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

Gene ID: 6631, updated on 5-Sep-2021

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
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Genomic context

See SNRPC in Genome Data Viewer
Location:
6p21.31
Exon count:
6
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (34757505..34773857)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (34725282..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

Associated conditions

Description Tests
GWAS identifies novel SLE susceptibility genes and explains the association of the HLA region.
GeneReviews: Not available

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 PubChem

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

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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_029472.2 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 Updated Annotation Release 109.20210514

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
    34757505..34773857
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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