Atlas of Genetics and Cytogenetics in Oncology and Haematology


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XRN2 (5'-3' exoribonuclease 2)

Identity

Other alias-
HGNC (Hugo) XRN2
LocusID (NCBI) 22803
Atlas_Id 42850
Location 20p11.23  [Link to chromosome band 20p11]
Location_base_pair Starts at 21284136 and ends at 21370463 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
FAM172A (5q15) / XRN2 (20p11.23)GPRC5A (12p13.1) / XRN2 (20p11.23)TARDBP (1p36.22) / XRN2 (20p11.23)
WASF3 (13q12.13) / XRN2 (20p11.23)XRN2 (20p11.23) / EEF1D (8q24.3)XRN2 (20p11.23) / TCERG1 (5q32)

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)XRN2   12836
Cards
Entrez_Gene (NCBI)XRN2  22803  5'-3' exoribonuclease 2
Aliases
GeneCards (Weizmann)XRN2
Ensembl hg19 (Hinxton)ENSG00000088930 [Gene_View]  chr20:21284136-21370463 [Contig_View]  XRN2 [Vega]
Ensembl hg38 (Hinxton)ENSG00000088930 [Gene_View]  chr20:21284136-21370463 [Contig_View]  XRN2 [Vega]
ICGC DataPortalENSG00000088930
TCGA cBioPortalXRN2
AceView (NCBI)XRN2
Genatlas (Paris)XRN2
WikiGenes22803
SOURCE (Princeton)XRN2
Genetics Home Reference (NIH)XRN2
Genomic and cartography
GoldenPath hg19 (UCSC)XRN2  -     chr20:21284136-21370463 +  20p11.23   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)XRN2  -     20p11.23   [Description]    (hg38-Dec_2013)
EnsemblXRN2 - 20p11.23 [CytoView hg19]  XRN2 - 20p11.23 [CytoView hg38]
Mapping of homologs : NCBIXRN2 [Mapview hg19]  XRN2 [Mapview hg38]
OMIM608851   
Gene and transcription
Genbank (Entrez)AF064257 AF152169 AK000084 AK001573 AK172858
RefSeq transcript (Entrez)NM_001317960 NM_012255
RefSeq genomic (Entrez)NC_000020 NC_018931 NT_011387 NW_004929416
Consensus coding sequences : CCDS (NCBI)XRN2
Cluster EST : UnigeneHs.255932 [ NCBI ]
CGAP (NCI)Hs.255932
Alternative Splicing GalleryENSG00000088930
Gene ExpressionXRN2 [ NCBI-GEO ]   XRN2 [ EBI - ARRAY_EXPRESS ]   XRN2 [ SEEK ]   XRN2 [ MEM ]
Gene Expression Viewer (FireBrowse)XRN2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)22803
GTEX Portal (Tissue expression)XRN2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H0D6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H0D6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H0D6
Splice isoforms : SwissVarQ9H0D6
Catalytic activity : Enzyme3.1.13.- [ Enzyme-Expasy ]   3.1.13.-3.1.13.- [ IntEnz-EBI ]   3.1.13.- [ BRENDA ]   3.1.13.- [ KEGG ]   
PhosPhoSitePlusQ9H0D6
Domains : Interpro (EBI)5_3_exoribonuclease    5_3_exoribonuclease_2/3    Put_53exo    Znf_CCHC   
Domain families : Pfam (Sanger)XRN_N (PF03159)   
Domain families : Pfam (NCBI)pfam03159   
Domain families : Smart (EMBL)ZnF_C2HC (SM00343)  
Conserved Domain (NCBI)XRN2
DMDM Disease mutations22803
Blocks (Seattle)XRN2
SuperfamilyQ9H0D6
Human Protein AtlasENSG00000088930
Peptide AtlasQ9H0D6
HPRD10309
IPIIPI00100151   IPI00788157   IPI01012839   
Protein Interaction databases
DIP (DOE-UCLA)Q9H0D6
IntAct (EBI)Q9H0D6
FunCoupENSG00000088930
BioGRIDXRN2
STRING (EMBL)XRN2
ZODIACXRN2
Ontologies - Pathways
QuickGOQ9H0D6
