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Aliases for SNAPC1 Gene

Aliases for SNAPC1 Gene

  • Small Nuclear RNA Activating Complex Polypeptide 1 2 3 5
  • Proximal Sequence Element-Binding Transcription Factor Subunit Gamma 3 4
  • Small Nuclear RNA Activating Complex, Polypeptide 1, 43kDa 2 3
  • Small Nuclear RNA Activating Complex, Polypeptide 1, 43kD 2 3
  • SnRNA-Activating Protein Complex 43 KDa Subunit 3 4
  • PSE-Binding Factor Subunit Gamma 3 4
  • SNAPc 43 KDa Subunit 3 4
  • PTF Subunit Gamma 3 4
  • SNAPc Subunit 1 3 4
  • SNAP43 3 4
  • Small Nuclear RNA-Activating Complex Polypeptide 1 4
  • SnRNA-Activating Protein Complex Subunit 1 3
  • PTFgamma 3

External Ids for SNAPC1 Gene

Previous GeneCards Identifiers for SNAPC1 Gene

  • GC14U990055
  • GC14P056022
  • GC14P060219
  • GC14P061298
  • GC14P062229
  • GC14P042392

Summaries for SNAPC1 Gene

GeneCards Summary for SNAPC1 Gene

SNAPC1 (Small Nuclear RNA Activating Complex Polypeptide 1) is a Protein Coding gene. Among its related pathways are RNA Polymerase III Transcription Initiation and Gene Expression.

UniProtKB/Swiss-Prot for SNAPC1 Gene

  • Part of the SNAPc complex required for the transcription of both RNA polymerase II and III small-nuclear RNA genes. Binds to the proximal sequence element (PSE), a non-TATA-box basal promoter element common to these 2 types of genes. Recruits TBP and BRF2 to the U6 snRNA TATA box.

Gene Wiki entry for SNAPC1 Gene

Additional gene information for SNAPC1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNAPC1 Gene

Genomics for SNAPC1 Gene

GeneHancer (GH) Regulatory Elements for SNAPC1 Gene

Promoters and enhancers for SNAPC1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH14I061761 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 573.4 +1.5 1465 4.8 HDGF PKNOX1 ATF1 FOXA2 SMAD1 ARID4B SIN3A DMAP1 YY1 ETS1 SNAPC1 GC14P061748 ENSG00000258964 ENSG00000279633
GH14I061747 Promoter/Enhancer 2.2 FANTOM5 Ensembl ENCODE dbSUPER 11.5 -10.2 -10159 8.9 PKNOX1 SMAD1 ARNT SIN3A FEZF1 IRF4 ZNF213 ZNF207 ZNF143 JUNB HIF1A-AS2 LOC105370526 SNAPC1 FLJ22447 SRMP2 HIF1A GC14P061748 GC14M061748 GC14M061747 ENSG00000258964
GH14I061468 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 11.7 -284.7 -284714 17.7 PKNOX1 CLOCK FOXA2 NEUROD1 SIN3A FEZF1 ZNF2 YY1 ZNF213 ZNF143 HIF1A LINC01303 FLJ22447 SNAPC1 HIF1A-AS1 PRKCH GC14M061347 ENSG00000247287
GH14I061501 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 10.3 -258.1 -258109 5.8 HDGF PKNOX1 CHD4 EBF1 RELA ZNF121 POLR2A IKZF2 RUNX3 SRF PRKCH LINC01303 FLJ22447 SNAPC1 HIF1A ENSG00000258989 GC14M061347
GH14I061437 Enhancer 1.3 Ensembl ENCODE dbSUPER 10.5 -323.5 -323482 3.6 HDGF PKNOX1 FOXA2 SMAD1 SIN3A FEZF1 IRF4 YY1 ZNF207 ATF7 SNAPC1 GC14M061347 ENSG00000247287 PRKCH
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SNAPC1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SNAPC1 gene promoter:

Genomic Locations for SNAPC1 Gene

Genomic Locations for SNAPC1 Gene
chr14:61,762,357-61,796,428
(GRCh38/hg38)
Size:
34,072 bases
Orientation:
Plus strand
chr14:62,229,075-62,263,146
(GRCh37/hg19)

Genomic View for SNAPC1 Gene

Genes around SNAPC1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNAPC1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNAPC1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNAPC1 Gene

Proteins for SNAPC1 Gene

  • Protein details for SNAPC1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q16533-SNPC1_HUMAN
    Recommended name:
    snRNA-activating protein complex subunit 1
    Protein Accession:
    Q16533

    Protein attributes for SNAPC1 Gene

    Size:
    368 amino acids
    Molecular mass:
    42994 Da
    Quaternary structure:
    • Part of the SNAPc complex composed of 5 subunits: SNAPC1, SNAPC2, SNAPC3, SNAPC4 and SNAPC5. SNAPC1 interacts with SNAPC3, SNAPC4 and TBP.

neXtProt entry for SNAPC1 Gene

Post-translational modifications for SNAPC1 Gene

Other Protein References for SNAPC1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SNAPC1 Gene

Domains & Families for SNAPC1 Gene

Gene Families for SNAPC1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SNAPC1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SNAPC1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SNAPC1: view

No data available for UniProtKB/Swiss-Prot for SNAPC1 Gene

Function for SNAPC1 Gene

Molecular function for SNAPC1 Gene

GENATLAS Biochemistry:
small nuclear activating protein complex,polypeptide 1,43kDa,TBP associated factor (TAF) binding to the proximal sequence element PSE,required for transcription of SNRN genes by polymerases II and III,soluble N ethylmaleimide-sensitive factor-attachment protein receptor,SNARE protein
UniProtKB/Swiss-Prot Function:
Part of the SNAPc complex required for the transcription of both RNA polymerase II and III small-nuclear RNA genes. Binds to the proximal sequence element (PSE), a non-TATA-box basal promoter element common to these 2 types of genes. Recruits TBP and BRF2 to the U6 snRNA TATA box.

Phenotypes From GWAS Catalog for SNAPC1 Gene

Gene Ontology (GO) - Molecular Function for SNAPC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043565 sequence-specific DNA binding IBA --
genes like me logo Genes that share ontologies with SNAPC1: view
genes like me logo Genes that share phenotypes with SNAPC1: view

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNAPC1 Gene

Localization for SNAPC1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNAPC1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SNAPC1 gene
Compartment Confidence
nucleus 5
mitochondrion 2
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (3)
  • Nucleus (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SNAPC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA --
GO:0019185 snRNA-activating protein complex IBA --
genes like me logo Genes that share ontologies with SNAPC1: view

Pathways & Interactions for SNAPC1 Gene

genes like me logo Genes that share pathways with SNAPC1: view

Gene Ontology (GO) - Biological Process for SNAPC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0042795 snRNA transcription by RNA polymerase II TAS,IBA --
GO:0042796 snRNA transcription by RNA polymerase III IBA --
genes like me logo Genes that share ontologies with SNAPC1: view

No data available for SIGNOR curated interactions for SNAPC1 Gene

Drugs & Compounds for SNAPC1 Gene

No Compound Related Data Available

Transcripts for SNAPC1 Gene

mRNA/cDNA for SNAPC1 Gene

(1) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(611) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SNAPC1 Gene

Small nuclear RNA activating complex, polypeptide 1, 43kDa:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SNAPC1 Gene

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

Relevant External Links for SNAPC1 Gene

GeneLoc Exon Structure for
SNAPC1
ECgene alternative splicing isoforms for
SNAPC1

Expression for SNAPC1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SNAPC1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SNAPC1 Gene

This gene is overexpressed in Testis (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SNAPC1 Gene



Protein tissue co-expression partners for SNAPC1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SNAPC1 Gene:

SNAPC1

SOURCE GeneReport for Unigene cluster for SNAPC1 Gene:

