Set Analyses:
Advanced Search

Advanced Search

 
Search By
Section (entire)
for


 
or upload a file of gene symbols


Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

UPF2 Gene

protein-coding   GIFtS: 60
GCID: GC10M011962

UPF2 Regulator Of Nonsense Transcripts Homolog (Yeast)

Alzheimer's & Parkinson's Diseases Congress
  See related diseases
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

Aliases
UPF2 Regulator Of Nonsense Transcripts Homolog (Yeast)1 2     Regulator Of Nonsense Transcripts 22
RENT22 3 5     smg-32
Nonsense MRNA Reducing Factor 22 3     Smg-3 Homolog, Nonsense Mediated MRNA Decay Factor2
Up-Frameshift Suppressor 2 Homolog2 3     Yeast Upf2p Homolog2
Nonsense Mediated MRNA Decay Factor (C. Elegans)1     KIAA14083
Smg-3 Homolog1     hUpf23
HUPF22     

External Ids:    HGNC: 178541   Entrez Gene: 260192   Ensembl: ENSG000001514617   OMIM: 6055295   UniProtKB: Q9HAU53   

Export aliases for UPF2 gene to outside databases

Previous GC identifers: GC10M011925 GC10M012112 GC10M011966 GC10M012002 GC10M011879


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

Entrez Gene summary for UPF2 Gene:
This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear
export and mRNA surveillance. mRNA surveillance detects exported mRNAs with truncated open reading frames and
initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction,
this triggers NMD to degrade mRNAs containing premature stop codons. This protein is located in the perinuclear
area. It interacts with translation release factors and the proteins that are functional homologs of yeast Upf1p
and Upf3p. Two splice variants have been found for this gene; both variants encode the same protein. (provided by
RefSeq, Jul 2008)

GeneCards Summary for UPF2 Gene: 
UPF2 (UPF2 regulator of nonsense transcripts homolog (yeast)) is a protein-coding gene. Diseases associated with UPF2 include diarrhea, and cholera, and among its related super-pathways are Metabolism of RNA and Nonsense Mediated Decay Independent of the Exon Junction Complex. GO annotations related to this gene include RNA binding and DNA binding.

UniProtKB/Swiss-Prot: RENT2_HUMAN, Q9HAU5
Function: Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by associating with
the nuclear exon junction complex (EJC). Recruited by UPF3B associated with the EJC core at the cytoplasmic side
of the nuclear envelope and the subsequent formation of an UPF1-UPF2-UPF3 surveillance complex (including UPF1
bound to release factors at the stalled ribosome) is believed to activate NMD. In cooperation with UPF3B
stimulates both ATPase and RNA helicase activities of UPF1. Binds spliced mRNA

Gene Wiki entry for UPF2 Gene


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000010.10  NC_018921.2  NT_008705.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the UPF2 gene promoter:
         MZF-1   POU2F1   Pax-5   Egr-1   POU2F1a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidUPF2 promoter sequence
   Search SABiosciences Chromatin IP Primers for UPF2

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat UPF2


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

Entrez Gene cytogenetic band: 10p14-p13   Ensembl cytogenetic band:  10p14   HGNC cytogenetic band: 10p14-p13

UPF2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
UPF2 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M011962:  view genomic region     (about GC identifiers)

Start:
11,962,021 bp from pter      End:
12,085,169 bp from pter
Size:
123,149 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: RENT2_HUMAN, Q9HAU5 (See protein sequence)
Recommended Name: Regulator of nonsense transcripts 2  
Size: 1272 amino acids; 147810 Da
Subunit: Found in a post-splicing messenger ribonucleoprotein (mRNP) complex. Associates with the exon junction
complex (EJC). Interacts with SMG1, EST1A, UPF1, UPF3A, UPF3B, EIF4A1 and EIF1
Subcellular location: Cytoplasm, perinuclear region
Sequence caution: Sequence=BAA92646.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
2 PDB 3D structures from and Proteopedia for UPF2:
1UW4 (3D)        2WJV (3D)    
Secondary accessions: A6NLJ5 D3DRS0 Q14BM1 Q5W0J4 Q8N8U1 Q9H1J2 Q9NWL1 Q9P2D9 Q9Y4M9
Alternative splicing: 2 isoforms:  Q9HAU5-1   Q9HAU5-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for UPF2: NX_Q9HAU5

