Set Analyses:
Advanced Search

Advanced Search

 
Search By
Section (entire)
for


 



XRN1 Gene

protein-coding   GIFtS: 53
GCID: GC03M142025

5'-3' Exoribonuclease 1

  See XRN1-related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

TryGeneCards Plus

Aliases
5'-3' Exoribonuclease 11 2
SEP12 3 5
Strand-Exchange Protein 1 Homolog2 3
EC 3.1.13.-3

External Ids:    HGNC: 306541   Entrez Gene: 544642   Ensembl: ENSG000001141277   OMIM: 6079945   UniProtKB: Q8IZH23   

Export aliases for XRN1 gene to outside databases

Previous GC identifers: GC03M139058 GC03M143508 GC03M139398


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

TryGeneCards Plus

Entrez Gene summary for XRN1 Gene:
This gene encodes a member of the 5'-3' exonuclease family. The encoded protein may be involved in
replication-dependent histone mRNA degradation, and interacts directly with the enhancer of mRNA-decapping
protein 4. In addition to mRNA metabolism, a similar protein in yeast has been implicated in a variety of nuclear
and cytoplasmic functions, including homologous recombination, meiosis, telomere maintenance, and microtubule
assembly. Mutations in this gene are associated with osteosarcoma, suggesting that the encoded protein may also
play a role in bone formation. Alternative splicing results in multiple transcript variants. (provided by RefSeq,
Sep 2013)

GeneCards Summary for XRN1 Gene:
XRN1 (5'-3' exoribonuclease 1) is a protein-coding gene. Diseases associated with XRN1 include osteosarcoma. GO annotations related to this gene include RNA binding and 5'-3' exonuclease activity.

UniProtKB/Swiss-Prot: XRN1_HUMAN, Q8IZH2
Function: Major 5'-3' exoribonuclease involved in mRNA decay. Required for the 5'-3'-processing of the G4
tetraplex-containing DNA and RNA substrates. The kinetic of hydrolysis is faster for G4 RNA tetraplex than for G4
DNA tetraplex and monomeric RNA tetraplex. Binds to RNA and DNA (By similarity). Plays a role in
replication-dependent histone mRNA degradation. May act as a tumor suppressor protein in osteogenic sarcoma (OGS)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
About This Section

TryGeneCards Plus
RefSeq DNA sequence at NCBI GenBank:
NC_000003.11  NT_005612.17  NC_018914.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the XRN1 gene promoter:
         c-Fos   C/EBPbeta   AP-1   JunB   FosB   Fra-1   MyoD   LCR-F1   Nkx6-1   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidXRN1 promoter sequence
   Search Chromatin IP Primers for XRN1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat XRN1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3q23   Ensembl cytogenetic band:  3q23   HGNC cytogenetic band: 3q23

XRN1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
XRN1 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M142025:  view genomic region     (about GC identifiers)

Start:
142,025,449 bp from pter      End:
142,166,904 bp from pter
Size:
141,456 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
About This Section

TryGeneCards Plus

UniProtKB/Swiss-Prot: XRN1_HUMAN, Q8IZH2 (See protein sequence)
Recommended Name: 5'-3' exoribonuclease 1  
Size: 1706 amino acids; 194107 Da
Subunit: Associates with alpha and beta tubulins (By similarity). Found in a mRNP complex with UPF1, UPF2, UPF3B
and XRN1. Interacts with ZC3HAV1 in an RNA-dependent manner. Interacts with DIS3L2
Miscellaneous: Down-regulated in OGS biopsy
Secondary accessions: Q4G0S3 Q68D88 Q6AI24 Q6MZS8 Q86WS7 Q8N8U4 Q9UF39
Alternative splicing: 3 isoforms:  Q8IZH2-1   Q8IZH2-2   Q8IZH2-3   

Explore the universe of human proteins at neXtProt for XRN1: NX_Q8IZH2

Explore proteomics data for XRN1 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys79, Lys847
  • Modification sites at PhosphoSitePlus

  • See XRN1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (3 alternative transcripts): 
    NP_001269786.1  NP_001269788.1  NP_061874.3  

    ENSEMBL proteins: 
     ENSP00000264951   ENSP00000419683   ENSP00000376707   ENSP00000419219   ENSP00000418404  
     ENSP00000420786   ENSP00000420634   ENSP00000444310  
    Reactome Protein details: Q8IZH2

