Atlas of Genetics and Cytogenetics in Oncology and Haematology

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SSB (small RNA binding exonuclease protection factor La)

Identity

Alias (NCBI)LARP3
La
La/SSB
HGNC (Hugo) SSB
HGNC Alias symbLARP3
La
La/SSB
HGNC Alias nameLa ribonucleoprotein domain family, member 3
 Lupus La protein
 La autoantigen
HGNC Previous nameSjogren syndrome antigen B (autoantigen La)
 Sjogren syndrome antigen B
LocusID (NCBI) 6741
Atlas_Id 43885
Location 2q31.1  [Link to chromosome band 2q31]
Location_base_pair Starts at 169798871 and ends at 169812061 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
SSB (2q31.1) / SSB (2q31.1)TLK1 (2q31.1) / SSB (2q31.1)TLK1 2q31.1 / SSB 2q31.1

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)SSB   11316
Cards
Entrez_Gene (NCBI)SSB    small RNA binding exonuclease protection factor La
AliasesLARP3; La; La/SSB
GeneCards (Weizmann)SSB
Ensembl hg19 (Hinxton)ENSG00000138385 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000138385 [Gene_View]  ENSG00000138385 [Sequence]  chr2:169798871-169812061 [Contig_View]  SSB [Vega]
ICGC DataPortalENSG00000138385
TCGA cBioPortalSSB
AceView (NCBI)SSB
Genatlas (Paris)SSB
SOURCE (Princeton)SSB
Genetics Home Reference (NIH)SSB
Genomic and cartography
GoldenPath hg38 (UCSC)SSB  -     chr2:169798871-169812061 +  2q31.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SSB  -     2q31.1   [Description]    (hg19-Feb_2009)
GoldenPathSSB - 2q31.1 [CytoView hg19]  SSB - 2q31.1 [CytoView hg38]
ImmunoBaseENSG00000138385
genome Data Viewer NCBISSB [Mapview hg19]  
OMIM109090   
Gene and transcription
Genbank (Entrez)AB451228 AB451351 AH001540 AH001540 AH001540
RefSeq transcript (Entrez)NM_001294145 NM_003142
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SSB
Alternative Splicing GalleryENSG00000138385
Gene ExpressionSSB [ NCBI-GEO ]   SSB [ EBI - ARRAY_EXPRESS ]   SSB [ SEEK ]   SSB [ MEM ]
Gene Expression Viewer (FireBrowse)SSB [ Firebrowse - Broad ]
GenevisibleExpression of SSB in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6741
GTEX Portal (Tissue expression)SSB
Human Protein AtlasENSG00000138385-SSB [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP05455   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP05455  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP05455
Splice isoforms : SwissVarP05455
PhosPhoSitePlusP05455
Domaine pattern : Prosite (Expaxy)HTH_LA (PS50961)    RRM (PS50102)    XRRM (PS51939)   
Domains : Interpro (EBI)La_HTH    La_RRM    Lupus_La    Nucleotide-bd_a/b_plait_sf    RBD_domain_sf    RRM_dom    WH-like_DNA-bd_sf    WH_DNA-bd_sf   
Domain families : Pfam (Sanger)La (PF05383)    RRM_1 (PF00076)    RRM_3 (PF08777)   
Domain families : Pfam (NCBI)pfam05383    pfam00076    pfam08777   
Domain families : Smart (EMBL)LA (SM00715)  RRM (SM00360)  
Conserved Domain (NCBI)SSB
Blocks (Seattle)SSB
PDB (RSDB)1OWX    1S79    1S7A    1YTY    1ZH5    2VOD    2VON    2VOO    2VOP   
PDB Europe1OWX    1S79    1S7A    1YTY    1ZH5    2VOD    2VON    2VOO    2VOP   
PDB (PDBSum)1OWX    1S79    1S7A    1YTY    1ZH5    2VOD    2VON    2VOO    2VOP   
PDB (IMB)1OWX    1S79    1S7A    1YTY    1ZH5    2VOD    2VON    2VOO    2VOP   
Structural Biology KnowledgeBase1OWX    1S79    1S7A    1YTY    1ZH5    2VOD    2VON    2VOO    2VOP   
SCOP (Structural Classification of Proteins)1OWX    1S79    1S7A    1YTY    1ZH5    2VOD    2VON    2VOO    2VOP   