Explore proteomics data for UPF2 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9HAU5

  • UPF2 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    UPF2 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_056357.1  NP_542166.1  

    ENSEMBL proteins: 
     ENSP00000348708   ENSP00000350221   ENSP00000380244  
    Reactome Protein details: Q9HAU5
    Human Recombinant Protein Products for UPF2: 
    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
    OriGene Purified Protein for UPF2
    Browse OriGene Protein Over-expression Lysates
    OriGene MassSpec for UPF2 
    OriGene Custom Protein Services for UPF2
    GenScript Custom Purified and Recombinant Proteins Services for UPF2
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 5 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA14636577
    GO:0005737cytoplasm IDA14636577
    GO:0005829cytosol TAS--
    GO:0035145exon-exon junction complex IDA16601204
    GO:0048471perinuclear region of cytoplasm IEA--

    UPF2 for ontologies           About GeneDecksing



    UPF2 Antibody Products: 
    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse R&D Systems for Antibodies
    Cell Signaling Technology (CST) Antibodies for UPF2 
    Browse OriGene Antibodies
    OriGene Custom Antibody Services for UPF2
    GenScript Custom Superior Antibodies Services for UPF2
    Novus Biologicals UPF2 Antibodies
    Abcam antibodies for UPF2
    Browse Antibodies at Cloud-Clone Corp. 
    ThermoFisher Antibodies for UPF2
    LSBio Antibodies in human, mouse, rat for UPF2 

    Assay Products for UPF2: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for UPF2
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for UPF2
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp. 
    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    4 InterPro protein domains:
     IPR003890 MIF4G-like_typ-3
     IPR016021 MIF4-like_typ_1/2/3
     IPR007193 Up-fram_suppressor-2
     IPR016024 ARM-type_fold

    Graphical View of Domain Structure for InterPro Entry Q9HAU5

    ProtoNet protein and cluster: Q9HAU5

    1 Blocks protein domain: IPB003890 Initiation factor eIF-4 gamma

    UniProtKB/Swiss-Prot: RENT2_HUMAN, Q9HAU5
    Similarity: Contains 3 MIF4G domains


    UPF2 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: RENT2_HUMAN, Q9HAU5
    Function: Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by associating with
    the nuclear exon junction complex (EJC). Recruited by UPF3B associated with the EJC core at the cytoplasmic side
    of the nuclear envelope and the subsequent formation of an UPF1-UPF2-UPF3 surveillance complex (including UPF1
    bound to release factors at the stalled ribosome) is believed to activate NMD. In cooperation with UPF3B
    stimulates both ATPase and RNA helicase activities of UPF1. Binds spliced mRNA

         Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0003723RNA binding IEA--
    GO:0005488binding ----
    GO:0005515protein binding IPI11163187
         
    UPF2 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for UPF2:
     High actin ratio cells 

         4 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Upf2):
     cellular  hematopoietic system  immune system  mortality/aging 

    UPF2 for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Upf2tm1.1Btp for UPF2

       inGenious Targeting Laboratory - Custom generated mouse model solutions for UPF2 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for UPF2

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for UPF2 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for UPF2 

    miRNA
    Products:
        
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat UPF2
    8/23 QIAGEN miScript miRNA Assays for microRNAs that regulate UPF2 (see all 23):
    hsa-miR-485-5p hsa-miR-576-3p hsa-miR-1287 hsa-miR-4254 hsa-miR-4299 hsa-miR-103a hsa-miR-1273d hsa-miR-320e
    SwitchGear 3'UTR luciferase reporter plasmidUPF2 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for UPF2
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat UPF2

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for UPF2
    Sirion Biotech Customized adenovirus for overexpression of UPF2

    Clone
    Products:
         
    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for UPF2 (see all 13)
    OriGene ORF clones in mouse, rat for UPF2
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): UPF2 (NM_080599)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for UPF2
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UPF2
    Sirion Biotech Customized lentivirus for stable overexpression of UPF2 
                         Customized lentivirus expression plasmids for stable overexpression of UPF2 

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for UPF2
    Search LifeMap BioReagents cell lines for UPF2
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UPF2


    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for UPF2 About   (see all 6)                                                                                              See pathways by source