Hs.179312

Evidence on tissue expression from TISSUES for SNAPC1 Gene

  • Kidney(4.2)
  • Skin(4.1)
genes like me logo Genes that share expression patterns with SNAPC1: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNAPC1 Gene

Orthologs for SNAPC1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNAPC1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNAPC1 33 34
  • 99.46 (n)
dog
(Canis familiaris)
Mammalia SNAPC1 33 34
  • 91.67 (n)
cow
(Bos Taurus)
Mammalia SNAPC1 33 34
  • 88.25 (n)
mouse
(Mus musculus)
Mammalia Snapc1 33 16 34
  • 80.51 (n)
rat
(Rattus norvegicus)
Mammalia Snapc1 33
  • 79.08 (n)
oppossum
(Monodelphis domestica)
Mammalia SNAPC1 34
  • 69 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNAPC1 34
  • 62 (a)
OneToOne
chicken
(Gallus gallus)
Aves SNAPC1 33 34
  • 66.02 (n)
lizard
(Anolis carolinensis)
Reptilia SNAPC1 34
  • 44 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia snapc1 33
  • 61.19 (n)
Str.10031 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.13170 33
zebrafish
(Danio rerio)
Actinopterygii snapc1b 33 34
  • 55.68 (n)
snapc1a 34
  • 35 (a)
OneToMany
zgc55475 33
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 38 (a)
OneToOne
Species where no ortholog for SNAPC1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 SNAPC1 Gene

ENSEMBL:
Gene Tree for SNAPC1 (if available)
TreeFam:
Gene Tree for SNAPC1 (if available)

Paralogs for SNAPC1 Gene

Pseudogenes.org Pseudogenes for SNAPC1 Gene

genes like me logo Genes that share paralogs with SNAPC1: view

No data available for Paralogs for SNAPC1 Gene

Variants for SNAPC1 Gene

Sequence variations from dbSNP and Humsavar for SNAPC1 Gene

SNP ID Clin Chr 14 pos Variation AA Info Type
rs1000027745 -- 61,772,543(+) C/T intron_variant
rs1000081466 -- 61,787,451(+) A/T intron_variant
rs1000252268 -- 61,779,582(+) T/G intron_variant
rs1000306311 -- 61,790,010(+) A/G intron_variant
rs1000416368 -- 61,784,621(+) A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SNAPC1 Gene

Variant ID Type Subtype PubMed ID
dgv640e212 CNV loss 25503493
esv3443817 CNV insertion 20981092
esv3567899 CNV gain 25503493
esv3634689 CNV loss 21293372
nsv1300 CNV deletion 18451855
nsv1301 CNV insertion 18451855

Variation tolerance for SNAPC1 Gene

Residual Variation Intolerance Score: 33.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.36; 63.39% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SNAPC1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNAPC1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNAPC1 Gene

Disorders for SNAPC1 Gene

Additional Disease Information for SNAPC1

No disorders were found for SNAPC1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SNAPC1 Gene

Publications for SNAPC1 Gene

  1. The small nuclear RNA-activating protein 190 Myb DNA binding domain stimulates TATA box-binding protein-TATA box recognition. (PMID: 12621023) Hinkley CS … Henry RW (The Journal of biological chemistry 2003) 3 4 22 58
  2. A TBP-TAF complex required for transcription of human snRNA genes by RNA polymerase II and III. (PMID: 7715707) Henry RW … Hernandez N (Nature 1995) 3 4 22 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. A map of protein-protein contacts within the small nuclear RNA-activating protein complex SNAPc. (PMID: 11056176) Ma B … Hernandez N (The Journal of biological chemistry 2001) 3 4 58
  5. The human PTFgamma/SNAP43 gene: structure, chromosomal location, and identification of a VNTR in 5'-UTR. (PMID: 9644240) Maeng JH … Yoon JB (Journal of biochemistry 1998) 2 3 58

Products for SNAPC1 Gene

Sources for SNAPC1 Gene

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