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PARN (poly(A)-specific ribonuclease)

Identity

Alias (NCBI)DAN
DKCB6
PFBMFT4
HGNC (Hugo) PARN
HGNC Alias symbDAN
HGNC Alias namedeadenylation nuclease
HGNC Previous namepoly(A)-specific ribonuclease (deadenylation nuclease)
LocusID (NCBI) 5073
Atlas_Id 55216
Location 16p13.12  [Link to chromosome band 16p13]
Location_base_pair Starts at 14435701 and ends at 14630260 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)
CFB (6p21.33) / PARN (16p13.12)MAP3K1 (5q11.2) / PARN (16p13.12)PARN (16p13.12) / ABCA3 (16p13.3)
PARN (16p13.12) / GOLPH3 (5p13.3)PARN (16p13.12) / MALAT1 (11q13.1)PARN (16p13.12) / PARN (16p13.12)
PARN (16p13.12) / RRN3 (16p13.11)ZNF587 (19q13.43) / PARN (16p13.12)MAP3K1 5q11.2 / PARN 16p13.12
PARN 16p13.12 / ABCA3 16p13.3PARN 16p13.12 / RRN3 16p13.11

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

 



Other Cancer prone implicated (Data extracted from papers in the Atlas) [ 1 ]
  Dyskeratosis congenita (DKC)


External links

 