    SuperPathContained pathways About
    1Metabolism of mRNA
    Metabolism of mRNA0.92
    Metabolism of RNA0.92
    2Viral mRNA Translation
    Nonsense-Mediated Decay0.84
    Nonsense Mediated Decay Enhanced by the Exon Junction Complex0.84
    3Generic Transcription Pathway
    Gene Expression0.47
    4mRNA surveillance pathway
    mRNA surveillance pathway
    5RNA transport
    RNA transport

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for UPF2
        Translational Control

    5        Reactome Pathways for UPF2
        Nonsense-Mediated Decay
    Nonsense Mediated Decay Enhanced by the Exon Junction Complex
    Metabolism of RNA
    Metabolism of mRNA
    Gene Expression


    2         Kegg Pathways  (Kegg details for UPF2):
        RNA transport
    mRNA surveillance pathway


    UPF2 for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for UPF2

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

    5/895 Interacting proteins for UPF2 (Q9HAU51, 2, 3 ENSP000003487084) via UniProtKB, MINT, STRING, and/or I2D (see all 895)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UPF1Q929001, 2, 3, ENSP000002628034EBI-372073,EBI-373471 MINT-6539840 MINT-7904432 MINT-6539908 MINT-7904445 MINT-7945693 MINT-7904564 MINT-4791496 MINT-7904530 MINT-6539883 MINT-7904547 MINT-7904417 MINT-7904495 MINT-7904598 MINT-7947479 MINT-6539859 MINT-7904478 MINT-7904581 MINT-7904403 MINT-7904512 MINT-7904458 I2D: score=9 STRING: ENSP00000262803
    UPF3BQ9BZI71, 2, 3, ENSP000002762014EBI-372073,EBI-372780 MINT-51076 I2D: score=6 STRING: ENSP00000276201
    SMG1Q96Q151, 2, 3, ENSP000004025154EBI-372073,EBI-1049832 MINT-6539908 I2D: score=3 STRING: ENSP00000402515
    XRN2Q9H0D62, 3, ENSP000003663964MINT-7945693 MINT-7947479 I2D: score=4 STRING: ENSP00000366396
    INTS6Q9UL032, 3, ENSP000003102604MINT-4791485 MINT-7947479 I2D: score=1 STRING: ENSP00000310260
    About this table

    Gene Ontology (GO): 5/7 biological process terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000184nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS16488880
    GO:0001889liver development IEA--
    GO:0006406mRNA export from nucleus TAS16488880
    GO:0010467gene expression TAS--
    GO:0016070RNA metabolic process TAS--

    UPF2 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    UPF2 for compounds           About GeneDecksing

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

    Browse Tocris compounds for UPF2 (RENT2)

    4 Novoseek inferred chemical compound relationships for UPF2 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    nitrobenzylthioinosine 79.1 2 9353301 (1), 11139404 (1)
    uridine 56 5 11139404 (3), 9353301 (1)
    nucleoside 52.2 5 17473446 (2), 9353301 (1), 11463208 (1), 11139404 (1)
    purine 32 1 17473446 (1)

    Search CenterWatch for drugs/clinical trials and news about UPF2 / RENT2

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for UPF2 gene (2 alternative transcripts): 
    NM_015542.3  NM_080599.2  

    Unigene Clusters for UPF2:

    UPF2 regulator of nonsense transcripts homolog (yeast)
    Hs.370689  [show with all ESTs], Hs.732383  [show with all ESTs]
    Unigene Representative Sequences: AB037829, AL599503
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000356352(uc001ila.3) ENST00000357604(uc001ilb.3 uc009xiz.2)
    ENST00000460569 ENST00000397053(uc001ilc.3)

    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat UPF2
    8/23 QIAGEN miScript miRNA Assays for microRNAs that regulate UPF2 (see all 23):
    hsa-miR-485-5p hsa-miR-576-3p hsa-miR-1287 hsa-miR-4254 hsa-miR-4299 hsa-miR-103a hsa-miR-1273d hsa-miR-320e
    SwitchGear 3'UTR luciferase reporter plasmidUPF2 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for UPF2
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat UPF2
    Clone
    Products:
         
