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SNRPB2 small nuclear ribonucleoprotein polypeptide B2 [ Homo sapiens (human) ]

Gene ID: 6629, updated on 11-Apr-2024

Summary

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Official Symbol
SNRPB2provided by HGNC
Official Full Name
small nuclear ribonucleoprotein polypeptide B2provided by HGNC
Primary source
HGNC:HGNC:11155
See related
Ensembl:ENSG00000125870 MIM:603520; AllianceGenome:HGNC:11155
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
Msl1; U2B''
Summary
The protein encoded by this gene associates with stem loop IV of U2 small nuclear ribonucleoprotein (U2 snRNP) in the presence of snRNP-A'. The encoded protein may play a role in pre-mRNA splicing. Autoantibodies from patients with systemic lupus erythematosus frequently recognize epitopes on the encoded protein. Two transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in lymph node (RPKM 22.1), appendix (RPKM 20.1) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
20p12.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (16730026..16742564)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (16781147..16793686)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (16710671..16723209)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372542 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:16605418-16605990 Neighboring gene ribosomal protein L7a pseudogene 13 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_59901 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:16709782-16710650 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17562 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17563 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12684 Neighboring gene otoraplin Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:16911071-16911646 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:16956495-16957021 Neighboring gene uncharacterized LOC124904984

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Nuclear exchange of the U1 and U2 snRNP-specific proteins. Feeney RJ, et al. J Cell Biol, 1990 Apr. PMID 2139037, Free PMC Article
  2. Structural/functional properties of a mammalian multi-component structure containing all major spliceosomal small nuclear ribonucleoprotein particles. Moraitou M, et al. Biochem J, 1998 May 15. PMID 9576861, Free PMC Article
  3. U2-snRNP B" protein gene is an early growth-inducible gene. Laitinen J, et al. J Cell Biochem, 1995 Aug. PMID 7593271
  4. Analysis of a cDNA clone expressing a human autoimmune antigen: full-length sequence of the U2 small nuclear RNA-associated B" antigen. Habets WJ, et al. Proc Natl Acad Sci U S A, 1987 Apr. PMID 2951739, Free PMC Article
  5. Binding affinity and cooperativity control U2B″/snRNA/U2A' RNP formation. Williams SG, et al. Biochemistry, 2014 Jun 17. PMID 24866816, Free PMC Article

See all (114) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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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

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC24807, MGC45309

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables U1 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 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 
Component Evidence Code Pubs
part_of U1 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2 snRNP IDA
Inferred from Direct Assay
more info
 PubMed 
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 cytoplasmic ribonucleoprotein granule IDA
Inferred from Direct Assay
more info
  
located_in fibrillar center 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
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus NAS
Non-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

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

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_003092.5 → NP_003083.1  U2 small nuclear ribonucleoprotein B''

    See identical proteins and their annotated locations for NP_003083.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AI741327, AL034428, BC018022, BM772256
    Consensus CDS
    CCDS13123.1
    UniProtKB/Swiss-Prot
    B2R7J3, D3DW21, P08579, Q9UJD4
    UniProtKB/TrEMBL
    B5BTZ8
    Related
    ENSP00000246071.6, ENST00000246071.8
    Conserved Domains (2) summary
    cd12481
    Location:146 → 225
    RRM2_U2B; RNA recognition motif 2 (RRM2) found in vertebrate U2 small nuclear ribonucleoprotein B" (U2B")
    cd12478
    Location:6 → 96
    RRM1_U2B; RNA recognition motif 1 in U2 small nuclear ribonucleoprotein B" (U2B") and similar proteins

  2. NM_198220.3 → NP_937863.1  U2 small nuclear ribonucleoprotein B''

    See identical proteins and their annotated locations for NP_937863.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AI741327, AL034428, BC036737, BM772256, DA088017
    Consensus CDS
    CCDS13123.1
    UniProtKB/Swiss-Prot
    B2R7J3, D3DW21, P08579, Q9UJD4
    UniProtKB/TrEMBL
    B5BTZ8
    Related
    ENSP00000367178.5, ENST00000377943.9
    Conserved Domains (2) summary
    cd12481
    Location:146 → 225
    RRM2_U2B; RNA recognition motif 2 (RRM2) found in vertebrate U2 small nuclear ribonucleoprotein B" (U2B")
    cd12478
    Location:6 → 96
    RRM1_U2B; RNA recognition motif 1 in U2 small nuclear ribonucleoprotein B" (U2B") and similar proteins

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_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    16730026..16742564
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    16781147..16793686
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P08579.1 GenPept UniProtKB/Swiss-Prot:P08579

Gene LinkOut

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