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Aliases & Descriptions for PARN
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Aliases DAN 1 , 2 , 3 , 5 EC 3.1.13.4 3
Descriptions Deadenylating nuclease 2 , 3 Deadenylation nuclease 3 Polyadenylate-specific ribonuclease 3 poly(A)-specific ribonuclease (deadenylation nuclease) 2
Search outside databases for aliases for PARN genePrevious GC identifers: GC16M014478 GC16P017836 GC16M014495
Summaries for PARN (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
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EntrezGene summary for PARN : The protein encoded by this gene is a 3'-exoribonuclease, with similarity to the RNase Dfamily of 3'-exonucleases. It prefers poly(A) as the substrate, hence, efficiently degradespoly(A) tails of mRNAs. Exonucleolytic degradation of the poly(A) tail is often the first step inthe decay of eukaryotic mRNAs. This protein is also involved in silencing of certain maternalmRNAs during oocyte maturation and early embryonic development, as well as in nonsense-mediateddecay (NMD) of mRNAs that contain premature stop codons. Alternatively spliced transcript variantsencoding different isoforms have been found for this gene. [provided by RefSeq] UniProtKB/Swiss-Prot: PARN_HUMAN, O95453 Function : 3'-exoribonuclease that has a preference for poly(A) tails of mRNAs, thereby efficientlydegrading poly(A) tails. Exonucleolytic degradation of the poly(A) tail is often the first step inthe decay of eukaryotic mRNAs and is also used to silence certain maternal mRNAs translationallyduring oocyte maturation and early embryonic development. Interacts with both the 3'-end poly(A)tail and the 5'-end cap structure during degradation, the interaction with the cap structure beingrequired for an efficient degradation of poly(A) tails. Involved in nonsense-mediated mRNA decay,a critical process of selective degradation of mRNAs that contain premature stop codons. Alsoinvolved in degradation of inherently unstable mRNAs that contain AU-rich elements (AREs) in their3'-UTR, possibly via its interaction with KHSRP. Probably mediates the removal of poly(A) tails ofAREs mRNAs, which constitutes the first step of destabilization
Gene Wiki entry for PARN
Genomic Location for PARN
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 36) ,
and/or miRBase ,
Genomic Views according to
UCSC and
Ensembl ,
Transcription factor binding sites according to
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the PARN gene Entrez Gene cytogenetic band: 16p13 Ensembl cytogenetic band: 16p13.12 HGNC cytogenetic band: 16p13 PARN Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc gene densities for chromosome 16 GeneLoc Exon Structure
GeneLoc location for GC16M014437:
(about GC identifiers )
Start:
14,437,060 bp from pter
End:
14,640,920 bp from pter
Size:
203,861 bases
Orientation:
minus strand
RefSeq DNA sequence: NC_000016.8 NT_010393.15 Proteins for PARN
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Enzo Life Sciences ,
Abnova ,
OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
Millipore ,
R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
Antibodies by Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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UniProtKB/Swiss-Prot: PARN_HUMAN, O95453 (See
protein sequence )Recommended Name: Poly(A)-specific ribonuclease PARN Size : 639 amino acids; 73451 Da
Cofactor : Divalent metal cations. Mg(2+) is the most probable
Subunit : Homodimer. Interacts with KHSRP and CUGBP1. Found in a mRNA decay complex with RENT1,RENT2 and RENT3B
Subcellular location : Nucleus. Cytoplasm. Nucleus, nucleolus. Note=Some nuclear fraction isnucleolar
PDB structures from and Proteopedia : 2A1R (3D)
 2A1S (3D)
 3CTR (3D)
 
Post-translational modifications:
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins (2 alternative transcripts):
NP_001127949.1 NP_002573.1 ENSEMBL proteins: ENSP00000345456 Human Recombinant Proteins               OriGene Purified Recombinant Human Protein: PARN 2 Gene Ontology (GO) cellular component terms (links to tree view) :
About this table Antibodies for PARN: Assays for PARN:
Protein
Domains/ Families for PARN(According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
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Graphical View of Domain Structure for InterPro Entry O95453 ProtoNet protein and cluster: O95453
1 Blocks protein family : IPB001374 Single-stranded nucleic acid binding R3H UniProtKB/Swiss-Prot: PARN_HUMAN, O95453 Similarity : Belongs to the CAF1 familySimilarity : Contains 1 R3H domain
Gene Function for PARN
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
shRNA from
OriGene ,
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RNAi Products ,
Clones , and
Q-PCR Products
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Millipore ,
OriGene , and/or
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SYBR primers from OriGene ,