    OriGene clones in human, mouse for UPF2 (see all 13)
    OriGene ORF clones in mouse, rat for UPF2
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): UPF2 (NM_080599)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for UPF2
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UPF2
    Sirion Biotech Customized lentivirus for stable overexpression of UPF2 
                         Customized lentivirus expression plasmids for stable overexpression of UPF2 
    Primer
    Products:
        
    OriGene qSTAR qPCR primer pairs in human, mouse for UPF2
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat UPF2
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat UPF2
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat UPF2

    Additional mRNA sequence: BC090919.1 

    7 DOTS entries:

    DT.213018  DT.40106488  DT.97804808  DT.100783355  DT.100783357  DT.95374332  DT.92433417 

    24/148 AceView cDNA sequences (see all 148):

    AA812010 AA356414 BQ668797 BQ669447 AA228024 BU687824 BG032639 BM817711 
    AA535009 AA554117 BF663326 AK000764 BQ674836 AI335692 AA228097 AY013249 
    BQ059792 NM_015542 N92751 AB037829 BG201896 AA256995 BM979768 CA448412 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for UPF2    About this scheme

    ExUns: 1 ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^
    SP1:                                                                                                                                                            
    SP2:                    -                                               -     -     -     -     -     -     -     -     -     -     -     -     -     -     -   
    SP3:        -                                                                                                                                                   

    ExUns: 25
    SP1:      
    SP2:      
    SP3:      


    ECgene alternative splicing isoforms for UPF2

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    UPF2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GAAATGCTGC
    UPF2 Expression
    About this image


    See UPF2 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for UPF2

    SOURCE GeneReport for Unigene clusters: Hs.370689 Hs.732383

    UniProtKB/Swiss-Prot: RENT2_HUMAN, Q9HAU5
    Tissue specificity: Ubiquitous

        SABiosciences Custom PCR Arrays for UPF2
    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for UPF2
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat UPF2
    QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat UPF2
    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat UPF2
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UPF2

    (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

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for UPF2 gene from 9/22 species (see all 22)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Upf21 , 5 UPF2 regulator of nonsense transcripts homolog (yeast)1, 5 91.7(n)1
    97.16(a)1
      2 (3.62 cM)5
    3266221  NM_001081132.11  NP_001074601.11 
     59514695 
    chicken
    (Gallus gallus)
    Aves UPF21 UPF2 regulator of nonsense transcripts homolog (yeast) 85.05(n)
    93.38(a)
      419100  XM_417288.3  XP_417288.3 
    lizard
    (Anolis carolinensis)
    Reptilia UPF26
    UPF2 regulator of nonsense transcripts homolog (ye...
    92(a)
    1 ↔ 1
    GL343349.1(620232-671553)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.149372 Xenopus laevis transcribed sequence with strong similarity more 83.2(n)    BJ061948.1 
    zebrafish
    (Danio rerio)
    Actinopterygii upf21 UPF2 regulator of nonsense transcripts homolog (yeast) 70.04(n)
    80(a)
      569006  XM_692368.5  XP_697460.5 
    fruit fly
    (Drosophila melanogaster)
    Insecta Upf21 CG2253-PA 47.05(n)
    39.82(a)
      31724  NM_132206.2  NP_572434.1 
    worm
    (Caenorhabditis elegans)
    Secernentea smg-36
    Protein SMG-3, isoform a
    25(a)
    1 ↔ 1
    IV(6362395-6373087)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes NMD2(YHR077C)4
    NMD21
    Protein involved in the nonsense-mediated mRNA decay more4
    Nmd2p1
    45.13(n)1
    26.76(a)1
      8(255756-252374)4
    8564761, 4  NP_011944.21, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G392601 RNA binding protein 49.78(n)
    39.91(a)
      818511  NM_129484.4  NP_181459.4 


    ENSEMBL Gene Tree for UPF2 (if available)
    TreeFam Gene Tree for UPF2 (if available)

