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Aliases & Descriptions for XRN2
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc
, and/or 7Ensembl,
8miRBase) About This Section
|
| Aliases |
|---|
| EC 3.1.13.- 3 | | OTTHUMP00000030403 2 |
| | | Descriptions |
|---|
| 5'-3' exoribonuclease 2 2 | | DHM1-like protein 3 | | DHP protein 3 | | Dhm1-like protein (mouse homolog) 2 |
|
| | Search outside databases for aliases for XRN2 genePrevious GC identifers: GC20P021272 GC20P021278 |
Summaries for XRN2(According to Entrez Gene,
Wikipedia's
Gene Wiki,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| EntrezGene summary for XRN2: This gene shares similarity with the mouse Dhm1 and the yeast dhp1 gene. The yeast gene is involved in homologous recombination and RNA metabolism, such as RNA synthesis and RNA trafficking. Complementation studies show that Dhm1 has a similar function in mouse as dhp1. The function of the human gene has not yet been determined. Transcript variants encoding different isoforms have been noted for this gene; however, their full-length nature is not known. [provided by RefSeq] UniProtKB/Swiss-Prot: XRN2_HUMAN, Q9H0D6Function: Possesses 5'->3' exoribonuclease activity (By similarity). May promote the termination of transcription by RNA polymerase II. During transcription termination, cleavage at the polyadenylation site liberates a 5' fragment which is subsequently processed to form the mature mRNA and a 3' fragment which remains attached to the elongating polymerase. The processive degradation of this 3' fragment by this protein may promote termination of transcription |
Genomic Location for XRN2
(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
SABiosciences) About This Section
| Genomic View: UCSC Golden Path with GeneCards custom track
Transcription factor binding sites upstream to the XRN2 gene 
Entrez Gene cytogenetic band: 20p11.2-p11.1 Ensembl cytogenetic band: 20p11.22 HGNC cytogenetic band: 20p11.2-p11.1XRN2 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 20 GeneLoc Exon Structure GeneLoc location for GC20P021231:
(about GC identifiers)
Start:
|
21,231,922 bp from pter |
End:
|
21,318,463 bp from pter |
Size:
|
86,542 bases |
Orientation:
|
plus strand |
RefSeq DNA sequence:- NC_000020.9 NT_011387.8
| Proteins for XRN2
(According to
1UniProtKB,
and/or Ensembl,
Phosphorylation sites according to 2Phosphosite,
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)
About This Section
| UniProtKB/Swiss-Prot: XRN2_HUMAN, Q9H0D6 (See
protein sequence)Recommended Name: 5'-3' exoribonuclease 2 Size: 950 amino acids; 108582 Da
Subcellular location: Nucleus, nucleolus
Sequence caution: Sequence=AAR24369.1; Type=Frameshift; Positions=73;
Secondary accessions: Q3L8N4 Q6KGZ9 Q9BQL1 Q9NTW0 Q9NXS6 Q9UL53Alternative splicing: 2 isoforms: Q9H0D6-1 Q9H0D6-2 Post-translational modifications:
View phosphorylation sites using PhosphoSite2
REFSEQ proteins: NP_036387.2
ENSEMBL proteins: ENSP00000366396
Human Recombinant Proteins Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 
3 Gene Ontology (GO) cellular component terms (links to tree view): About this table
Antibodies for XRN2: Assays for XRN2: | Protein
Domains/ Families for XRN2(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
| - Graphical View of Domain Structure for InterPro Entry Q9H0D6
ProtoNet protein and cluster: Q9H0D6 2 Blocks protein families: IPB001878 C2HC-type zinc-finger signature IPB004859 Putative 5-3 exonuclease domain
UniProtKB/Swiss-Prot: XRN2_HUMAN, Q9H0D6Similarity: Belongs to the 5'-3' exonuclease family. XRN2/RAT1 subfamilySimilarity: Contains 1 CCHC-type zinc finger | Gene Function for XRN2
(According to MGI Jun 06 2009, UniProtKB,
IUBMB,and/or Genatlas,
shRNA from
OriGene,
Sigma-Aldrich, RNAi from
Sigma-Aldrich,
RNAi Products,
Clones, and
Q-PCR Products
from Invitrogen,
Millipore,
OriGene, and/or
Abnova,
siRNAs from
Applied Biosystems,
SYBR primers from OriGene,
Cell-based Assays from Millipore,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_012255
Applied Biosystems Silencer® siRNAs for XRN2
Sigma-Aldrich siRNA for XRN2  Sigma-Aldrich shRNA Panels and shRNA for XRN2  Explore Sigma-Aldrich super-pooled esiRNAs 
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_012255                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_012255                                  untagged cDNA clone in CMV expression vector: NM_012255 
Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_012255
UniProtKB/Swiss-Prot: XRN2_HUMAN, Q9H0D6Function: Possesses 5'->3' exoribonuclease activity (By similarity). May promote the termination of transcription by RNA polymerase II. During transcription termination, cleavage at the polyadenylation site liberates a 5' fragment which is subsequently processed to form the mature mRNA and a 3' fragment which remains attached to the elongating polymerase. The processive degradation of this 3' fragment by this protein may promote termination of transcriptionCatalytic activity: Exonucleolytic cleavage in the 5'- to 3'-direction to yield nucleoside 5'-phosphatesEnzyme Number (IUBMB): EC 3.1.13.- Genatlas biochemistry entry for XRN2:murine DHM1 gene homolog,5'-3' exoribonuclease 2,highly expressed in the testis,involved in homologous recomnbination5/6 Gene Ontology (GO) molecular function terms (links to tree view) (see all 6
): About this table | Pathways & Interactions for XRN2
(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 1UniProtKB,
2MINT, and/or
3STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene.)