    XRN1 Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    OriGene Protein Over-expression Lysate for XRN1
    OriGene Custom MassSpec
    OriGene Custom Protein Services for XRN1
    GenScript Custom Purified and Recombinant Proteins Services for XRN1
    Novus Biologicals XRN1 Protein
    Novus Biologicals XRN1 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for XRN1

     
    Search eBioscience for Proteins for XRN1 

     
    antibodies-online proteins for XRN1 (2 products) 

     
    antibodies-online peptides for XRN1

    XRN1 Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse R&D Systems for Antibodies
    Browse OriGene Antibodies
    OriGene Custom Antibody Services for XRN1
    Novus Biologicals XRN1 Antibodies
    Search for Antibodies for XRN1 at Abcam
    Cloud-Clone Corp. Antibodies for XRN1
    Search ThermoFisher Antibodies for XRN1
    antibodies-online antibodies for XRN1 (6 products) 

    XRN1 Assay Products:

    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for XRN1
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for XRN1
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for XRN1
    Cloud-Clone Corp. CLIAs for XRN1
    Search eBioscience for ELISAs for XRN1 
    antibodies-online kits for XRN1 (2 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    TryGeneCards Plus
    3 InterPro protein domains:
     IPR004859 Put_53exo
     IPR016494 5_3_exoribonuclease_1
     IPR027073 5_3_exoribonuclease

    Graphical View of Domain Structure for InterPro Entry Q8IZH2

    ProtoNet protein and cluster: Q8IZH2

    1 Blocks protein domain: IPB004859 Putative 5-3 exonuclease domain

    UniProtKB/Swiss-Prot: XRN1_HUMAN, Q8IZH2
    Similarity: Belongs to the 5'-3' exonuclease family


    Find genes that share domains with XRN1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
    About This Section

    TryGeneCards Plus

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: XRN1_HUMAN, Q8IZH2
    Function: Major 5'-3' exoribonuclease involved in mRNA decay. Required for the 5'-3'-processing of the G4
    tetraplex-containing DNA and RNA substrates. The kinetic of hydrolysis is faster for G4 RNA tetraplex than for G4
    DNA tetraplex and monomeric RNA tetraplex. Binds to RNA and DNA (By similarity). Plays a role in
    replication-dependent histone mRNA degradation. May act as a tumor suppressor protein in osteogenic sarcoma (OGS)
    Induction: By GDNF/glial cell line-derived neurotrophic factor

         Enzyme Number (IUBMB): EC 3.1.13.-1

         Gene Ontology (GO): Selected molecular function terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0003723RNA binding ----
    GO:0004527exonuclease activity ----
    GO:0005515protein binding IPI--
         
    Find genes that share ontologies with XRN1           About GenesLikeMe


    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for XRN1

    miRNA
    Products:
        
    miRTarBase miRNAs that target XRN1:
    hsa-mir-335-5p (MIRT017527), hsa-let-7b-5p (MIRT032310), hsa-mir-10a-5p (MIRT025621), hsa-mir-34a-5p (MIRT025425)

    Block miRNA regulation of human, mouse, rat XRN1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate XRN1 (see all 104):
    hsa-miR-3146 hsa-miR-106a hsa-miR-218-1* hsa-miR-4325 hsa-miR-93 hsa-miR-92b hsa-miR-20a hsa-miR-519e
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for XRN1
    Predesigned siRNA for gene silencing in human, mouse, rat XRN1

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for XRN1

    Clone
    Products:
         
    OriGene clones in human, mouse for XRN1 (see all 9)
    OriGene ORF clones in mouse, rat for XRN1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): XRN1 (NM_019001)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for XRN1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XRN1

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for XRN1
    Browse ESI BIO Cell Lines and PureStem Progenitors for XRN1 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XRN1


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
    About This Section

    TryGeneCards Plus

    Subcellular locations from UniProtKB/Swiss-Prot
    XRN1_HUMAN, Q8IZH2: Cytoplasm. Note=Discrete foci at the inner surface of the cell membrane
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytoskeleton4
    cytosol4
    golgi apparatus4
    plasma membrane4
    nucleus3

    Gene Ontology (GO): Selected cellular component terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000932cytoplasmic mRNA processing body IEA--
    GO:0005622intracellular ----
    GO:0005737cytoplasm ----
    GO:0005794Golgi apparatus ----
    GO:0005829cytosol TAS--

