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SNRNP40 small nuclear ribonucleoprotein U5 subunit 40 [ Homo sapiens (human) ]

Gene ID: 9410, updated on 6-May-2021

Summary

Official Symbol
SNRNP40provided by HGNC
Official Full Name
small nuclear ribonucleoprotein U5 subunit 40provided by HGNC
Primary source
HGNC:HGNC:30857
See related
Ensembl:ENSG00000060688 MIM:607797
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
40K; SPF38; WDR57; PRP8BP; HPRP8BP; PRPF8BP
Summary
This gene encodes a component of the U5 small nuclear ribonucleoprotein (snRNP) particle. The U5 snRNP is part of the spliceosome, a multiprotein complex that catalyzes the removal of introns from pre-messenger RNAs. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in lymph node (RPKM 17.2), testis (RPKM 14.1) and 25 other tissues See more
Orthologs
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Genomic context

See SNRNP40 in Genome Data Viewer
Location:
1p35.2
Exon count:
10
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (31259568..31296788, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (31732415..31769635, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984935 Neighboring gene sodium/potassium transporting ATPase interacting 1 Neighboring gene zinc finger CCHC-type containing 17 Neighboring gene fatty acid binding protein 3 Neighboring gene uncharacterized LOC105378623

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

Phenotypes

Associated conditions

Description Tests
NKAIN1-SERINC2 is a functional, replicable and genome-wide significant risk gene region specific for alcohol dependence in subjects of European descent.
GeneReviews: Not available

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, small nuclear ribonucleoprotein 40kDa (SNRNP40), 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

  • MGC1910, FLJ41108

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
part_of U2-type catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
part_of U5 snRNP TAS
Traceable Author Statement
more info
PubMed 
part_of catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in nuclear speck IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
part_of sno(s)RNA-containing ribonucleoprotein complex NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
U5 small nuclear ribonucleoprotein 40 kDa protein
Names
38 kDa-splicing factor
Prp8-binding protein
U5 snRNP 40 kDa protein
U5 snRNP-specific 40 kDa protein
U5-40K
U5-40kD protein
WD repeat domain 57 (U5 snRNP specific)
WD repeat-containing protein 57
small nuclear ribonucleoprotein 40kDa (U5)
small nuclear ribonucleoprotein, U5 40kDa subunit

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_004814.3NP_004805.2  U5 small nuclear ribonucleoprotein 40 kDa protein

    See identical proteins and their annotated locations for NP_004805.2

    Status: REVIEWED

    Source sequence(s)
    AC114495, BC001494, BM150898, CR736901
    Consensus CDS
    CCDS340.1
    UniProtKB/Swiss-Prot
    Q96DI7
    UniProtKB/TrEMBL
    A0MNP2
    Related
    ENSP00000263694.4, ENST00000263694.9
    Conserved Domains (2) summary
    cd00200
    Location:62351
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    sd00039
    Location:70107
    7WD40; WD40 repeat [structural motif]

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    31259568..31296788 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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