CATH (Classification of proteins structures)1OWX    1S79    1S7A    1YTY    1ZH5    2VOD    2VON    2VOO    2VOP   
SuperfamilyP05455
Human Protein Atlas [tissue]ENSG00000138385-SSB [tissue]
Peptide AtlasP05455
HPRD00168
IPIIPI00009032   IPI00916802   IPI00916922   IPI00917386   IPI00917205   
Protein Interaction databases
DIP (DOE-UCLA)P05455
IntAct (EBI)P05455
BioGRIDSSB
STRING (EMBL)SSB
ZODIACSSB
Ontologies - Pathways
QuickGOP05455
Ontology : AmiGOtRNA binding  chromosome, telomeric region  tRNA 5'-leader removal  RNA binding  RNA binding  mRNA binding  protein binding  nucleus  cytoplasm  tRNA modification  tRNA export from nucleus  tRNA processing  poly(U) RNA binding  histone mRNA metabolic process  tRNA 3'-end processing  nuclear histone mRNA catabolic process  IRES-dependent viral translational initiation  protein localization to cytoplasmic stress granule  sequence-specific mRNA binding  ribonucleoprotein complex  
Ontology : EGO-EBItRNA binding  chromosome, telomeric region  tRNA 5'-leader removal  RNA binding  RNA binding  mRNA binding  protein binding  nucleus  cytoplasm  tRNA modification  tRNA export from nucleus  tRNA processing  poly(U) RNA binding  histone mRNA metabolic process  tRNA 3'-end processing  nuclear histone mRNA catabolic process  IRES-dependent viral translational initiation  protein localization to cytoplasmic stress granule  sequence-specific mRNA binding  ribonucleoprotein complex  
Pathways : BIOCARTARNA polymerase III transcription [Genes]   
Pathways : KEGGSystemic lupus erythematosus   
NDEx NetworkSSB
Atlas of Cancer Signalling NetworkSSB
Wikipedia pathwaysSSB
Orthology - Evolution
OrthoDB6741
GeneTree (enSembl)ENSG00000138385
Phylogenetic Trees/Animal Genes : TreeFamSSB
HOGENOMP05455
Homologs : HomoloGeneSSB
Homology/Alignments : Family Browser (UCSC)SSB
Gene fusions - Rearrangements
Fusion : MitelmanTLK1/SSB [2q31.1/2q31.1]  
Fusion PortalTLK1 2q31.1 SSB 2q31.1 BRCA
Fusion : QuiverSSB
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSSB [hg38]
dbVarSSB
ClinVarSSB
MonarchSSB
1000_GenomesSSB 
Exome Variant ServerSSB
GNOMAD BrowserENSG00000138385
Varsome BrowserSSB
Genomic Variants (DGV)SSB [DGVbeta]
DECIPHERSSB [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSSB 
Mutations
ICGC Data PortalSSB 
TCGA Data PortalSSB 
Broad Tumor PortalSSB
OASIS PortalSSB [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSSB  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DSSB
Mutations and Diseases : HGMDSSB
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 SSB
DgiDB (Drug Gene Interaction Database)SSB
DoCM (Curated mutations)SSB (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SSB (select a term)
intoGenSSB
Cancer3DSSB(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM109090   
Orphanet
DisGeNETSSB
MedgenSSB
Genetic Testing Registry SSB
NextProtP05455 [Medical]
GENETestsSSB
Target ValidationSSB
Huge Navigator SSB [HugePedia]
ClinGenSSB
Clinical trials, drugs, therapy
MyCancerGenomeSSB
Protein Interactions : CTD
Pharm GKB GenePA36140
PharosP05455
Clinical trialSSB
Miscellaneous
canSAR (ICR)SSB (select the gene name)
HarmonizomeSSB
DataMed IndexSSB
Probes
Litterature
PubMed223 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXSSB
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 25 19:47:43 CET 2021
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