About This Section
|
Gene Network CentralTM Interacting Genes and Proteins Network for XRN2 
5/16 Interacting proteins for XRN2 (Q9H0D61, 2 ENSP000003663963) via UniProtKB, MINT, and/or STRING (see all 16
)About this table
5/8 Gene Ontology (GO) biological process terms (links to tree view) (see all 8
): About this table
|
Drugs & Compounds for XRN2(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)
About This Section
|
Browse Tocris compounds for XRN2
|
Transcripts for XRN2(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,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from Invitrogen,
Millipore, and/or
Abnova,
siRNAs from Applied Biosystems,
Sigma-Aldrich,
shRNA from
Sigma-Aldrich,
OriGene,
Tagged/untagged cDNA clones from
OriGene, Expression Assays from Applied Biosystems) About This Section
|               OriGene 29mer shRNA kit in GFP-retroviral vector: NM_012255
Sigma-Aldrich siRNA for XRN2  Sigma-Aldrich shRNA Panels and shRNA for XRN2  Explore Sigma-Aldrich super-pooled esiRNAs 
Applied Biosystems Silencer® siRNAs: NM_012255 REFSEQ mRNAs for XRN2 gene: NM_012255.3
Applied Biosystems TaqMan ® Gene Expression Assays: NM_012255               OriGene GFP tagged cDNA clone in CMV expression vector: NM_012255                                  Myc/DDK tagged cDNA clone in CMV expression vector: NM_012255                                  untagged cDNA clone in CMV expression vector: NM_012255  Additional cDNA sequence: AF064257.1 AF152169.1 AK000084.1 AK001573.1 AK172858.1 AK302846.1 AK303312.1 AK314602.1 AL136841.1 AY382900.1 BC000315.2 BC006417.1 BC032075.2 BC131775.1 BC142960.1 CR602097.1 CR607652.1 24 DOTS entries: DT.101976662 DT.416242 DT.102832941 DT.97847492 DT.439293 DT.75168600 DT.100808866 DT.91858750 DT.92062355 DT.99961805 DT.75101626 DT.100810382 DT.91805915 DT.92409492 DT.95185286 DT.95221799 DT.100810389 DT.102832940 DT.102832943 DT.120807525 DT.95218276 DT.95221814 DT.95221798 DT.99982457 24/379 AceView cDNA sequences (see all 379
):AI796426 AW242471 AU133886 BM729186 BU620774 BC000315 BF219758 BX102929 BQ936061 CR602097 AL136841 AA354795 BM554664 BM263312 BM451916 AA323017 BG912059 BM719870 BQ440589 BQ644805 H96017 BX953011 AU125088 BU181047
highest scoring ESTs for XRN2:AA035728 AA028164 AA149978 AA173571 AA194725 AA195566 AA292791 AA418041 AA418212 AA426479 Unigene Cluster for XRN2: 5'-3' exoribonuclease 2 Hs.255932 [show with all ESTs]Unigene Representative Sequence: BC142960
GeneLoc Exon Structure
5/7 Alternative Splicing Database (ASD) splice patterns (SP) for XRN2 (see all 7
)
| ExUns: | 1a | · | 1b | · | 1c | · | 1d | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5a | · | 5b | ^ | 6 | ^ | 7a | · | 7b | ^ | 8 | ^ | 9 | ^ | 10 | ^ | 11 | ^ | 12 | ^ | 13 | ^ | 14 | ^ | 15a | · | 15b | ^ | 16 | ^ | 17a | · | 17b | ^ | 18 | ^ | 19 | ^ | |
| SP1: | |   | |   | |   | |   | - |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | - |   | |   | |   | |
| SP2: | |   | |   | |   | |   | - |   | - |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | - |   | |   | |   | |
| SP3: | |   | |   | |   | |   | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | |   | |   | |   | |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | |
| SP5: | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
| ExUns: | 20 | ^ | 21 | ^ | 22 | ^ | 23a | · | 23b | ^ | 24 | ^ | 25 | ^ | 26 | ^ | 27 | ^ | 28 | ^ | 29 | ^ | 30 | ^ | 31a | · | 31b | |
| SP1: | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | - |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP4: | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | - |   | |   | |   | |   | |   | |
| SP5: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
About this scheme
ECgene alternative splicing isoforms for XRN2
1 Ensembl transcript including schematic representation: ENST00000377191
|
Expression for XRN2
(Experimental results according to
1GeneNote
and GNF BioGPS,
