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... See more...

Aliases for SNRPB2 Gene

Aliases for SNRPB2 Gene

  • Small Nuclear Ribonucleoprotein Polypeptide B2 2 3 5
  • U2 Small Nuclear Ribonucleoprotein B'' 3 4
  • U2 SnRNP B'' 3 4
  • U2B'' 2 3
  • Msl1 2 3
  • Small Nuclear Ribonucleoprotein Polypeptide B 3
  • SNRPB2 5

External Ids for SNRPB2 Gene

Previous GeneCards Identifiers for SNRPB2 Gene

  • GC20P016698
  • GC20P016705
  • GC20P016658

Summaries for SNRPB2 Gene

Entrez Gene Summary for SNRPB2 Gene

  • 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]

GeneCards Summary for SNRPB2 Gene

SNRPB2 (Small Nuclear Ribonucleoprotein Polypeptide B2) is a Protein Coding gene. Diseases associated with SNRPB2 include Systemic Lupus Erythematosus. Among its related pathways are mRNA Splicing - Major Pathway and Gene Expression. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and snRNA binding. An important paralog of this gene is SNRPA.

UniProtKB/Swiss-Prot Summary for SNRPB2 Gene

  • Involved in pre-mRNA splicing as component of the spliceosome (PubMed:11991638, PubMed:28502770, PubMed:28781166, PubMed:28076346). Associated with sn-RNP U2, where it contributes to the binding of stem loop IV of U2 snRNA (PubMed:9716128).

Gene Wiki entry for SNRPB2 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SNRPB2 Gene

Genomics for SNRPB2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SNRPB2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH20J016729 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 250.7 +0.6 640 2.8 CHD2 TBP SP1 MXD4 CEBPA ZNF217 SIX5 NR2C1 MNT BRCA1 ENSG00000228809 SNRPB2 NONHSAG031327.2 ENSG00000230495 DSTN RRBP1 OTOR
GH20J016526 Enhancer 0.9 ENCODE 9.7 -200.7 -200685 4.7 CEBPA FOXA1 ZNF217 HOMEZ CEBPB MBD2 ZNF511 FOXA2 MAFF SMAD4 piR-32214-389 KIF16B SNRPB2 ENSG00000228809 piR-56883-099
GH20J016578 Enhancer 0.8 Ensembl ENCODE 10.1 -149.7 -149707 2.7 FOXA2 RXRA JUND PRDM6 INSM2 FOXA1 PKNOX1 RCOR1 SP7 HNF4A ENSG00000275728 KIF16B SNRPB2 ENSG00000228809 ENSG00000273998 lnc-KIF16B-6
GH20J016541 Enhancer 0.7 Ensembl ENCODE 10.4 -188.3 -188260 1 RXRA JUND HNF4A REST SP1 GABPA NR2F2 YY1 KIF16B ENSG00000228809 SNRPB2 piR-39858-368 piR-32214-389
GH20J016532 Enhancer 0.7 Ensembl ENCODE 10.4 -193.8 -193809 7.9 SPI1 SCRT1 ATF4 HLF EGR2 CREB1 ZFHX2 KIF16B ENSG00000228809 SNRPB2 piR-32214-389 piR-39858-368
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SNRPB2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SNRPB2

Top Transcription factor binding sites by QIAGEN in the SNRPB2 gene promoter:
  • aMEF-2
  • AP-1
  • FOXL1
  • FOXO3
  • MEF-2A
  • MRF-2
  • p53
  • Pax-6
  • PPAR-gamma1
  • PPAR-gamma2

Genomic Locations for SNRPB2 Gene

Latest Assembly
chr20:16,729,961-16,742,564
(GRCh38/hg38)
Size:
12,604 bases
Orientation:
Plus strand

Previous Assembly
chr20:16,710,671-16,723,209
(GRCh37/hg19 by Entrez Gene)
Size:
12,539 bases
Orientation:
Plus strand

chr20:16,710,606-16,722,421
(GRCh37/hg19 by Ensembl)
Size:
11,816 bases
Orientation:
Plus strand

Genomic View for SNRPB2 Gene

Genes around SNRPB2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNRPB2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNRPB2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNRPB2 Gene

