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Aliases for SCNM1 Gene

Aliases for SCNM1 Gene

  • Sodium Channel Modifier 1 2 3
  • MGC3180 6

External Ids for SCNM1 Gene

Previous GeneCards Identifiers for SCNM1 Gene

  • GC01P147913
  • GC01P148355
  • GC01P147951
  • GC01P149405

Summaries for SCNM1 Gene

Entrez Gene Summary for SCNM1 Gene

  • SCNM1 is a zinc finger protein and putative splicing factor. In mice, Scnm1 modifies phenotypic expression of Scn8a (MIM 600702) mutations (Buchner et al., 2003 [PubMed 12920299]).[supplied by OMIM, Oct 2009]

GeneCards Summary for SCNM1 Gene

SCNM1 (Sodium Channel Modifier 1) is a Protein Coding gene.

UniProtKB/Swiss-Prot for SCNM1 Gene

  • Plays a role in RNA splicing, possibly contributing to the recognition of non-consensus donor sites.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCNM1 Gene

Genomics for SCNM1 Gene

Regulatory Elements for SCNM1 Gene

Genomic Location for SCNM1 Gene

Start:
151,156,664 bp from pter
End:
151,170,297 bp from pter
Size:
13,634 bases
Orientation:
Plus strand

Genomic View for SCNM1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SCNM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCNM1 Gene

Proteins for SCNM1 Gene

  • Protein details for SCNM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BWG6-SCNM1_HUMAN
    Recommended name:
    Sodium channel modifier 1
    Protein Accession:
    Q9BWG6
    Secondary Accessions:
    • B4DWR1
    • Q5JR74

    Protein attributes for SCNM1 Gene

    Size:
    230 amino acids
    Molecular mass:
    25949 Da
    Quaternary structure:
    • Interacts with LUC7L2 and SNRNP70, which suggests a role as a spliceosome component.

    Alternative splice isoforms for SCNM1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCNM1 Gene

Proteomics data for SCNM1 Gene at MOPED

Post-translational modifications for SCNM1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SCNM1 Gene

No data available for DME Specific Peptides for SCNM1 Gene

Domains for SCNM1 Gene

Protein Domains for SCNM1 Gene

ProtoNet:

Suggested Antigen Peptide Sequences for SCNM1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BWG6

UniProtKB/Swiss-Prot:

SCNM1_HUMAN :
  • Q9BWG6
Similarity:
  • Contains 1 matrin-type zinc finger.
genes like me logo Genes that share domains with SCNM1: view

No data available for Gene Families for SCNM1 Gene

Function for SCNM1 Gene

Molecular function for SCNM1 Gene

UniProtKB/Swiss-Prot Function: Plays a role in RNA splicing, possibly contributing to the recognition of non-consensus donor sites.

Gene Ontology (GO) - Molecular Function for SCNM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0019899 enzyme binding IPI 23382074
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with SCNM1: view
genes like me logo Genes that share phenotypes with SCNM1: view

Animal Models for SCNM1 Gene

MGI Knock Outs for SCNM1:

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for SCNM1 Gene

Localization for SCNM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCNM1 Gene

Nucleus. Nucleus speckle. Note=Colocalizes with LUC7L2 and SNRNP70 in nuclear speckles. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SCNM1 Gene COMPARTMENTS Subcellular localization image for SCNM1 gene
Compartment Confidence
nucleus 3
cytosol 2
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SCNM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005730 nucleolus IDA --
GO:0016607 nuclear speck IEA --
genes like me logo Genes that share ontologies with SCNM1: view

Pathways for SCNM1 Gene

SuperPathways for SCNM1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCNM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with SCNM1: view

No data available for Pathways by source for SCNM1 Gene

Transcripts for SCNM1 Gene

Unigene Clusters for SCNM1 Gene

Sodium channel modifier 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SCNM1

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCNM1 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b · 7c
SP1: - - - - -
SP2: - - - - -
SP3: - - - -
SP4: - - -
SP5: - -
SP6: - -
SP7: -

Relevant External Links for SCNM1 Gene

GeneLoc Exon Structure for
SCNM1
ECgene alternative splicing isoforms for
SCNM1

Expression for SCNM1 Gene

mRNA expression in normal human tissues for SCNM1 Gene

mRNA differential expression in normal tissues according to GTEx for SCNM1 Gene

This gene is overexpressed in Whole Blood (4.4).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SCNM1 Gene

SOURCE GeneReport for Unigene cluster for SCNM1 Gene Hs.732060

genes like me logo Genes that share expressions with SCNM1: 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 SCNM1 Gene

Orthologs for SCNM1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCNM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SCNM1 35
  • 99.57 (n)
  • 99.13 (a)
SCNM1 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SCNM1 35
  • 90.87 (n)
  • 90.43 (a)
SCNM1 36
  • 90 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SCNM1 35
  • 88.41 (n)
  • 86.52 (a)
SCNM1 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Scnm1 35
  • 84.59 (n)
  • 81.18 (a)
Scnm1 16
Scnm1 36
  • 81 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SCNM1 36
  • 72 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Scnm1 35
  • 84.43 (n)
  • 82.53 (a)
chicken
(Gallus gallus)
Aves SCNM1 35
  • 55.31 (n)
  • 51.33 (a)
SCNM1 36
  • 44 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SCNM1 36
  • 47 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia scnm1 35
  • 57.74 (n)
  • 56.7 (a)
zebrafish
(Danio rerio)
Actinopterygii scnm1 35
  • 51.77 (n)
  • 48.23 (a)
scnm1 36
  • 44 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 29 (a)
OneToOne
Species with no ortholog for SCNM1:
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 SCNM1 Gene

ENSEMBL:
Gene Tree for SCNM1 (if available)
TreeFam:
Gene Tree for SCNM1 (if available)

Paralogs for SCNM1 Gene

No data available for Paralogs for SCNM1 Gene

Variants for SCNM1 Gene

Structural Variations from Database of Genomic Variants (DGV) for SCNM1 Gene

Variant ID Type Subtype PubMed ID
nsv522840 CNV Gain 19592680
dgv2n68 CNV Loss 17160897

Relevant External Links for SCNM1 Gene

HapMap Linkage Disequilibrium report
SCNM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations from dbSNP and Humsavar for SCNM1 Gene

Disorders for SCNM1 Gene

No disorders were found for SCNM1 Gene.

No data available for UniProtKB/Swiss-Prot for SCNM1 Gene

Publications for SCNM1 Gene

  1. SCNM1, a putative RNA splicing factor that modifies disease severity in mice. (PMID: 12920299) Buchner D.A. … Meisler M.H. (Science 2003) 2 3 23
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4
  5. Evidence for a direct role of the disease modifier SCNM1 in splicing. (PMID: 17656373) Howell V.M. … Meisler M.H. (Hum. Mol. Genet. 2007) 3

Products for SCNM1 Gene

Sources for SCNM1 Gene

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