Cell-based Assays from Millipore ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_001134477 Applied Biosystems Silencer ® siRNAs for PARN Sigma-Aldrich siRNA for PARN Sigma-Aldrich shRNA for PARN Explore Sigma-Aldrich super-pooled esiRNAs                OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_001134477                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_001134477                                  untagged cDNA clones in CMV expression vector (see all 2 ): NM_001134477  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_002582 UniProtKB/Swiss-Prot: PARN_HUMAN, O95453 Function : 3'-exoribonuclease that has a preference for poly(A) tails of mRNAs, thereby efficientlydegrading poly(A) tails. Exonucleolytic degradation of the poly(A) tail is often the first step inthe decay of eukaryotic mRNAs and is also used to silence certain maternal mRNAs translationallyduring oocyte maturation and early embryonic development. Interacts with both the 3'-end poly(A)tail and the 5'-end cap structure during degradation, the interaction with the cap structure beingrequired for an efficient degradation of poly(A) tails. Involved in nonsense-mediated mRNA decay,a critical process of selective degradation of mRNAs that contain premature stop codons. Alsoinvolved in degradation of inherently unstable mRNAs that contain AU-rich elements (AREs) in their3'-UTR, possibly via its interaction with KHSRP. Probably mediates the removal of poly(A) tails ofAREs mRNAs, which constitutes the first step of destabilization Catalytic activity : Exonucleolytic cleavage of poly(A) to 5'-AMPEnzyme Number (IUBMB): EC 3.1.13.4
Genatlas biochemistry entry for PARN :poly A specific ribonuclease,deadenylation nuclease,ubiquitously expressed,degrading poly A tail ofmRNA molecules 5/8 Gene Ontology (GO) molecular function terms (links to tree view) (see all 8
):
About this table
Pathways & Interactions for PARN
(Pathways according to Invitrogen
(maps by GeneGo ),
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Proteins Network according to
SABiosciences ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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Gene Network CentralTM Interacting Genes and Proteins Network for PARN 5/11 Interacting proteins for PARN (O95453 1 ENSP00000345456 3 ) via UniProtKB, MINT, and/or STRING (see all 11
)About this table 4 Gene Ontology (GO) biological process terms (links to tree view) :
About this table
Drugs & Compounds for PARN (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
Sigma-Aldrich , Tocris Bioscience , and/or
Novoseek and Drugs according to
Enzo Life Sciences and/or
PharmGKB )
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Browse Tocris compounds for PARN
Transcripts for PARN(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
non coding RNAs according to
RNAdb ,
ESTs according to GeneTide ,
exon structure from GeneLoc ,
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2 ): NM_001134477 Sigma-Aldrich siRNA for PARN Sigma-Aldrich shRNA for PARN Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_001134477 NM_002582
REFSEQ mRNAs for PARN gene (2 alternative transcripts): NM_001134477.1 NM_002582.2
Applied Biosystems TaqMan ® Gene Expression Assays: NM_001134477 NM_002582
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_001134477                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_001134477                                  untagged cDNA clones in CMV expression vector (see all 2 ): NM_001134477  
Additional cDNA sequence: AJ005698.1 AK023866.1 AK293189.1 AK299653.1 AK301648.1 AK303348.1 AK315020.1 BC044763.1 BC050029.1
15 DOTS entries : DT.313148 DT.100780890 DT.91654186 DT.100780883 DT.100650345 DT.86841429 DT.97798723 DT.102830660 DT.40203091 DT.91866628 DT.91922711 DT.91954948 DT.95256219 DT.95375836 DT.102830658
24/160 AceView cDNA sequences (see all 160
):NM_002582 AU099466 BM993702 AI364427 BM975508 AW262009 CB143265 AI309002 BP358795 BU616576 AI337134 BM799843 CD518439 BQ679680 BM459206 BU629697 BP335321 AA447167 BQ000452 BX113575 AU141208 BU185252 BM546879 AU105744
highest scoring ESTs for PARN :AJ005698 AA206172 AA331829 AL042465 AU099466 BG719035 BG721126 BG721172 BM546879 BM799843
Unigene Cluster for PARN: Poly(A)-specific ribonuclease (deadenylation nuclease) Hs.253197 [show with all ESTs ] Unigene Representative Sequence: NM_002582 GeneLoc Exon Structure 1 Ensembl transcript including schematic representation : ENST00000341484
Expression for PARN
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Expression Assays from
Applied Biosystems
)
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PARN expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for PARN 1 / 2 / 3
3 probe-sets matching PARN gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: GCGCTGCTTTSOURCE GeneReport for Unigene cluster: Hs.253197 Expression variation in blood from EXPOLDB for PARN
UniProtKB/Swiss-Prot: PARN_HUMAN, O95453 Tissue specificity : Ubiquitous
Orthologs for PARN
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
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Orthologs for PARN gene from 5/11 species (see all 11
)
About this table Species with no ortholog for PARN ENSEMBL Gene Tree for PARN Paralogs for PARN (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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Paralogs for PARN gene PNLDC1 2
SNPs/Variants for PARN (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for PARN (up to first 250kb)
Disorders & Mutations for PARN
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
HGMD, GAD ,
HuGE Navigator ,
BCGD ,
and/or TGDB .)