Nomenclature
HGNC (Hugo)PARN   8609
Cards
Entrez_Gene (NCBI)PARN    poly(A)-specific ribonuclease
AliasesDAN; DKCB6; PFBMFT4
GeneCards (Weizmann)PARN
Ensembl hg19 (Hinxton)ENSG00000140694 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000140694 [Gene_View]  ENSG00000140694 [Sequence]  chr16:14435701-14630260 [Contig_View]  PARN [Vega]
ICGC DataPortalENSG00000140694
TCGA cBioPortalPARN
AceView (NCBI)PARN
Genatlas (Paris)PARN
SOURCE (Princeton)PARN
Genetics Home Reference (NIH)PARN
Genomic and cartography
GoldenPath hg38 (UCSC)PARN  -     chr16:14435701-14630260 -  16p13.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PARN  -     16p13.12   [Description]    (hg19-Feb_2009)
GoldenPathPARN - 16p13.12 [CytoView hg19]  PARN - 16p13.12 [CytoView hg38]
ImmunoBaseENSG00000140694
Genome Data Viewer NCBIPARN [Mapview hg19]  
OMIM604212   616353   616371   
Gene and transcription
Genbank (Entrez)AJ005698 AK023866 AK293189 AK299653 AK301648
RefSeq transcript (Entrez)NM_001134477 NM_001242992 NM_002582
Consensus coding sequences : CCDS (NCBI)PARN
Gene ExpressionPARN [ NCBI-GEO ]   PARN [ EBI - ARRAY_EXPRESS ]   PARN [ SEEK ]   PARN [ MEM ]
Gene Expression Viewer (FireBrowse)PARN [ Firebrowse - Broad ]
GenevisibleExpression of PARN in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5073
GTEX Portal (Tissue expression)PARN
Human Protein AtlasENSG00000140694-PARN [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95453   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO95453  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95453
Catalytic activity : Enzyme3.1.13.4 [ Enzyme-Expasy ]   3.1.13.43.1.13.4 [ IntEnz-EBI ]   3.1.13.4 [ BRENDA ]   3.1.13.4 [ KEGG ]   [ MEROPS ]
PhosPhoSitePlusO95453
Domaine pattern : Prosite (Expaxy)R3H (PS51061)   
Domains : Interpro (EBI)Nucleotide-bd_a/b_plait_sf    PARN_R3H    PolyA-riboNase_RNA-binding    R3H_dom    R3H_dom_sf    RBD_domain_sf    RNase_CAF1    RNaseH-like_sf    RNaseH_sf   
Domain families : Pfam (Sanger)CAF1 (PF04857)    RNA_bind (PF08675)   
Domain families : Pfam (NCBI)pfam04857    pfam08675   
Conserved Domain (NCBI)PARN
PDB (RSDB)2A1R    2A1S    3CTR   
PDB Europe2A1R    2A1S    3CTR   
PDB (PDBSum)2A1R    2A1S    3CTR   
PDB (IMB)2A1R    2A1S    3CTR   
Structural Biology KnowledgeBase2A1R    2A1S    3CTR   
SCOP (Structural Classification of Proteins)2A1R    2A1S    3CTR   
CATH (Classification of proteins structures)2A1R    2A1S    3CTR   
SuperfamilyO95453
AlphaFold pdb e-kbO95453   
Human Protein Atlas [tissue]ENSG00000140694-PARN [tissue]
HPRD07250
Protein Interaction databases
DIP (DOE-UCLA)O95453
IntAct (EBI)O95453
BioGRIDPARN
STRING (EMBL)PARN
ZODIACPARN
Ontologies - Pathways
QuickGOO95453
Ontology : AmiGO3'-5'-exoribonuclease activity  nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA poly(A) tail shortening  nuclear-transcribed mRNA poly(A) tail shortening  box H/ACA RNA 3'-end processing  RNA binding  RNA binding  mRNA 3'-UTR binding  nuclease activity  poly(A)-specific ribonuclease activity  poly(A)-specific ribonuclease activity  poly(A)-specific ribonuclease activity  protein binding  nucleus  nucleolus  cytoplasm  cytosol  female gamete generation  RNA modification  miRNA catabolic process  nuclear speck  protein kinase binding  positive regulation of telomere maintenance via telomerase  cation binding  regulation of mRNA stability  metal ion binding  positive regulation of telomerase activity  telomerase RNA binding  polyadenylation-dependent snoRNA 3'-end processing  RNA phosphodiester bond hydrolysis, exonucleolytic  telomerase RNA stabilization  ncRNA deadenylation  regulation of telomerase RNA localization to Cajal body  
Ontology : EGO-EBI3'-5'-exoribonuclease activity  nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  nuclear-transcribed mRNA poly(A) tail shortening  nuclear-transcribed mRNA poly(A) tail shortening  box H/ACA RNA 3'-end processing  RNA binding  RNA binding  mRNA 3'-UTR binding  nuclease activity  poly(A)-specific ribonuclease activity  poly(A)-specific ribonuclease activity  poly(A)-specific ribonuclease activity  protein binding  nucleus  nucleolus  cytoplasm  cytosol  female gamete generation  RNA modification  miRNA catabolic process  nuclear speck  protein kinase binding  positive regulation of telomere maintenance via telomerase  cation binding  regulation of mRNA stability  metal ion binding  positive regulation of telomerase activity  telomerase RNA binding  polyadenylation-dependent snoRNA 3'-end processing  RNA phosphodiester bond hydrolysis, exonucleolytic  telomerase RNA stabilization  ncRNA deadenylation  regulation of telomerase RNA localization to Cajal body  
Pathways : KEGGRNA degradation   
NDEx NetworkPARN
Atlas of Cancer Signalling NetworkPARN
Wikipedia pathwaysPARN
Orthology - Evolution
OrthoDB5073
GeneTree (enSembl)ENSG00000140694
Phylogenetic Trees/Animal Genes : TreeFamPARN
Homologs : HomoloGenePARN
Homology/Alignments : Family Browser (UCSC)PARN
Gene fusions - Rearrangements
Fusion : MitelmanMAP3K1/PARN [5q11.2/16p13.12]  
Fusion : MitelmanPARN/ABCA3 [16p13.12/16p13.3]  
Fusion : MitelmanPARN/RRN3 [16p13.12/16p13.11]  
Fusion : QuiverPARN
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPARN [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PARN
dbVarPARN
ClinVarPARN
MonarchPARN
1000_GenomesPARN 
Exome Variant ServerPARN
GNOMAD BrowserENSG00000140694
Varsome BrowserPARN
ACMGPARN variants
VarityO95453
Genomic Variants (DGV)PARN [DGVbeta]
DECIPHERPARN [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPARN 
Mutations
ICGC Data PortalPARN 
TCGA Data PortalPARN 
Broad Tumor PortalPARN
OASIS PortalPARN [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPARN  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DPARN
Mutations and Diseases : HGMDPARN
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaPARN
DgiDB (Drug Gene Interaction Database)PARN
DoCM (Curated mutations)PARN
CIViC (Clinical Interpretations of Variants in Cancer)PARN
Cancer3DPARN
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604212    616353    616371   
Orphanet477    2949    7029   
DisGeNETPARN
MedgenPARN
Genetic Testing Registry PARN
NextProtO95453 [Medical]
GENETestsPARN
Target ValidationPARN
Huge Navigator PARN [HugePedia]
ClinGenPARN
Clinical trials, drugs, therapy
MyCancerGenomePARN
Protein Interactions : CTDPARN
Pharm GKB GenePA32949
PharosO95453
Clinical trialPARN
Miscellaneous
canSAR (ICR)PARN
HarmonizomePARN
DataMed IndexPARN
Probes
Litterature
PubMed91 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXPARN
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Oct 4 15:24:20 CEST 2021

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