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

    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/2764 SNPs in UPF2 are shown (see all 2764)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2005063881,2
    C--11961627(+) TTTTG-/TTTTTT 2 -- ds50010--------
    rs1402731621,2
    --11961645(+) CGGAGG/TCTGGC 2 -- ds50010--------
    rs127803921,2
    C--11961678(+) AGTGGT/CGCGAT 2 -- ds50015Minor allele frequency- C:0.10NA 10
    rs1905721651,2
    --11961779(+) CGCCCA/GGCTAA 2 -- ds50010--------
    rs1817303981,2
    --11961798(+) ATTTTC/TAGTAC 2 -- ds50010--------
    rs1864338211,2
    --11961800(+) TTTTAG/TTACAG 2 -- ds50010--------
    rs1910510341,2
    C--11961809(+) AGATGC/GTGTTT 2 -- ds50010--------
    rs1824009141,2
    --11961830(+) GCCAGA/GATGGT 2 -- ds50010--------
    rs1879357121,2
    --11961832(+) CAGGAC/TGGTCT 2 -- ds50010--------
    rs47479531,2
    C,H--11961844(+) GATCTC/TCTGAC 2 -- ds500110Minor allele frequency- T:0.00NA WA CSA 17

    HapMap Linkage Disequilibrium report for UPF2 (11962021 - 12085169 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for UPF2:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv894876CNV Loss21882294
    nsv831785CNV Gain17160897
    nsv523183CNV Gain19592680
    nsv894879CNV Gain21882294
    dgv37n21CNV Gain19592680

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing UPF2
    DNA2.0 Custom Variant and Variant Library Synthesis for UPF2

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 605529    OMIM disorders: --

    4 diseases for UPF2:    About MalaCards
    diarrhea    cholera    alzheimer's disease    colorectal cancer


    UPF2 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015
    Genetic Association Database (GAD): UPF2
    Human Genome Epidemiology (HuGE) Navigator: UPF2 (2 documents)

    Export disorders for UPF2 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

    PubMed articles for UPF2 gene, integrated from 9 sources (see all 67):
    (articles sorted by number of sources associating them with UPF2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification and characterization of human orthologues to Saccharomyces cerevisiae Upf2 protein and Upf3 protein (Caenorhabditis elegans SMG-4). (PubMed id 11113196)1, 2, 3, 9 Serin G....Maquat L.E. (2001)
    2. Novel Upf2p orthologues suggest a functional link between translation initiation and nonsense surveillance complexes. (PubMed id 11073994)1, 2, 3 Mendell J.T.... Dietz H.C. (2000)
    3. NMD factors UPF2 and UPF3 bridge UPF1 to the exon junction complex and stimulate its RNA helicase activity. (PubMed id 18066079)1, 2, 9 Chamieh H....Le Hir H. (2008)
    4. The structural basis for the interaction between nonsense-mediated mRNA decay factors UPF2 and UPF3. (PubMed id 15004547)1, 2, 9 Kadlec J.... Cusack S. (2004)
    5. Characterization of human Smg5/7a: a protein with similarities to Caenorhabditis elegans SMG5 and SMG7 that functions in the dephosphorylation of Upf1. (PubMed id 12554878)1, 2, 9 Chiu S.-Y.... Maquat L.E. (2003)
    6. Exon-junction complex components specify distinct routes of nonsense- mediated mRNA decay with differential cofactor requirements. (PubMed id 16209946)1, 2, 9 Gehring N.H.... Kulozik A.E. (2005)
    7. Human Upf proteins target an mRNA for nonsense-mediated decay when bound downstream of a termination codon. (PubMed id 11163187)1, 2, 9 Lykke-Andersen J....Steitz J.A. (2000)
    8. Binding of a novel SMG-1-Upf1-eRF1-eRF3 complex (SURF) to the exon junction complex triggers Upf1 phosphorylation and nonsense-mediated mRNA decay. (PubMed id 16452507)1, 2, 9 Kashima I....Ohno S. (2006)
    9. A genome-wide search for loci interacting with known p rostate cancer risk-associated genetic variants. (PubMed id 22219177)1, 4 Tao S....Sun J. (2012)
    10. Unusual bipartite mode of interaction between the non sense-mediated decay factors, UPF1 and UPF2. (PubMed id 19556969)1, 2 Clerici M....Cusack S. (2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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
    Entrez Gene: 26019 HGNC: 17854 AceView: UPF2 Ensembl:ENSG00000151461 euGenes: HUgn26019
    ECgene: UPF2 Kegg: 26019 H-InvDB: UPF2

    (According to HUGE)
    About This Section
    HUGE: KIAA1408

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for UPF2 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for UPF2 gene:
    Search GeneIP for patents involving UPF2