Proteins for SNRPB2 Gene

  • Protein details for SNRPB2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P08579-RU2B_HUMAN
    Recommended name:
    U2 small nuclear ribonucleoprotein B''
    Protein Accession:
    P08579
    Secondary Accessions:
    • B2R7J3
    • D3DW21
    • Q9UJD4

    Protein attributes for SNRPB2 Gene

    Size:
    225 amino acids
    Molecular mass:
    25486 Da
    Quaternary structure:
    • Identified in the spliceosome B complex (PubMed:28781166). Identified in the spliceosome C complex (PubMed:11991638, PubMed:28502770, PubMed:28076346). Present in a spliceosome complex assembled in vitro, and composed of SNRPB2, HPRP8BP and CRNKL1 (PubMed:12084575). Contributes to the binding of stem loop IV of U2 snRNA with SNRPP1 (PubMed:9716128).
    Miscellaneous:
    • Patients with systemic lupus erythematosus produce antibodies which interact with snRNP proteins.

    Three dimensional structures from OCA and Proteopedia for SNRPB2 Gene

neXtProt entry for SNRPB2 Gene

Post-translational modifications for SNRPB2 Gene

  • Ubiquitination at Lys57, Lys77, Lys85, Lys93, and Lys219
  • Modification sites at PhosphoSitePlus

Other Protein References for SNRPB2 Gene

No data available for DME Specific Peptides for SNRPB2 Gene

Domains & Families for SNRPB2 Gene

Gene Families for SNRPB2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for SNRPB2 Gene

InterPro:
Blocks:
  • RNA-binding region RNP-1 (RNA recognition motif)
ProtoNet:

Suggested Antigen Peptide Sequences for SNRPB2 Gene

GenScript: Design optimal peptide antigens:
  • Small nuclear ribonucleoprotein polypeptide B'' (B5BTZ8_HUMAN)
  • U2 small nuclear ribonucleoprotein B'' (RU2B_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P08579

UniProtKB/Swiss-Prot:

RU2B_HUMAN :
  • Belongs to the RRM U1 A/B'' family.
Family:
  • Belongs to the RRM U1 A/B'' family.
genes like me logo Genes that share domains with SNRPB2: view

Function for SNRPB2 Gene

Molecular function for SNRPB2 Gene

UniProtKB/Swiss-Prot Function:
Involved in pre-mRNA splicing as component of the spliceosome (PubMed:11991638, PubMed:28502770, PubMed:28781166, PubMed:28076346). Associated with sn-RNP U2, where it contributes to the binding of stem loop IV of U2 snRNA (PubMed:9716128).

Phenotypes From GWAS Catalog for SNRPB2 Gene

Gene Ontology (GO) - Molecular Function for SNRPB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 9716128
GO:0030619 U1 snRNA binding IBA 21873635
GO:0070990 snRNP binding IEA --
genes like me logo Genes that share ontologies with SNRPB2: view
genes like me logo Genes that share phenotypes with SNRPB2: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SNRPB2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNRPB2 Gene

Localization for SNRPB2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNRPB2 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SNRPB2 gene
Compartment Confidence
nucleus 5
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (3)
  • Cytoplasmic bodies (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SNRPB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001650 fibrillar center IDA --
GO:0005634 nucleus IEA,IDA 28076346
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex IDA 9731529
GO:0005685 U1 snRNP IBA 21873635
genes like me logo Genes that share ontologies with SNRPB2: view

Pathways & Interactions for SNRPB2 Gene

genes like me logo Genes that share pathways with SNRPB2: view

Pathways by source for SNRPB2 Gene

1 KEGG pathway for SNRPB2 Gene

Gene Ontology (GO) - Biological Process for SNRPB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with SNRPB2: view

No data available for SIGNOR curated interactions for SNRPB2 Gene

Drugs & Compounds for SNRPB2 Gene

No Compound Related Data Available

Transcripts for SNRPB2 Gene

mRNA/cDNA for SNRPB2 Gene

2 REFSEQ mRNAs :
13 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SNRPB2

Alternative Splicing Database (ASD) splice patterns (SP) for SNRPB2 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7
SP1:
SP2: - - -
SP3: - -
SP4: -
SP5:

Relevant External Links for SNRPB2 Gene

GeneLoc Exon Structure for
SNRPB2

Expression for SNRPB2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SNRPB2 Gene

