, possibly by promotingchannel internalization (By similarity)
|
Genomic Views
for SCLT1 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000004.11 NC_018915.1 NT_016354.19
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SCLT1 gene promoter:
HFH-3 Sox5 Evi-1 C/EBPalpha FOXI1 CREB Pax-3 deltaCREB
Other transcription factors
Search SABiosciences Chromatin IP Primers for SCLT1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SCLT1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 4q28.2 Ensembl cytogenetic band: 4q28.2 HGNC cytogenetic band: 4q28.2SCLT1 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 4 GeneLoc Exon Structure GeneLoc location for GC04M129805: view genomic region
(about GC identifiers)
Start:
|
129,786,076 bp from pter |
End:
|
130,014,764 bp from pter |
Size:
|
228,689 bases |
Orientation:
|
minus strand |
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Proteins
for SCLT1 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: SCLT1_HUMAN, Q96NL6 (See
protein sequence)Recommended Name: Sodium channel and clathrin linker 1 Size: 688 amino acids; 80910 Da
Subunit: Interacts with SCN10A and clathrin. Identified in a complex containing SCN10A, clathrin and SCLT1 (Bysimilarity)
Subcellular location: Cytoplasm. Note=Cell periphery (By similarity)
Secondary accessions: A4QN04 Q0VAH2 Q6P2M4Alternative splicing: 4 isoforms: Q96NL6-1 Q96NL6-2 Q96NL6-3 Q96NL6-4 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for SCLT1: NX_Q96NL6
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q96NL6
SCLT1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_653244.2
ENSEMBL proteins: ENSP00000281142 ENSP00000395292 ENSP00000424029 ENSP00000424304 ENSP00000420861 ENSP00000425315 ENSP00000401539
Human Recombinant Protein Products for SCLT1:
Gene Ontology (GO): 5 cellular component terms (GO ID links to tree view): About this table
SCLT1 for ontologies About GeneDecksing
SCLT1 Antibody Products:
Assay Products for SCLT1: |
Protein
Domains /
Families
for SCLT1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
| ProtoNet protein and cluster: Q96NL6 |
Function
for SCLT1 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
inGenious Targeting Laboratory,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase,
shRNA from
OriGene,
Sirion Biotech,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Sirion Biotech,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
Sirion Biotech,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Molecular Function:
UniProtKB/Swiss-Prot Summary: SCLT1_HUMAN, Q96NL6Function: Adapter protein that links SCN10A to clathrin. Regulates SCN10A channel activity, possibly by promotingchannel internalization (By similarity) Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view): About this table | 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 | -- |
SCLT1 for ontologies About GeneDecksing
Phenotypes:
1 GenomeRNAi human phenotype for SCLT1:
Animal Models:
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SCLT1 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SCLT1
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: SCLT1 (NM_144643) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SCLT1 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCLT1 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCLT1 |
|
Pathways & Interactions
for SCLT1 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SCLT1
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
5/6 Interacting proteins for SCLT1 (Q96NL63 ENSP000002811424) via UniProtKB, MINT, STRING, and/or I2D (see all 6)About this table
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0045162 | clustering of voltage-gated sodium channels |
IEA | -- |
SCLT1 for ontologies About GeneDecksing
|
Drugs & Compounds
for SCLT1 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for SCLT1
Search CenterWatch for drugs/clinical trials and news about SCLT1
|
Transcripts
for SCLT1 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
Sirion Biotech,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for SCLT1 gene: NM_144643.2 Unigene Cluster for SCLT1: Sodium channel and clathrin linker 1 Hs.654690 [show with all ESTs]Unigene Representative Sequence: AK12285210 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000503565 ENST00000281142(uc003igo.2 uc003igp.2) ENST00000506233(uc003ign.2)
ENST00000439369 ENST00000503215 ENST00000502495 ENST00000506368(uc003igr.2)
ENST00000511426(uc003igt.4) ENST00000503401 ENST00000434680(uc003igq.2 uc010iob.1)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SCLT1 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SCLT1
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: SCLT1 (NM_144643) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SCLT1 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCLT1 |
Additional cDNA sequence: AK055217.1 AK093361.1 AK122852.1 BC014677.1 BC040258.1 BC064428.1 BC121057.1 BC121058.1 BC128051.1 8 DOTS entries: DT.100008308 DT.101973611 DT.101979600 DT.75175694 DT.97781756 DT.99927598 DT.121221744 DT.95367932 24/59 AceView cDNA sequences (see all 59): AK055217 AA553518 AW083303 BC040258 BG204665 NM_144643 BG206279 CR593773 AW513286 C01427 AW770398 AX748077 BM924929 BG183864 BG339994 BU958869 AL579773 BQ447051 AL711976 BM458389 BI755849 AI768586 BP365420 BC014677