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
     EMD Millipore Custom Antibody & Bulk Services
     EMD Millipore Preclinical / Clinical Development Services
     EMD Millipore Immunoassay Services
     EMD Millipore Target Screening & Profiling Services

      
     Browse Antibodies   Browse Cell Culture Products  
     Browse ELISAs   Browse Flow Cytometry Kits  
     Browse Primer Pairs   Browse Kinase Activity Assays/Reagents  
     Browse ELISpot 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 Multiplex/Array Assay Kits/Reagents  
     Browse Cell Selection/Detection Kits/Reagents   Browse Secondary Antibodies/Controls/Staining Reagents  
     Browse Protease Activity Assays and Reagents   Browse Recombinant/Natural Proteins  
     Browse Stem Cell Products   Browse Tocris Biochemicals & Compounds  
     Browse cDNA Clones   Browse Proteome Profiler Antibody Arrays  
     Browse OriGene Antibodies   OriGene RNAi products in human, mouse, rat for UPF2  
     Browse OriGene qPCR primer pairs and template standards   Browse OriGene Protein Over-expression Lysates  
     OriGene MassSpec something-or-other for UPF2   OriGene clones in human, mouse for UPF2  
     OriGene qSTAR qPCR primer pairs in human, mouse for UPF2   OriGene Purified Protein for UPF2  
     OriGene ORF clones in mouse, rat for UPF2   OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling  
     OriGene Custom Antibody Services for UPF2   OriGene Custom Protein Services for UPF2  

     
     
     QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat UPF2
     QIAGEN SeqTarget long-range PCR primers for resequencing UPF2
     QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat UPF2
     QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat UPF2
     QIAGEN QuantiFast Probe-based Assays in human, mouse, rat UPF2
     QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat UPF2
     GenScript Custom Purified and Recombinant Proteins Services for UPF2 GenScript cDNA clones with any tag delivered in your preferred vector for UPF2
     GenScript Custom Assay Services for UPF2 GenScript Custom Superior Antibodies Services for UPF2
     GenScript Custom overexpressing Cell Line Services for UPF2 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
     Antibodies & Assays for UPF2 

     Regulatory tfbs in UPF2 promoter
     Search Chromatin IP Primers for UPF2
     RT2 qPCR Primer Assay in human, mouse, rat UPF2
     GNC Network for UPF2
     SABiosciences Custom PCR Arrays for UPF2
     Search Tocris compounds for UPF2 (RENT2)
     Browse Sino Biological Proteins and Antibodies
     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
     UPF2 antibodies
     Antibodies for UPF2
     See all of Abcam's Antibodies, Kits and Proteins for UPF2
     Custom Antibody / Protein Production Service
     Bulk Purchasing
     Advantages of Rabbit Monoclonal antibodies
     Abcam protocols and scientific support
     Browse ProSpec Recombinant Proteins




     Browse Proteins at Cloud-Clone Corp.
     Browse Antibodies at Cloud-Clone Corp.
     Browse ELISAs at Cloud-Clone Corp.
     Browse CLIAs at Cloud-Clone Corp.
     Search LifeMap BioReagents cell lines for UPF2
     Gene Synthesis
     Protein Engineering
     Variant Library Synthesis
     Codon Optimization
     Protein Production and Purification
     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UPF2
     SwitchGear 3'UTR luciferase reporter plasmids for UPF2
     SwitchGear Promoter luciferase reporter plasmids for UPF2
     ThermoFisher Antibodies for UPF2
     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UPF2
     inGenious Targeting Laboratory - Custom generated mouse model solutions for UPF2
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for UPF2
    Customized:
     lentivirus for stable overexpression of UPF2
     lentivirus expression plasmids for stable overexpression of UPF2
     adenovirus for overexpression of UPF2
     LSBio Antibodies in human, mouse, rat for UPF2
    Customized transgenic rodents for:
     Humanization
     Biomarker expression
     Off-target effect monitoring
     Translational medicine
     Tissue-specific gene expresssion
     Time-controlled gene expresssion
           
    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

    View Random Gene

    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 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      UPF2 gene at Home site.
    hostname: 356980-web2.xennexinc.com index build: 106 solr: 1.4