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    SNRPA1 small nuclear ribonucleoprotein polypeptide A' [ Homo sapiens (human) ]

    Gene ID: 6627, updated on 9-Dec-2024

    Summary

    Official Symbol
    SNRPA1provided by HGNC
    Official Full Name
    small nuclear ribonucleoprotein polypeptide A'provided by HGNC
    Primary source
    HGNC:HGNC:11152
    See related
    Ensembl:ENSG00000131876 MIM:603521; AllianceGenome:HGNC:11152
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    Lea1; U2A'
    Summary
    Enables RNA binding activity. Involved in mRNA splicing, via spliceosome and spermatogenesis. Located in nuclear speck. Part of U2-type catalytic step 2 spliceosome and U2-type precatalytic spliceosome. Implicated in connective tissue disease. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in bone marrow (RPKM 26.0), testis (RPKM 22.8) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See SNRPA1 in Genome Data Viewer
    Location:
    15q26.3
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (101281510..101295248, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (99036543..99050299, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (101821715..101835453, complement)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984727 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10191 Neighboring gene Sharpr-MPRA regulatory region 1457 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:101807276-101807810 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6888 Neighboring gene selenoprotein S Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10192 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:101834407-101835038 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6889 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10193 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10194 Neighboring gene SNRPA1 divergent transcript Neighboring gene uncharacterized LOC100507472 Neighboring gene proprotein convertase subtilisin/kexin type 6

    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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Common variants in left/right asymmetry genes and pathways are associated with relative hand skill.
    EBI GWAS Catalog

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of small nuclear ribonucleoprotein polypeptide A' (SNRPA1) 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 Rev inhibits the binding of U2 small nuclear ribonucleoprotein within the spliceosome PubMed
    Tat tat Small nuclear ribonucleoprotein polypeptide A' (SNRPA1) is identified to interact with HIV-1 Tat mutant Nullbasic in HeLa cells by LC MS/MS PubMed
    tat U2 snRNPs interact with the HIV-1 Tat cofactor TAT-SF1 and stimulate transcription from the HIV-1 LTR promoter 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

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables U2 snRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in RNA splicing TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in U2-type prespliceosome assembly NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mRNA splicing, via spliceosome IC
    Inferred by Curator
    more info
    PubMed 
    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 spermatogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of U2 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of U2 snRNP NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of U2-type catalytic step 2 spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of U2-type precatalytic spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of U2-type spliceosomal complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of catalytic step 2 spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear body IDA
    Inferred from Direct Assay
    more info
     
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of small nuclear ribonucleoprotein complex TAS
    Traceable Author Statement
    more info
    PubMed 
    part_of spliceosomal complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of spliceosomal complex NAS
    Non-traceable Author Statement
    more info
    PubMed 

    General protein information

    Preferred Names
    U2 small nuclear ribonucleoprotein A'
    Names
    U2 small nuclear ribonucleoprotein polypeptide A'
    U2 snRNP A'

    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_003090.4NP_003081.2  U2 small nuclear ribonucleoprotein A'

      See identical proteins and their annotated locations for NP_003081.2

      Status: VALIDATED

      Source sequence(s)
      AC023024, AK312200, BC022816
      Consensus CDS
      CCDS10391.1
      UniProtKB/Swiss-Prot
      B2R5I6, P09661, Q8TBD2
      UniProtKB/TrEMBL
      Q53G61
      Related
      ENSP00000254193.6, ENST00000254193.11
      Conserved Domains (2) summary
      sd00031
      Location:2243
      LRR_1; leucine-rich repeat [structural motif]
      pfam14580
      Location:1175
      LRR_9; Leucine-rich repeat

    RNA

    1. NR_135506.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC023024, AJ130972, AL538391, BC022816
    2. NR_135507.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AJ130971, AL538391, BC022816
    3. NR_135508.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC023024
      Related
      ENST00000559309.5

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

      Range
      101281510..101295248 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060939.1 Alternate T2T-CHM13v2.0

      Range
      99036543..99050299 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)