    Find genes that share ontologies with XRN1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
    About This Section

    TryGeneCards Plus

    SuperPaths for XRN1 About    
    See pathways by source

    SuperPathContained pathways About
    1Deadenylation-dependent mRNA decay
    Deadenylation-dependent mRNA decay0.48
    mRNA Decay by 5 to 3' Exoribonuclease0.00
    RNA degradation0.48
    2CDK-mediated phosphorylation and removal of Cdc6
    Regulation of mRNA Stability by Proteins that Bind AU-rich Elements0.62
    Destabilization of mRNA by Tristetraprolin (TTP)0.00
    Destabilization of mRNA by Butyrate Response Factor 1 (BRF1)0.00
    3Gene Expression
    Gene Expression0.40
    4Ribosome biogenesis in eukaryotes
    Ribosome biogenesis in eukaryotes


    Find genes that share SuperPaths with XRN1           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    3 Reactome Pathways for XRN1
        Tristetraprolin (TTP) destabilizes mRNA
    Butyrate Response Factor 1 (BRF1) destabilizes mRNA
    mRNA decay by 5' to 3' exoribonuclease


    2 Kegg Pathways  (Kegg details for XRN1):
        Ribosome biogenesis in eukaryotes
    RNA degradation

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for XRN1
    Interactions:

        Search GeneGlobe Interaction Network for XRN1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for XRN1 (Q8IZH23 ENSP000002649514) via UniProtKB, MINT, STRING, and/or I2D (see all 346)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    BAG6P463793, ENSP000003651314I2D: score=4 STRING: ENSP00000365131
    ENSG00000096155P463793I2D: score=4 
    ENSG00000227761P463793I2D: score=4 
    ENSG00000228760P463793I2D: score=4 
    ENSG00000229524P463793I2D: score=4 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 9):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000288nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay TAS--
    GO:0000956nuclear-transcribed mRNA catabolic process IMP17545563
    GO:0010467gene expression TAS--
    GO:0016070RNA metabolic process TAS--
    GO:0016071mRNA metabolic process TAS--

    Find genes that share ontologies with XRN1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
    About This Section

    TryGeneCards Plus
    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for XRN1



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
    About This Section

    TryGeneCards Plus

    REFSEQ mRNAs for XRN1 gene (4 alternative transcripts): 
    NM_001282857.1  NM_001282859.1  NM_019001.4  NM_001042604.1  

    Unigene Cluster for XRN1:

    5'-3' exoribonuclease 1
    Hs.435103  [show with all ESTs]
    Unigene Representative Sequence: BX640905
    15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000264951(uc010huu.3 uc003eus.3 uc003eut.3 uc003euu.3)
    ENST00000498077 ENST00000392981 ENST00000489241 ENST00000468894 ENST00000467077
    ENST00000472625 ENST00000472697(uc003euv.1) ENST00000465507 ENST00000463916(uc003euw.3 uc011bnh.2)
    ENST00000486211 ENST00000477237 ENST00000470537 ENST00000465074 ENST00000544157

    miRNA
    Products:
         
    Block miRNA regulation of human, mouse, rat XRN1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate XRN1 (see all 104):
    hsa-miR-3146 hsa-miR-106a hsa-miR-218-1* hsa-miR-4325 hsa-miR-93 hsa-miR-92b hsa-miR-20a hsa-miR-519e
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    OriGene RNAi products in human, mouse, rat for XRN1
    Predesigned siRNA for gene silencing in human, mouse, rat XRN1
    Clone
    Products:
         
    OriGene clones in human, mouse for XRN1 (see all 9)
    OriGene ORF clones in mouse, rat for XRN1
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): XRN1 (NM_019001)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for XRN1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XRN1
    Primer
    Products:
        
    OriGene qSTAR qPCR primer pairs in human, mouse for XRN1
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat XRN1
      QuantiTect SYBR Green Assays in human, mouse, rat XRN1
      QuantiFast Probe-based Assays in human, mouse, rat XRN1

    Additional mRNA sequence: 

    AK096177.1 AK123897.1 AK304312.1 AL117516.1 AL133623.1 AY137776.1 BC039314.1 BC048104.1 
    BC078146.1 BX640905.1 CR627160.1 CR627396.1 CR749518.1 

