Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SNRPB (small nuclear ribonucleoprotein polypeptides B and B1)

Identity

Alias_namesSNRPB1
Alias_symbol (synonym)COD
SmB/SmB'
Sm-B/B'
snRNP-B
Other aliasCCMS
SmB/B'
HGNC (Hugo) SNRPB
LocusID (NCBI) 6628
Atlas_Id 74034
Location 20p13  [Link to chromosome band 20p13]
Location_base_pair Starts at 2461635 and ends at 2470853 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
BOK (2q37.3) / SNRPB (20p13)RAB4A (1q42.13) / SNRPB (20p13)TCFL5 (20q13.33) / SNRPB (20p13)
TMCC1 (3q22.1) / SNRPB (20p13)ZNF343 (20p13) / SNRPB (20p13)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)SNRPB   11153
Cards
Entrez_Gene (NCBI)SNRPB  6628  small nuclear ribonucleoprotein polypeptides B and B1
AliasesCCMS; COD; SNRPB1; Sm-B/B'; 
SmB/B'; SmB/SmB'; snRNP-B
GeneCards (Weizmann)SNRPB
Ensembl hg19 (Hinxton)ENSG00000125835 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000125835 [Gene_View]  chr20:2461635-2470853 [Contig_View]  SNRPB [Vega]
ICGC DataPortalENSG00000125835
TCGA cBioPortalSNRPB
AceView (NCBI)SNRPB
Genatlas (Paris)SNRPB
WikiGenes6628
SOURCE (Princeton)SNRPB
Genetics Home Reference (NIH)SNRPB
Genomic and cartography
GoldenPath hg38 (UCSC)SNRPB  -     chr20:2461635-2470853 -  20p13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SNRPB  -     20p13   [Description]    (hg19-Feb_2009)
EnsemblSNRPB - 20p13 [CytoView hg19]  SNRPB - 20p13 [CytoView hg38]
Mapping of homologs : NCBISNRPB [Mapview hg19]  SNRPB [Mapview hg38]
OMIM117650   182282   
Gene and transcription
Genbank (Entrez)AK301034 AK301206 AK307093 AK307266 AK312620
RefSeq transcript (Entrez)NM_003091 NM_198216
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SNRPB
Cluster EST : UnigeneHs.83753 [ NCBI ]
CGAP (NCI)Hs.83753
Alternative Splicing GalleryENSG00000125835
Gene ExpressionSNRPB [ NCBI-GEO ]   SNRPB [ EBI - ARRAY_EXPRESS ]   SNRPB [ SEEK ]   SNRPB [ MEM ]
Gene Expression Viewer (FireBrowse)SNRPB [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6628
GTEX Portal (Tissue expression)SNRPB
Protein : pattern, domain, 3D structure
UniProt/SwissProtP14678   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP14678  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP14678
Splice isoforms : SwissVarP14678
PhosPhoSitePlusP14678
Domains : Interpro (EBI)LSM_dom    LSM_dom_euk/arc    snRNP-assoc_SmB/SmN   
Domain families : Pfam (Sanger)LSM (PF01423)   
Domain families : Pfam (NCBI)pfam01423   
Domain families : Smart (EMBL)Sm (SM00651)  
Conserved Domain (NCBI)SNRPB
DMDM Disease mutations6628
Blocks (Seattle)SNRPB
PDB (SRS)1D3B    3CW1    3JCR    3PGW    4PJO    4WZJ   
PDB (PDBSum)1D3B    3CW1    3JCR    3PGW    4PJO    4WZJ   
PDB (IMB)1D3B    3CW1    3JCR    3PGW    4PJO    4WZJ   
PDB (RSDB)1D3B    3CW1    3JCR    3PGW    4PJO    4WZJ   
Structural Biology KnowledgeBase1D3B    3CW1    3JCR    3PGW    4PJO    4WZJ   
SCOP (Structural Classification of Proteins)1D3B    3CW1    3JCR    3PGW    4PJO    4WZJ   
CATH (Classification of proteins structures)1D3B    3CW1    3JCR    3PGW    4PJO    4WZJ   
SuperfamilyP14678
Human Protein AtlasENSG00000125835
Peptide AtlasP14678
HPRD01655
IPIIPI00027285   IPI00395674   IPI00329512   IPI00877103   IPI01018641   IPI00384173   
Protein Interaction databases
DIP (DOE-UCLA)P14678
IntAct (EBI)P14678
FunCoupENSG00000125835
BioGRIDSNRPB
STRING (EMBL)SNRPB
ZODIACSNRPB
Ontologies - Pathways
QuickGOP14678