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OMIM: 604212
Medical News for PARN (Possibly Related Articles in
Doctor's Guide )
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--
Publications for PARN (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
7 PharmGKB )
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10/46 PubMed articles for PARN gene (see all 46
): The human gene for the poly(A)-specific ribonuclease (PARN) maps to 16p13 and has a truncated copy in the Prader-Willi/Angelman syndrome region on 15q11-->q13. (PubMed id 10640832) 1, 2, 3, 4 Buiting K.... Horsthemke B. (1999) The deadenylating nuclease (DAN) is involved in poly(A) tail removal during the meiotic maturation of Xenopus oocytes. (PubMed id 9736620) 1, 3, 4 Koerner C.G....Wahle E. (1998) Coordination of divalent metal ions in the active site of poly(A)- specific ribonuclease. (PubMed id 15358788) 1, 3, 4 Ren Y.-G.... Virtanen A. (2004) Identification of the active site of poly(A)-specific ribonuclease by site-directed mutagenesis and Fe(2+)-mediated cleavage. (PubMed id 11742007) 1, 3, 4 Ren Y.-G.... Virtanen A. (2002) Structural insight into poly(A) binding and catalytic mechanism of human PARN. (PubMed id 16281054) 1, 3, 4 Wu M.... Song H. (2005) The mRNA cap structure stimulates rate of poly(A) removal and amplifies processivity of degradation. (PubMed id 11359775) 1, 3, 4 Martinez J.... Virtanen A. (2001) Tristetraprolin and its family members can promote the cell-free deadenylation of AU-rich element-containing mRNAs by poly(A) ribonuclease. (PubMed id 12748283) 1, 3, 4 Lai W.S.... Blackshear P.J. (2003) CUG-BP binds to RNA substrates and recruits PARN deadenylase. (PubMed id 16601207) 1, 3, 4 Moraes K.C.... Wilusz J. (2006) Nonsense-mediated mRNA decay in mammalian cells involves decapping, deadenylating, and exonucleolytic activities. (PubMed id 14527413) 1, 3, 4 Lejeune F.... Maquat L.E. (2003) A KH domain RNA binding protein, KSRP, promotes ARE-directed mRNA turnover by recruiting the degradation machinery. (PubMed id 15175153) 1, 3, 4 Gherzi R....Chen C.-Y. (2004)
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Genome Databases showing PARN
(According to
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AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
and/or
H-InvDB )
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Other Databases showing PARN
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Specialized Databases showing PARN (According to ATLAS , HORDE , IMGT , MTDB, LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
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-- Services for PARN (Reagents available from Applied Biosystems , Antibodies and assays by Cell
Signaling Technology , Abcam , Novus Biologicals ,Sigma-Aldrich , R&D Systems , Millipore , Abnova , and/or Invitrogen , Clones available from OriGene ,and/or Invitrogen , Drugs and/or compounds by Sigma-Aldrich , Enzo Life Sciences , and/or Tocris Bioscience )About This Section
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Products for PARN:
Recombinant Proteins (PARN ) Antibodies (PARN )
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