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    SNRPD1 small nuclear ribonucleoprotein D1 polypeptide [ Homo sapiens (human) ]

    Gene ID: 6632, updated on 17-Jun-2024

    Summary

    Official Symbol
    SNRPD1provided by HGNC
    Official Full Name
    small nuclear ribonucleoprotein D1 polypeptideprovided by HGNC
    Primary source
    HGNC:HGNC:11158
    See related
    Ensembl:ENSG00000167088 MIM:601063; AllianceGenome:HGNC:11158
    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
    SMD1; SNRPD; Sm-D1; HsT2456
    Summary
    This gene encodes a small nuclear ribonucleoprotein that belongs to the SNRNP core protein family. The protein may act as a charged protein scaffold to promote SNRNP assembly or strengthen SNRNP-SNRNP interactions through nonspecific electrostatic contacts with RNA. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2014]
    Expression
    Ubiquitous expression in lymph node (RPKM 17.9), bone marrow (RPKM 15.5) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See SNRPD1 in Genome Data Viewer
    Location:
    18q11.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (21612314..21633520)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (21797409..21818615)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (19192275..19213481)

    Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene GREB1 like retinoic acid receptor coactivator Neighboring gene uncharacterized LOC101927521 Neighboring gene small nucleolar RNA SNORD23 Neighboring gene establishment of sister chromatid cohesion N-acetyltransferase 1 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr18:19171613-19172342 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:19173073-19173800 Neighboring gene Sharpr-MPRA regulatory region 3945 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13133 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13134 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13135 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9341 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13136 Neighboring gene MPRA-validated peak3065 silencer Neighboring gene MPRA-validated peak3066 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13137 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9342 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13138 Neighboring gene MPRA-validated peak3067 silencer Neighboring gene abhydrolase domain containing 3, phospholipase Neighboring gene small nucleolar RNA SNORA81 Neighboring gene microRNA 320c-1 Neighboring gene MIB E3 ubiquitin protein ligase 1

    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?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Tat 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 RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of SMN-Sm protein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of SMN-Sm protein complex 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 U1 snRNP NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of U12-type spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of U12-type spliceosomal complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 U4 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of U4 snRNP IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of U4 snRNP NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of U4/U6 x U5 tri-snRNP complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of U4/U6 x U5 tri-snRNP complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of U5 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of U5 snRNP NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of catalytic step 2 spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of commitment complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    part_of methylosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus HDA PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of pICln-Sm protein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of pICln-Sm protein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of precatalytic spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of small nuclear ribonucleoprotein complex TAS
    Traceable Author Statement
    more info
    PubMed 
    part_of spliceosomal complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of spliceosomal complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of spliceosomal tri-snRNP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    small nuclear ribonucleoprotein Sm D1
    Names
    Sm-D autoantigen
    small nuclear ribonucleoprotein D1 polypeptide 16kDa pseudogene
    snRNP core protein D1

    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_001291916.2NP_001278845.1  small nuclear ribonucleoprotein Sm D1 isoform 2

      See identical proteins and their annotated locations for NP_001278845.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AC106037, CN354758, HY043971, J03798
      UniProtKB/Swiss-Prot
      P62314
      Conserved Domains (1) summary
      cl00259
      Location:252
      Sm_like; Sm and related proteins
    2. NM_006938.4NP_008869.1  small nuclear ribonucleoprotein Sm D1 isoform 1

      See identical proteins and their annotated locations for NP_008869.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC106037, J03798
      Consensus CDS
      CCDS32801.1
      UniProtKB/Swiss-Prot
      B5BTZ1, P13641, P62314
      Related
      ENSP00000300413.4, ENST00000300413.10
      Conserved Domains (1) summary
      cd01724
      Location:293
      Sm_D1; Sm protein D1

    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_000018.10 Reference GRCh38.p14 Primary Assembly

      Range
      21612314..21633520
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060942.1 Alternate T2T-CHM13v2.0

      Range
      21797409..21818615
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)