Ontology : AmiGOspliceosomal snRNP assembly  spliceosomal snRNP assembly  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  RNA binding  protein binding  nucleoplasm  nucleoplasm  spliceosomal complex  U5 snRNP  U7 snRNP  U1 snRNP  U2 snRNP  U4 snRNP  U12-type spliceosomal complex  telomerase holoenzyme complex  cytosol  cytosol  termination of RNA polymerase II transcription  protein methylation  histone mRNA metabolic process  RNA splicing  small nuclear ribonucleoprotein complex  U2 snRNA binding  methylosome  SMN-Sm protein complex  U4/U6 x U5 tri-snRNP complex  nuclear import  telomerase RNA binding  extracellular exosome  U2-type prespliceosome  catalytic step 2 spliceosome  histone pre-mRNA 3'end processing complex  histone pre-mRNA DCP binding  
Ontology : EGO-EBIspliceosomal snRNP assembly  spliceosomal snRNP assembly  mRNA splicing, via spliceosome  mRNA splicing, via spliceosome  RNA binding  protein binding  nucleoplasm  nucleoplasm  spliceosomal complex  U5 snRNP  U7 snRNP  U1 snRNP  U2 snRNP  U4 snRNP  U12-type spliceosomal complex  telomerase holoenzyme complex  cytosol  cytosol  termination of RNA polymerase II transcription  protein methylation  histone mRNA metabolic process  RNA splicing  small nuclear ribonucleoprotein complex  U2 snRNA binding  methylosome  SMN-Sm protein complex  U4/U6 x U5 tri-snRNP complex  nuclear import  telomerase RNA binding  extracellular exosome  U2-type prespliceosome  catalytic step 2 spliceosome  histone pre-mRNA 3'end processing complex  histone pre-mRNA DCP binding  
Pathways : BIOCARTASpliceosomal Assembly [Genes]   
Pathways : KEGGSpliceosome    Systemic lupus erythematosus   
NDEx NetworkSNRPB
Atlas of Cancer Signalling NetworkSNRPB
Wikipedia pathwaysSNRPB
Orthology - Evolution
OrthoDB6628
GeneTree (enSembl)ENSG00000125835
Phylogenetic Trees/Animal Genes : TreeFamSNRPB
HOVERGENP14678
HOGENOMP14678
Homologs : HomoloGeneSNRPB
Homology/Alignments : Family Browser (UCSC)SNRPB
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSNRPB [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SNRPB
dbVarSNRPB
ClinVarSNRPB
1000_GenomesSNRPB 
Exome Variant ServerSNRPB
ExAC (Exome Aggregation Consortium)SNRPB (select the gene name)
Genetic variants : HAPMAP6628
Genomic Variants (DGV)SNRPB [DGVbeta]
DECIPHERSNRPB [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSNRPB 
Mutations
ICGC Data PortalSNRPB 
TCGA Data PortalSNRPB 
Broad Tumor PortalSNRPB
OASIS PortalSNRPB [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSNRPB  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSNRPB
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SNRPB
DgiDB (Drug Gene Interaction Database)SNRPB
DoCM (Curated mutations)SNRPB (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SNRPB (select a term)
intoGenSNRPB
Cancer3DSNRPB(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM117650    182282   
Orphanet1599   
MedgenSNRPB
Genetic Testing Registry SNRPB
NextProtP14678 [Medical]
TSGene6628
GENETestsSNRPB
Target ValidationSNRPB
Huge Navigator SNRPB [HugePedia]
snp3D : Map Gene to Disease6628
BioCentury BCIQSNRPB
ClinGenSNRPB
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6628
Chemical/Pharm GKB GenePA35995
Clinical trialSNRPB
Miscellaneous
canSAR (ICR)SNRPB (select the gene name)
Probes
Litterature
PubMed114 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSNRPB
EVEXSNRPB
GoPubMedSNRPB
iHOPSNRPB
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed May 31 15:43:30 CEST 2017

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