Ontology : AmiGO3'-5'-exoribonuclease activity  DNA catabolic process, exonucleolytic  transcription termination site sequence-specific DNA binding  nuclease activity  5'-3' exoribonuclease activity  protein binding  nucleus  nucleoplasm  nucleolus  DNA-templated transcription, termination  regulation of transcription, DNA-templated  rRNA processing  RNA processing  mRNA processing  RNA catabolic process  spermatogenesis  5'-3' exonuclease activity  membrane  cell growth  RNA metabolic process  aggresome  poly(A) RNA binding  metal ion binding  RNA phosphodiester bond hydrolysis, exonucleolytic  RNA phosphodiester bond hydrolysis, exonucleolytic  RNA phosphodiester bond hydrolysis, exonucleolytic  
Ontology : EGO-EBI3'-5'-exoribonuclease activity  DNA catabolic process, exonucleolytic  transcription termination site sequence-specific DNA binding  nuclease activity  5'-3' exoribonuclease activity  protein binding  nucleus  nucleoplasm  nucleolus  DNA-templated transcription, termination  regulation of transcription, DNA-templated  rRNA processing  RNA processing  mRNA processing  RNA catabolic process  spermatogenesis  5'-3' exonuclease activity  membrane  cell growth  RNA metabolic process  aggresome  poly(A) RNA binding  metal ion binding  RNA phosphodiester bond hydrolysis, exonucleolytic  RNA phosphodiester bond hydrolysis, exonucleolytic  RNA phosphodiester bond hydrolysis, exonucleolytic  
Pathways : KEGGRibosome biogenesis in eukaryotes    RNA degradation   
NDEx NetworkXRN2
Atlas of Cancer Signalling NetworkXRN2
Wikipedia pathwaysXRN2
Orthology - Evolution
OrthoDB22803
GeneTree (enSembl)ENSG00000088930
Phylogenetic Trees/Animal Genes : TreeFamXRN2
HOVERGENQ9H0D6
HOGENOMQ9H0D6
Homologs : HomoloGeneXRN2
Homology/Alignments : Family Browser (UCSC)XRN2
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerXRN2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)XRN2
dbVarXRN2
ClinVarXRN2
1000_GenomesXRN2 
Exome Variant ServerXRN2
ExAC (Exome Aggregation Consortium)XRN2 (select the gene name)
Genetic variants : HAPMAP22803
Genomic Variants (DGV)XRN2 [DGVbeta]
DECIPHER (Syndromes)20:21284136-21370463  ENSG00000088930
CONAN: Copy Number AnalysisXRN2 
Mutations
ICGC Data PortalXRN2 
TCGA Data PortalXRN2 
Broad Tumor PortalXRN2
OASIS PortalXRN2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICXRN2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDXRN2
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 XRN2
DgiDB (Drug Gene Interaction Database)XRN2
DoCM (Curated mutations)XRN2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)XRN2 (select a term)
intoGenXRN2
Cancer3DXRN2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608851   
Orphanet
MedgenXRN2
Genetic Testing Registry XRN2
NextProtQ9H0D6 [Medical]
TSGene22803
GENETestsXRN2
Huge Navigator XRN2 [HugePedia]
snp3D : Map Gene to Disease22803
BioCentury BCIQXRN2
ClinGenXRN2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD22803
Chemical/Pharm GKB GenePA37427
Clinical trialXRN2
Miscellaneous
canSAR (ICR)XRN2 (select the gene name)
Probes
Litterature
PubMed59 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineXRN2
EVEXXRN2
GoPubMedXRN2
iHOPXRN2
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 30 15:25:16 CEST 2017

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