Protein differential expression in normal tissues from HIPED for SNRPB2 Gene

This gene is overexpressed in CD8 Tcells (7.7) and Peripheral blood mononuclear cells (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SNRPB2 Gene



Protein tissue co-expression partners for SNRPB2 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SNRPB2

SOURCE GeneReport for Unigene cluster for SNRPB2 Gene:

Hs.280378

Evidence on tissue expression from TISSUES for SNRPB2 Gene

  • Nervous system(4.8)
  • Blood(4.3)
  • Lung(2.2)
  • Kidney(2)
genes like me logo Genes that share expression patterns with SNRPB2: view

Primer products for research

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNRPB2 Gene

Orthologs for SNRPB2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SNRPB2 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SNRPB2 30 31
  • 99.11 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia SNRPB2 31
  • 94 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia SNRPB2 30 31
  • 93.63 (n)
OneToMany
-- 31
  • 89 (a)
OneToMany
Cow
(Bos Taurus)
Mammalia SNRPB2 30 31
  • 93.58 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Snrpb2 30
  • 90.67 (n)
Mouse
(Mus musculus)
Mammalia Snrpb2 30 17 31
  • 89.63 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia SNRPB2 31
  • 72 (a)
OneToOne
Chicken
(Gallus gallus)
Aves SNRPB2 30 31
  • 79.41 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SNRPB2 31
  • 87 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia snrpb2 30
  • 74.14 (n)
Zebrafish
(Danio rerio)
Actinopterygii snrpb2 30 31
  • 71.67 (n)
OneToOne
Dr.14007 30
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8470 30
Fruit Fly
(Drosophila melanogaster)
Insecta snf 31 32
  • 68 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea rnp-3 30 31
  • 54.72 (n)
ManyToMany
rnp-2 31
  • 48 (a)
ManyToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes MSL1 31
  • 23 (a)
OneToMany
Thale Cress
(Arabidopsis thaliana)
eudicotyledons AT1G06960 30
  • 59.39 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1622 30
Rice
(Oryza sativa)
Liliopsida Os03g0298800 30
  • 60.61 (n)
Wheat
(Triticum aestivum)
Liliopsida Ta.9408 30
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.10455 31
  • 52 (a)
OneToMany
Species where no ortholog for SNRPB2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for SNRPB2 Gene

ENSEMBL:
Gene Tree for SNRPB2 (if available)
TreeFam:
Gene Tree for SNRPB2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SNRPB2: view image

Paralogs for SNRPB2 Gene

Paralogs for SNRPB2 Gene

(1) SIMAP similar genes for SNRPB2 Gene using alignment to 2 proteins:

  • RU2B_HUMAN
  • B5BTZ8_HUMAN
genes like me logo Genes that share paralogs with SNRPB2: view

Variants for SNRPB2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SNRPB2 Gene

SNP ID Clinical significance and condition Chr 20 pos Variation AA Info Type
VAR_035487 A colorectal cancer sample p.Lys19Gln

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SNRPB2 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Variation tolerance for SNRPB2 Gene

Residual Variation Intolerance Score: 35.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.09; 1.97% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SNRPB2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNRPB2

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SNRPB2 Gene

Disorders for SNRPB2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SNRPB2 Gene - From: GCD

Disorder Aliases PubMed IDs
systemic lupus erythematosus
  • sle
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SNRPB2

genes like me logo Genes that share disorders with SNRPB2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNRPB2 Gene

Publications for SNRPB2 Gene

  1. Analysis of a cDNA clone expressing a human autoimmune antigen: full-length sequence of the U2 small nuclear RNA-associated B" antigen. (PMID: 2951739) Habets WJ … van Venrooij WJ (Proceedings of the National Academy of Sciences of the United States of America 1987) 2 3 4
  2. Cryo-EM structure of a human spliceosome activated for step 2 of splicing. (PMID: 28076346) Bertram K … Lührmann R (Nature 2017) 3 4
  3. Cryo-EM Structure of a Pre-catalytic Human Spliceosome Primed for Activation. (PMID: 28781166) Bertram K … Stark H (Cell 2017) 3 4
  4. Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. (PMID: 15592455) Rush J … Comb MJ (Nature biotechnology 2005) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4

Products for SNRPB2 Gene

Sources for SNRPB2 Gene