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SNRPC small nuclear ribonucleoprotein polypeptide C [ Homo sapiens (human) ]

Gene ID: 6631, updated on 12-Oct-2019

Summary

Official Symbol
SNRPCprovided by HGNC
Official Full Name
small nuclear ribonucleoprotein polypeptide Cprovided by HGNC
Primary source
HGNC:HGNC:11157
See related
Ensembl:ENSG00000124562 MIM:603522
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
U1C; Yhc1
Summary
This gene encodes one of the specific protein components of the U1 small nuclear ribonucleoprotein (snRNP) particle required for the formation of the spliceosome. The encoded protein participates in the processing of nuclear precursor messenger RNA splicing. snRNP particles are attacked by autoantibodies frequently produced by patients with connective tissue diseases. The genome contains several pseudogenes of this functional gene. Alternative splicing results in a non-coding transcript variant.[provided by RefSeq, Oct 2009]
Expression
Ubiquitous expression in testis (RPKM 34.9), bone marrow (RPKM 32.7) and 25 other tissues See more
Orthologs

Genomic context

See SNRPC in Genome Data Viewer
Location:
6p21.31
Exon count:
6
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (34757094..34773857)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (34724871..34741634)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene V-type proton ATPase subunit F pseudogene Neighboring gene ribosomal protein S10 pseudogene 13 Neighboring gene UHRF1 binding protein 1 Neighboring gene RNY3 pseudogene 15 Neighboring gene TATA-box binding protein associated factor 11

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Phenotypes

NHGRI GWAS Catalog

Description
GWAS identifies novel SLE susceptibility genes and explains the association of the HLA region.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of small nuclear ribonucleoprotein polypeptide C (SNRPC) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, small nuclear ribonucleoprotein polypeptide C (SNRPC), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • Spliceosome, organism-specific biosystem (from KEGG)
    Spliceosome, organism-specific biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
  • Spliceosome, conserved biosystem (from KEGG)
    Spliceosome, conserved biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
  • Spliceosome, U1-snRNP, organism-specific biosystem (from KEGG)
    Spliceosome, U1-snRNP, organism-specific biosystemStructural complex; Genetic information processing; Spliceosome
  • Spliceosome, U1-snRNP, conserved biosystem (from KEGG)
    Spliceosome, U1-snRNP, conserved biosystemStructural complex; Genetic information processing; Spliceosome
  • mRNA Splicing, organism-specific biosystem (from REACTOME)
    mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
  • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
    mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ20302

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
NOT U1 snRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
U1 snRNP binding IEA
Inferred from Electronic Annotation
more info
 
mRNA binding IEA
Inferred from Electronic Annotation
more info
 
pre-mRNA 5'-splice site binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
single-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
zinc ion binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
mRNA 5'-splice site recognition IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
spliceosomal snRNP assembly IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
Cajal body IDA
Inferred from Direct Assay
more info
PubMed 
U1 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U1 snRNP IDA
Inferred from Direct Assay
more info
PubMed 
U2-type prespliceosome IEA
Inferred from Electronic Annotation
more info
 
commitment complex IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
U1 small nuclear ribonucleoprotein C
Names
U1 small nuclear RNP specific C
U1 snRNP C
U1 snRNP protein C

NCBI Reference Sequences (RefSeq)

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_003093.3NP_003084.1  U1 small nuclear ribonucleoprotein C

    See identical proteins and their annotated locations for NP_003084.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AI356808, AK311955, BU153661, CD109745
    Consensus CDS
    CCDS34436.1
    UniProtKB/Swiss-Prot
    P09234
    UniProtKB/TrEMBL
    Q5TAL4
    Related
    ENSP00000244520.5, ENST00000244520.10
    Conserved Domains (1) summary
    pfam06220
    Location:138
    zf-U1; U1 zinc finger

RNA

  1. NR_029472.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI356808, AL139100, BU153661, BU508721, CD109745

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    34757094..34773857
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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