probe sets-to-genes annotations according to
2GeneAnnot ,
3GeneTide ,
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
)
About This Section
| XRN2 expression in normal and diseased human tissues
Applied Biosystems TaqMan ® Gene Expression Assays for XRN2
1 / 2 / 3 7 probe-sets matching XRN2 gene Data from
(Publications) and GNF BioGPS About these images About these images
CGAP SAGE TAG: CTGATTTTTA
SOURCE GeneReport for Unigene cluster: Hs.255932 UniProtKB/Swiss-Prot: XRN2_HUMAN, Q9H0D6Tissue specificity: Expressed in the spleen, thymus, prostate, testis, ovary, small intestine, colon, peripheral blood leukocytes, heart, brain, placenta, lung, liver, skeletal muscle, kidney, and pancreas. Isoform 2 is expressed predominantly in peripheral blood leukocytes |
Orthologs for XRN2
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
and/or
5MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase,
Gene Trees according to Ensembl)
About This Section
|
Orthologs for XRN2 gene from 5/22 species (see all 22
)
About this table Species with no ortholog for XRN2
ENSEMBL Gene Tree for XRN2 | Paralogs for XRN2(Paralogs according to 1HomoloGene and 2Ensembl, Pseudogenes according to 3Pseudogene.org) About This Section
| Paralogs for XRN2 gene
- XRN12
|
SNPs/Variants for XRN2(According to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE, and
UniProtKB,
Linkage Disequilibrium by HapMap,
Genotyping Reagents from
Applied Biosystems)
About This Section
|
HapMap Linkage Disequilibrium images for XRN2 (up to first 250kb)
|
Disorders & Mutations for XRN2
(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.)
About This Section
|
OMIM: 608851
|
Medical News for XRN2(Possibly Related Articles in
Doctor's Guide)
About This Section
| -- |
Publications for XRN2 (in
PubMed.
Associations of this gene to articles via
1Novoseek,
2HGNC,
3Entrez Gene,
4UniProtKB/Swiss-Prot,
5UniProtKB/TrEMBL,
6GAD, and/or
7PharmGKB)
About This Section
| 10/23 PubMed articles for XRN2 gene (see all 23
):- Cloning and mapping of the XRN2 gene to human chromosome 20p11.1- p11.2. (PubMed id 10409438)1, 2, 3, 4 Zhang M.... Zhao S.Y. (1999)
- A novel splice variant of human XRN2 gene is mainly expressed in blood leukocyte. (PubMed id 16147866)1, 3, 4 Li J.... Mao Y. (2005)
- A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)3, 4 Beausoleil S.A.... Gygi S.P. (2006)
- Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)3, 4 Olsen J.V....Mann M. (2006)
- Pause sites promote transcriptional termination of mammalian RNA polymerase II. (PubMed id 16648491)3, 4 Gromak N.... Proudfoot N.J. (2006)
- Human 5' -> 3' exonuclease Xrn2 promotes transcription termination at co-transcriptional cleavage sites. (PubMed id 15565158)3, 4 West S.... Proudfoot N.J. (2004)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)3, 4 Gerhard D.S....Malek J. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)3, 4 Ota T....Sugano S. (2004)
- Large-scale characterization of HeLa cell nuclear phosphoproteins. (PubMed id 15302935)3, 4 Beausoleil S.A....Gygi S.P. (2004)
- Functional proteomic analysis of human nucleolus. (PubMed id 12429849)3, 4 Scherl A.... Diaz J.-J. (2002)
|
Search for XRN2
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing XRN2
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
and/or
H-InvDB)
About This Section
|
| Other Databases showing XRN2
(According to HUGE)
About This Section
| -- |
Specialized Databases showing XRN2(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
|
| About This Section
| --
| Services for XRN2(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
| 
 Products for XRN2:

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| | Recombinant Proteins (XRN2) | | Antibodies (XRN2) |
| | | Search Tocris compounds for XRN2 |
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Incremental update: 13 Oct 2009
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