    14 DOTS entries:

    DT.97837164  DT.212252  DT.95263243  DT.99967252  DT.97817152  DT.100022124  DT.120912012  DT.40128661 
    DT.99977621  DT.40236568  DT.409733  DT.75102786  DT.91666774  DT.91879839 

    Selected AceView cDNA sequences (see all 134):

    AK123897 AI017478 BM802012 H68938 AA814033 AL133623 BC078146 BX640905 
    CR627396 AA382099 BQ215043 CK823327 BE044550 AA504374 AA651951 NM_019001 
    BM677611 BC048104 AI004667 AA486772 AY137776 AA504116 AK096177 CN481808 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    TryGeneCards Plus

    XRN1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTAAATGCTC
    XRN1 Expression
    About this image

    XRN1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    XRN1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.435103

    UniProtKB/Swiss-Prot: XRN1_HUMAN, Q8IZH2
    Tissue specificity: Expressed in heart, brain, pancreas, spleen, testis, osteogenic sarcoma (OGS) biopsy and
    primary cell lines

        Custom PCR Arrays for XRN1
    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for XRN1
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat XRN1
    QuantiTect SYBR Green Assays in human, mouse, rat XRN1
    QuantiFast Probe-based Assays in human, mouse, rat XRN1
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XRN1

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    TryGeneCards Plus

    This gene was present in the common ancestor of animals and fungi.

    Orthologs for XRN1 gene from Selected species (see all 22)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Xrn11 , 5 5'-3' exoribonuclease 11, 5 88.03(n)1
    88.55(a)1
      9 (50.31 cM)5
    241271  NM_011916.21  NP_036046.21 
     959547605 
    chicken
    (Gallus gallus)
    Aves XRN11 5'-3' exoribonuclease 1 77.5(n)
    78.88(a)
      424778  XM_422596.4  XP_422596.3 
    lizard
    (Anolis carolinensis)
    Reptilia XRN16
    5'-3' exoribonuclease 1
    72(a)
    1 ↔ 1
    3(21894620-21943293)
    African clawed frog
    (Xenopus laevis)
    Amphibia CA790960.12   -- 74.3(n)    CA790960.1 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc636352 similar to 5'-3' exoribonuclease 1 78.12(n)   394008  BC055175.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta pcm1 pacman 47.3(n)
    43.14(a)
      32935  NM_001169325.1  NP_001162796.1 
    worm
    (Caenorhabditis elegans)
    Secernentea xrn-11 xrn-1 49.06(n)
    44.25(a)
      175059  NM_064544.4  NP_496945.3 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes XRN1(YGL173C)4
    XRN11
    Evolutionarily-conserved 5'-3' exonuclease component more4
    XRN11
    48.77(n)1
    38.58(a)1
      7(180113-175527)4
    8527021, 4  NP_011342.11, 4 


    ENSEMBL Gene Tree for XRN1 (if available)
    TreeFam Gene Tree for XRN1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section

    TryGeneCards Plus
    Paralogs for XRN1 gene
    1 SIMAP similar gene for XRN1 using alignment to 6 protein entries:     XRN1_HUMAN (see all proteins):
    XRN2

    Find genes that share paralogs with XRN1           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
    About This Section

    TryGeneCards Plus

    Selected SNPs for XRN1 (see all 2806)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs130604371,2
    C,F--142025043(+) ataagA/Tatgac 2 -- ds500110Minor allele frequency- T:0.40NA WA EA 372
    rs1838426281,2
    --142025112(+) ACAAAC/TTGTGT 2 -- ds50010--------
    rs1421974291,2
    C--142025212(+) CCCAAA/TAACCT 2 -- ds50010--------
    rs126957571,2
    C,F,A--142025236(+) AAATTA/TAAAAA 2 -- ds50017Minor allele frequency- T:0.39NA WA EA 366
    rs1877505271,2
    --142025327(+) TGAAGA/GCTGCA 2 -- ds50010--------
    rs130614091,2
    C,F--142025340(+) GAGCCG/AAGATC 2 -- ds500110Minor allele frequency- A:0.40NA WA EA 372
    rs1998689301,2
    --142025381(+) CTCAA-/AAAC  
            
