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

    Gene ID: 6631, updated on 17-Jun-2024

    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; AllianceGenome:HGNC:11157
    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
    NEW
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    Try the new Transcript table

    Genomic context

    See SNRPC in Genome Data Viewer
    Location:
    6p21.31
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (34757505..34773857)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (34580289..34596650)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (34725282..34741634)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ATP6V1F pseudogene 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:34710368-34710541 Neighboring gene ribosomal protein S10 pseudogene 13 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:34724117-34724874 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:34724875-34725632 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24388 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24389 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24390 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:34759500-34760036 Neighboring gene bridge-like lipid transfer protein family member 3A Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24391 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24392 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:34855493-34856044 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

    EBI GWAS Catalog

    Description
    GWAS identifies novel SLE susceptibility genes and explains the association of the HLA region.
    EBI GWAS 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 PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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 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
     
    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
     
    involved_in mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in mRNA splicing, via spliceosome NAS
    Non-traceable Author Statement
    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
     
    part_of U1 snRNP IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of U1 snRNP IPI
    Inferred from Physical Interaction
    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
     
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of spliceosomal complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 

    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)

    NEW Try the new Transcript table

    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, Q5TAL3
      UniProtKB/TrEMBL
      Q53G33, 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: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

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

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      34580289..34596650
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)