GeneLoc Exon Structure
4 Alternative Splicing Database (ASD) splice patterns (SP) for SCLT1 About this scheme
| ExUns: | 1a | · | 1b | · | 1c | · | 1d | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10 |
|---|
|
| SP1: | | | | | | | | | | | - | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | - | | | | - | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for SCLT1
|
Expression
for SCLT1 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| SCLT1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See SCLT1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SCLT1
SOURCE GeneReport for Unigene cluster: Hs.654690
SABiosciences Custom PCR Arrays for SCLT1
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SCLT1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SCLT1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SCLT1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SCLT1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCLT1 |
Orthologs
for SCLT1 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of chordates.
Orthologs for SCLT1 gene from 5/14 species (see all 14) About this table
ENSEMBL Gene Tree for SCLT1 (if available)
TreeFam Gene Tree for SCLT1 (if available) |
Paralogs
for SCLT1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SCLT1 gene
- SDCCAG82
18/19 SIMAP similar genes for SCLT1 using alignment to 4 protein entries: SCLT1_HUMAN (see all proteins)
(see all similar genes):THADA HGSNAT IFT122 C12orf23 DAPK2 SUN3
UTY ATL2 CNOT2 FANCA LRRC36 FAM3A
SENP7 BUB1B GNPTAB SCIMP NSD1 SERF1B
SCLT1 for paralogs About GeneDecksing
|
Genomic Variants
for SCLT1 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 4 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for SCLT1 (129786076 - 130014764 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for SCLT1
1 CNV: 34491 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SCLT1 |
|
Disorders
/ Diseases
for SCLT1 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
 SCLT1 for disorders About MalaCards
SCLT1 for disorders About GeneDecksing
OMIM gene information: 611399
OMIM disorders: --
Export disorders for SCLT1 gene to outside databases
|
Publications
for SCLT1 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for SCLT1 gene, integrated from 9 sources (see all 11):
(articles sorted by number of sources associating them with SCLT1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- CAP-1A is a novel linker that binds clathrin and the voltage-gated sodium channel Na(v)1.8. (PubMed id 15797711)1, 3 Liu C....Dib-Hajj S.D. (2005)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Biochemical and computational analysis of LNX1 interac ting proteins. (PubMed id 22087225)1 Wolting C.D....McGlade C.J. (2011)
- Expanding the substantial interactome of NEMO using p rotein microarrays. (PubMed id 20098747)1 Fenner B.J....Prehn J.H. (2010)
- Defining the human deubiquitinating enzyme interactio n landscape. (PubMed id 19615732)1 Sowa M.E....Harper J.W. (2009)
- Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
- Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W....Wilson R.K. (2005)
- Scanning the human proteome for calmodulin-binding pr oteins. (PubMed id 15840729)1 Shen X....Liu R. (2005)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
- Gene expression profile of the human trabecular meshwork: NEIBank sequence tag analysis. (PubMed id 12766061)1 Tomarev S.I....Malyukova I. (2003)
|
External Searches for SCLT1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SCLT1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SCLT1 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SCLT1 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for SCLT1 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SCLT1 gene:
Search GeneIP for patents involving SCLT1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SCLT1 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, LifeMap BioReagents, and Sirion Biotech, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory)
About This Section
|
 | |
 | |
 |
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| |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SCLT1 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SCLT1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SCLT1 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SCLT1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SCLT1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SCLT1 |
| |
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| |  |  |  |  | | | | |
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 | | | SCLT1 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCLT1 |
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| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCLT1 |
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