    AAACA
    2 -- ds50010--------
    rs1463807931,2
    C--142025433(+) AGTAAC/TAAAAG 2 -- ds50010--------
    rs1485891931,2
    C--142025515(+) TTAAAC/GTCTTT 2 -- ut310--------
    rs31914631,2
    C,F,H--142025524(-) GAGTCA/CCTGAA 2 -- ut31 ese33Minor allele frequency- C:0.22NS NA 286

    HapMap Linkage Disequilibrium report for XRN1 (142025449 - 142166904 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for XRN1 (see all 13):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv274294CNV Insertion20981092
    nsv237317CNV Insertion16902084
    nsv528954CNV Loss19592680
    nsv877557CNV Loss21882294
    nsv523596CNV Loss19592680
    nsv877556CNV Loss21882294
    dgv5266n71CNV Loss21882294
    dgv299n21CNV Gain19592680
    esv34483CNV Gain17911159
    esv7548CNV Gain19470904

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing XRN1
    DNA2.0 Custom Variant and Variant Library Synthesis for XRN1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    TryGeneCards Plus
    OMIM gene information: 607994    OMIM disorders: --

    1 disease for XRN1:    
    About MalaCards
    osteosarcoma


    Find genes that share disorders with XRN1           About GenesLikeMe


    Export disorders for XRN1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    TryGeneCards Plus

    PubMed articles for XRN1 gene, integrated from 10 sources (see all 38):
    (articles sorted by number of sources associating them with XRN1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci. (PubMed id 12515382)1, 2, 3 Ingelfinger D.... Achsel T. (RNA 2002)
    2. Identification of human SEP1 as a glial cell line-derived neurotrophic factor-inducible protein and its expression in the nervous system. (PubMed id 14580940)1, 2, 9 Shimoyama Y.... Takahashi M. (Neuroscience 2003)
    3. Degradation of histone mRNA requires oligouridylation followed by decapping and simultaneous degradation of the mRNA both 5' to 3' and 3' to 5'. (PubMed id 18172165)1, 2 Mullen T.E. and Marzluff W.F. (Genes Dev. 2008)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    6. Nonsense-mediated mRNA decay in mammalian cells involves decapping, deadenylating, and exonucleolytic activities. (PubMed id 14527413)1, 2 Lejeune F.... Maquat L.E. (Mol. Cell 2003)
    7. The human homolog of yeast SEP1 is a novel candidate tumor suppressor gene in osteogenic sarcoma. (PubMed id 12426100)1, 2 Zhang K....Sarkar G. (Gene 2002)
    8. Cloning and characterization of human Sep1 (hSEP1) gene and cytoplasmic localization of its product. (PubMed id 9802570)1, 2 Sato Y....Furuichi Y. (DNA Res. 1998)
    9. Exonuclease hDIS3L2 specifies an exosome-independent 3'-5' degradation pathway of human cytoplasmic mRNA. (PubMed id 23756462)2 Lubas M....Dziembowski A. (EMBO J. 2013)
    10. Degradation of initiator tRNAMet by Xrn1/2 via its accumulation in the nucleus of heat-treated HeLa cells. (PubMed id 23471000)1 Watanabe K....Ijiri K. (Nucleic Acids Res. 2013)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

    TryGeneCards Plus
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section

    TryGeneCards Plus
    Entrez Gene: 54464 HGNC: 30654 AceView: XRN1 Ensembl:ENSG00000114127 euGenes: HUgn54464
    ECgene: XRN1 Kegg: 54464 H-InvDB: XRN1

    (According to HUGE)
    About This Section

    TryGeneCards Plus
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

    TryGeneCards Plus
    NameDescription
    PharmGKB entry for XRN1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

    TryGeneCards Plus
    Patent Information for XRN1 gene:
    Search GeneIP for patents involving XRN1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from genOway)
    About This Section

