Format

Send to:

Choose Destination

SNRPD3 small nuclear ribonucleoprotein D3 polypeptide [ Homo sapiens (human) ]

Gene ID: 6634, updated on 12-Oct-2019

Summary

Official Symbol
SNRPD3provided by HGNC
Official Full Name
small nuclear ribonucleoprotein D3 polypeptideprovided by HGNC
Primary source
HGNC:HGNC:11160
See related
Ensembl:ENSG00000100028 MIM:601062
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
SMD3; Sm-D3
Summary
This gene encodes a core component of the spliceosome, which is a nuclear ribonucleoprotein complex that functions in pre-mRNA splicing. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013]
Expression
Ubiquitous expression in thyroid (RPKM 22.3), prostate (RPKM 19.1) and 25 other tissues See more
Orthologs

Genomic context

See SNRPD3 in Genome Data Viewer
Location:
22q11.23
Exon count:
4
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 22 NC_000022.11 (24555650..24574971)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (24951618..24970932)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene SPECC1L-ADORA2A readthrough (NMD candidate) Neighboring gene ADORA2A antisense RNA 1 Neighboring gene adenosine A2a receptor Neighboring gene beta-ureidopropionase 1 Neighboring gene guanylyl cyclase domain containing 1 Neighboring gene leucine rich repeat containing 75B Neighboring gene gamma-glutamyltransferase 1 Neighboring gene POM121 transmembrane nucleoporin like 10, pseudogene Neighboring gene BCR pseudogene 3

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
Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of small nuclear ribonucleoprotein D3 polypeptide (SNRPD3, 18kDa) 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
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 BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Potential readthrough

Included gene: GGT1

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
U1 snRNP binding IEA
Inferred from Electronic Annotation
more info
 
U7 snRNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
enzyme binding IPI
Inferred from Physical Interaction
more info
PubMed 
histone pre-mRNA DCP binding ISS
Inferred from Sequence or Structural Similarity
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
telomerase RNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
RNA splicing TAS
Traceable Author Statement
more info
PubMed 
histone mRNA metabolic process TAS
Traceable Author Statement
more info
 
import into nucleus TAS
Traceable Author Statement
more info
 
mRNA splicing, via spliceosome IC
Inferred by Curator
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
 
protein methylation IDA
Inferred from Direct Assay
more info
PubMed 
spliceosomal snRNP assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
spliceosomal snRNP assembly IDA
Inferred from Direct Assay
more info
PubMed 
spliceosomal snRNP assembly TAS
Traceable Author Statement
more info
 
termination of RNA polymerase II transcription TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
SMN-Sm protein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
SMN-Sm protein complex 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 
U12-type spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U12-type spliceosomal complex IDA
Inferred from Direct Assay
more info
PubMed 
U2 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U2-type catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
U2-type precatalytic spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
U4 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U4 snRNP IDA
Inferred from Direct Assay
more info
PubMed 
U4/U6 x U5 tri-snRNP complex IDA
Inferred from Direct Assay
more info
PubMed 
U5 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
U7 snRNP IDA
Inferred from Direct Assay
more info
PubMed 
catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
commitment complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
methylosome IDA
Inferred from Direct Assay
more info
PubMed 
nuclear body IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
pICln-Sm protein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
pICln-Sm protein complex IDA
Inferred from Direct Assay
more info
PubMed 
small nuclear ribonucleoprotein complex TAS
Traceable Author Statement
more info
PubMed 
spliceosomal complex TAS
Traceable Author Statement
more info
PubMed 
telomerase holoenzyme complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
small nuclear ribonucleoprotein Sm D3
Names
small nuclear ribonucleoprotein D3 polypeptide 18kDa
snRNP core protein D3

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_001278656.1NP_001265585.1  small nuclear ribonucleoprotein Sm D3

    See identical proteins and their annotated locations for NP_001265585.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AP000356, BY993733, CN286602
    Consensus CDS
    CCDS13828.1
    UniProtKB/Swiss-Prot
    P62318
    Conserved Domains (1) summary
    cd01721
    Location:675
    Sm_D3; Sm protein D3
  2. NM_004175.5NP_004166.1  small nuclear ribonucleoprotein Sm D3

    See identical proteins and their annotated locations for NP_004166.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AP000356, BC000457, CN286602
    Consensus CDS
    CCDS13828.1
    UniProtKB/Swiss-Prot
    P62318
    Related
    ENSP00000215829.3, ENST00000215829.8
    Conserved Domains (1) summary
    cd01721
    Location:675
    Sm_D3; Sm protein D3

RNA

  1. NR_103819.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region found in variant 1.
    Source sequence(s)
    AP000356, BP202359

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_000022.11 Reference GRCh38.p13 Primary Assembly

    Range
    24555650..24574971
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center