Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

TARBP1 (TAR (HIV-1) RNA binding protein 1)

Identity

Alias_namesTar (HIV-1) RNA binding protein 1
Alias_symbol (synonym)TRP-185
TRM3
Other aliasTRP185
HGNC (Hugo) TARBP1
LocusID (NCBI) 6894
Atlas_Id 53144
Location 1q42.2  [Link to chromosome band 1q42]
Location_base_pair Starts at 234391313 and ends at 234479103 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
FXR2 (17p13.1) / TARBP1 (1q42.2)TARBP1 (1q42.2) / BTBD7 (14q32.12)TARBP1 (1q42.2) / DAB2IP (9q33.2)
TARBP1 (1q42.2) / RBM34 (1q42.3)FXR2 17p13.1 / TARBP1 1q42.2TARBP1 1q42.2 / BTBD7 14q32.12
TARBP1 1q42.2 / RBM34 1q42.3

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)TARBP1   11568
Cards
Entrez_Gene (NCBI)TARBP1  6894  TAR (HIV-1) RNA binding protein 1
AliasesTRM3; TRP-185; TRP185
GeneCards (Weizmann)TARBP1
Ensembl hg19 (Hinxton)ENSG00000059588 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000059588 [Gene_View]  chr1:234391313-234479103 [Contig_View]  TARBP1 [Vega]
ICGC DataPortalENSG00000059588
TCGA cBioPortalTARBP1
AceView (NCBI)TARBP1
Genatlas (Paris)TARBP1
WikiGenes6894
SOURCE (Princeton)TARBP1
Genetics Home Reference (NIH)TARBP1
Genomic and cartography
GoldenPath hg38 (UCSC)TARBP1  -     chr1:234391313-234479103 -  1q42.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TARBP1  -     1q42.2   [Description]    (hg19-Feb_2009)
EnsemblTARBP1 - 1q42.2 [CytoView hg19]  TARBP1 - 1q42.2 [CytoView hg38]
Mapping of homologs : NCBITARBP1 [Mapview hg19]  TARBP1 [Mapview hg38]
OMIM605052   
Gene and transcription
Genbank (Entrez)AA714641 AK055044 BC016023 BC156249 U38847
RefSeq transcript (Entrez)NM_005646
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TARBP1
Cluster EST : UnigeneHs.498115 [ NCBI ]
CGAP (NCI)Hs.498115
Alternative Splicing GalleryENSG00000059588
Gene ExpressionTARBP1 [ NCBI-GEO ]   TARBP1 [ EBI - ARRAY_EXPRESS ]   TARBP1 [ SEEK ]   TARBP1 [ MEM ]
Gene Expression Viewer (FireBrowse)TARBP1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6894
GTEX Portal (Tissue expression)TARBP1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ13395   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ13395  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ13395
Splice isoforms : SwissVarQ13395
Catalytic activity : Enzyme2.1.1.- [ Enzyme-Expasy ]   2.1.1.-2.1.1.- [ IntEnz-EBI ]   2.1.1.- [ BRENDA ]   2.1.1.- [ KEGG ]   
PhosPhoSitePlusQ13395
Domains : Interpro (EBI)Alpha/beta_knot_MTases    ARM-type_fold    Prob_MeTrfase_TARBP1    SpoU_MeTrfase    tRNA_m1G_MTases_N   
Domain families : Pfam (Sanger)SpoU_methylase (PF00588)   
Domain families : Pfam (NCBI)pfam00588   
Conserved Domain (NCBI)TARBP1
DMDM Disease mutations6894
Blocks (Seattle)TARBP1
PDB (SRS)2HA8   
PDB (PDBSum)2HA8   
PDB (IMB)2HA8   
PDB (RSDB)2HA8   
Structural Biology KnowledgeBase2HA8   
SCOP (Structural Classification of Proteins)2HA8   
CATH (Classification of proteins structures)2HA8   
SuperfamilyQ13395
Human Protein AtlasENSG00000059588
Peptide AtlasQ13395
HPRD05445
IPIIPI00298447   
Protein Interaction databases
DIP (DOE-UCLA)Q13395
IntAct (EBI)Q13395
FunCoupENSG00000059588
BioGRIDTARBP1
STRING (EMBL)TARBP1
ZODIACTARBP1
Ontologies - Pathways
QuickGOQ13395
Ontology : AmiGOenzyme-directed rRNA 2'-O-methylation  RNA binding  nucleus  regulation of transcription from RNA polymerase II promoter  tRNA (guanine) methyltransferase activity  tRNA methylation  rRNA (guanosine-2'-O-)-methyltransferase activity  
Ontology : EGO-EBIenzyme-directed rRNA 2'-O-methylation  RNA binding  nucleus  regulation of transcription from RNA polymerase II promoter  tRNA (guanine) methyltransferase activity  tRNA methylation  rRNA (guanosine-2'-O-)-methyltransferase activity  
NDEx NetworkTARBP1
Atlas of Cancer Signalling NetworkTARBP1
Wikipedia pathwaysTARBP1
Orthology - Evolution
OrthoDB6894
GeneTree (enSembl)ENSG00000059588
Phylogenetic Trees/Animal Genes : TreeFamTARBP1
HOVERGENQ13395
HOGENOMQ13395
Homologs : HomoloGeneTARBP1
Homology/Alignments : Family Browser (UCSC)TARBP1
Gene fusions - Rearrangements
Fusion : MitelmanFXR2/TARBP1 [17p13.1/1q42.2]  [t(1;17)(q42;p13)]  
Fusion : MitelmanTARBP1/BTBD7 [1q42.2/14q32.12]  [t(1;14)(q42;q32)]  
Fusion : MitelmanTARBP1/RBM34 [1q42.2/1q42.3]  [t(1;1)(q42;q42)]  
Fusion: TCGAFXR2 17p13.1 TARBP1 1q42.2 PRAD
Fusion: TCGATARBP1 1q42.2 BTBD7 14q32.12 LUAD
Fusion: TCGATARBP1 1q42.2 RBM34 1q42.3 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTARBP1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TARBP1
dbVarTARBP1
ClinVarTARBP1
1000_GenomesTARBP1 
Exome Variant ServerTARBP1
ExAC (Exome Aggregation Consortium)TARBP1 (select the gene name)
Genetic variants : HAPMAP6894
Genomic Variants (DGV)TARBP1 [DGVbeta]
DECIPHERTARBP1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTARBP1 
Mutations
ICGC Data PortalTARBP1 
TCGA Data PortalTARBP1 
Broad Tumor PortalTARBP1
OASIS PortalTARBP1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTARBP1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTARBP1
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 TARBP1
DgiDB (Drug Gene Interaction Database)TARBP1
DoCM (Curated mutations)TARBP1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TARBP1 (select a term)
intoGenTARBP1
Cancer3DTARBP1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605052   
Orphanet
MedgenTARBP1
Genetic Testing Registry TARBP1
NextProtQ13395 [Medical]
TSGene6894
GENETestsTARBP1
Target ValidationTARBP1
Huge Navigator TARBP1 [HugePedia]
snp3D : Map Gene to Disease6894
BioCentury BCIQTARBP1
ClinGenTARBP1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6894
Chemical/Pharm GKB GenePA36333
Clinical trialTARBP1
Miscellaneous
canSAR (ICR)TARBP1 (select the gene name)
Probes
Litterature
PubMed26 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTARBP1
EVEXTARBP1
GoPubMedTARBP1
iHOPTARBP1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 25 19:34:11 CEST 2017

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.