    TryGeneCards Plus

     
     EMD Millipore genomic analysis products

      
     Browse Antibodies   Browse Cell Culture Products  
     Browse ELISAs   Browse Flow Cytometry Kits  
     Browse Primer Pairs   Browse Enzyme Activity Assays/Reagents  
     Browse ELISpot/FluoroSpot Kits/Development Modules   Browse TFB/Immunoprecipitation Assays  
     Browse Apoptosis Detection Kits/Reagents   Browse Ubiquitin Proteasome Pathway (UPP) Assay Kits/Reagents  
     Browse DNA Damage/Repair Kits/Reagents   Browse Luminex Assays  
     Browse Cell Selection/Detection Kits/Reagents   Browse Secondary Antibodies/Controls/Staining Reagents  
     Browse Recombinant/Natural Proteins   Browse Stem Cell Products  
     Browse cDNA Clones   Browse Proteome Profiler Antibody Arrays  
     Browse OriGene Antibodies   OriGene RNAi products in human, mouse, rat for XRN1  
     Browse OriGene qPCR primer pairs and template standards   OriGene Protein Over-expression Lysate for XRN1  
     OriGene Custom Mass Spec   OriGene clones in human, mouse for XRN1  
     OriGene qSTAR qPCR primer pairs in human, mouse for XRN1   Browse OriGene full length recombinant human proteins expressed in human HEK293 cells  
     OriGene ORF clones in mouse, rat for XRN1   OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling  
     OriGene Custom Antibody Services for XRN1   OriGene Custom Protein Services for XRN1  

     
     
     Block miRNA regulation of human, mouse, rat XRN1 using miScript Target Protectors SeqTarget long-range PCR primers for resequencing XRN1
     DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat XRN1 Predesigned siRNA for gene silencing in human, mouse, rat XRN1
     QuantiFast Probe-based Assays in human, mouse, rat XRN1 QuantiTect SYBR Green Assays in human, mouse, rat XRN1
     Custom PCR Arrays for XRN1 Search Chromatin IP Primers for XRN1
     Pre-validated RT2 qPCR Primer Assay in human, mouse, rat XRN1  Search GeneGlobe Interaction Network for XRN1
     Regulatory tfbs in XRN1 promoter
     GenScript Custom Purified and Recombinant Proteins Services for XRN1 GenScript cDNA clones with any tag delivered in your preferred vector for XRN1
     GenScript Custom Assay Services for XRN1 GenScript Custom overexpressing Cell Line Services for XRN1
     CloneReady with Over 120,000 Genes  Gene Synthesis: Any Gene in Any Vector
     Vector-based siRNA and miRNA, Ready for Transfection Gene Mutant Library, Variants up to 10^11
     Plasmid Preparation Custom Peptide Services
     Search for Antibodies & Assays

     Search Tocris compounds for XRN1
     Browse Sino Biological Proteins
     Browse Sino Biological Cell Lysates
     Browse Sino Biological cDNA Clones
     4000+ Proteins
     Search Sino Biological for antibodies, proteins & pathways
     Protein Production Services
     Transfection Reagents
     Protein A/G/L resins
     Isotyping reagents
     Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies

     Novus Tissue Slides
     XRN1 antibodies
     XRN1 proteins
     XRN1 lysates
     Search for Antibodies for XRN1 at Abcam
     See all of Abcam's Antibodies, Kits and Proteins for XRN1
     Custom Antibody / Protein Production Service
     Bulk Purchasing
     Advantages of Rabbit Monoclonal antibodies
     Abcam protocols and scientific support
     Browse ProSpec Recombinant Proteins
     Proteins for XRN1
     Antibodies for XRN1
     ELISAs for XRN1
     CLIAs for XRN1



     Browse ESI BIO Cell Lines and PureStem Progenitors for XRN1
     Gene Synthesis
     Protein Engineering
     Variant Library Synthesis
     Codon Optimization
     Protein Production and Purification
     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XRN1
     Browse SwitchGear 3'UTR luciferase reporter plasmids for XRN1
     SwitchGear Promoter luciferase reporter plasmids for XRN1
     Search ThermoFisher Antibodies for XRN1
     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XRN1
     Browse compounds at ApexBio
     Search Addgene for plasmids for XRN1
      Search eBioscience for proteins for XRN1
      Search eBioscience for elisas for XRN1
      eBioscience FlowRNA Probe Sets
     genOway: Develop your customized and physiologically relevant rodent model for XRN1
     antibodies-online antibodies for XRN1 (6 products)
     antibodies-online kits for XRN1 (2 products)
     antibodies-online peptides for XRN1
     antibodies-online proteins for XRN1 (2 products)
           
    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

    View Random Gene

    Category
    (GIFtS: )
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


    Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

    Hot genes      Disease genes      XRN1 gene at Home site.
    Version: 3.12.258 10 Dec 2014
    hostname: 356980-web2.xennexinc.com index build: 128 solr: 1.4