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

UPF3A Gene

protein-coding   GIFtS: 53
GCID: GC13P115047

UPF3 Regulator Of Nonsense Transcripts Homolog A (Yeast)

  See 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

Aliases
UPF3 Regulator Of Nonsense Transcripts Homolog A (Yeast)1 2     UPF32 3
RENT3A2 3 5     hUpf32 3
Nonsense MRNA Reducing Factor 3A2 3     HUPF3A2
Up-Frameshift Suppressor 3 Homolog A2 3     Regulator Of Nonsense Transcripts 3A2

External Ids:    HGNC: 203321   Entrez Gene: 651102   Ensembl: ENSG000001690627   OMIM: 6055305   UniProtKB: Q9H1J13   

Export aliases for UPF3A gene to outside databases

Previous GC identifers: GC13P113408 GC13P111235 GC13P114068 GC13P112965 GC13P114065 GC13P095309


(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 UPF3A Gene:
This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear
export and mRNA surveillance. The encoded protein is one of two functional homologs to yeast Upf3p. 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 binds to the mRNA and remains bound after nuclear export, acting
as a nucleocytoplasmic shuttling protein. It forms with Y14 a complex that binds specifically 20 nt upstream of
exon-exon junctions. This gene is located on the long arm of chromosome 13. Two splice variants encoding
different isoforms have been found for this gene. (provided by RefSeq, Jul 2008)

GeneCards Summary for UPF3A Gene: 
UPF3A (UPF3 regulator of nonsense transcripts homolog A (yeast)) is a protein-coding gene. Diseases associated with UPF3A include mental retardation, 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 nucleocytoplasmic transporter activity and RNA binding. An important paralog of this gene is UPF3B.

UniProtKB/Swiss-Prot: REN3A_HUMAN, Q9H1J1
Function: Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by associating with
the nuclear exon junction complex (EJC) and serving as link between the EJC core and NMD machinery. Recruits UPF2
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. However,
UPF3A is shown to be only marginally active in NMD as compared to UPF3B. Binds spliced mRNA upstream of exon-exon
junctions. In vitro, weakly stimulates translation

Gene Wiki entry for UPF3A 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_000013.10  NT_024498.12  NC_018924.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the UPF3A gene promoter:
         NF-1   NF-1/L   AML1a   STAT5A   Nkx5-1   AP-2gamma   c-Ets-1   Evi-1   COMP1   PPAR-gamma2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidUPF3A promoter sequence
   Search SABiosciences Chromatin IP Primers for UPF3A

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat UPF3A


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

Entrez Gene cytogenetic band: 13q34   Ensembl cytogenetic band:  13q34   HGNC cytogenetic band: 13q34

UPF3A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
UPF3A gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13P115047:  view genomic region     (about GC identifiers)

Start:
115,047,059 bp from pter      End:
115,071,292 bp from pter
Size:
24,234 bases      Orientation:
plus 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: REN3A_HUMAN, Q9H1J1 (See protein sequence)
Recommended Name: Regulator of nonsense transcripts 3A  
Size: 476 amino acids; 54696 Da
Subunit: Found in a post-splicing messenger ribonucleoprotein (mRNP) complex. Associates with the exon junction
complex (EJC). Interacts with UPF2 and RBM8A
Subcellular location: Nucleus. Cytoplasm. Note=Shuttling between the nucleus and the cytoplasm
1 PDB 3D structure from and Proteopedia for UPF3A:
2L08 (3D)    
Secondary accessions: A2A366 Q5T8C3 Q5T8C9 Q7Z6N3 Q86YK1 Q9BZI8
Alternative splicing: 3 isoforms:  Q9H1J1-1   Q9H1J1-2   Q9H1J1-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for UPF3A: NX_Q9H1J1

Explore proteomics data for UPF3A at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9H1J1

  • UPF3A Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    UPF3A Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_075387.1  NP_542418.1  

    ENSEMBL proteins: 
     ENSP00000364448   ENSP00000329592  
    Reactome Protein details: Q9H1J1
    Human Recombinant Protein Products for UPF3A: 
    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 UPF3A
    OriGene Protein Over-expression Lysate for UPF3A
    OriGene MassSpec for UPF3A 
    OriGene Custom Protein Services for UPF3A
    GenScript Custom Purified and Recombinant Proteins Services for UPF3A
    Novus Biologicals UPF3A Proteins
    Novus Biologicals UPF3A Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 5/6 cellular component terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus NAS11163187
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm NAS11163187
    GO:0005829cytosol TAS--
    GO:0005886plasma membrane IDA--

    UPF3A for ontologies           About GeneDecksing



    UPF3A 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 UPF3A
    GenScript Custom Superior Antibodies Services for UPF3A
    Novus Biologicals UPF3A Antibodies
    Abcam antibodies for UPF3A
    Browse Antibodies at Cloud-Clone Corp. 
    Search ThermoFisher Antibodies for UPF3A
    LSBio Antibodies in human, mouse, rat for UPF3A 

    Assay Products for UPF3A: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for UPF3A
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for UPF3A
    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
    2 InterPro protein domains:
     IPR005120 Nonsense_mediated_decay_UPF3
     IPR012677 Nucleotide-bd_a/b_plait

    Graphical View of Domain Structure for InterPro Entry Q9H1J1

    ProtoNet protein and cluster: Q9H1J1

    UniProtKB/Swiss-Prot: REN3A_HUMAN, Q9H1J1
    Similarity: Belongs to the RENT3 family


    UPF3A 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: REN3A_HUMAN, Q9H1J1
    Function: Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by associating with
    the nuclear exon junction complex (EJC) and serving as link between the EJC core and NMD machinery. Recruits UPF2
    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. However,
    UPF3A is shown to be only marginally active in NMD as compared to UPF3B. Binds spliced mRNA upstream of exon-exon
    junctions. In vitro, weakly stimulates translation

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003723RNA binding IEA--
    GO:0005487nucleocytoplasmic transporter activity NAS11163187
    GO:0005515protein binding IPI11163187
         
    UPF3A for ontologies           About GeneDecksing


    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for UPF3A 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for UPF3A

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for UPF3A 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for UPF3A 

    miRNA
    Products:
        
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat UPF3A
    8/22 QIAGEN miScript miRNA Assays for microRNAs that regulate UPF3A (see all 22):
    hsa-miR-520e hsa-miR-302d hsa-miR-520f hsa-miR-106a hsa-miR-302e hsa-miR-520a-3p hsa-miR-372 hsa-miR-93
    SwitchGear 3'UTR luciferase reporter plasmidUPF3A 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for UPF3A
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat UPF3A

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for UPF3A
    Sirion Biotech Customized adenovirus for overexpression of UPF3A

    Clone
    Products:
         
    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for UPF3A (see all 13)
    OriGene ORF clones in mouse, rat for UPF3A
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): UPF3A (NM_023011)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for UPF3A
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UPF3A
    Sirion Biotech Customized lentivirus for stable overexpression of UPF3A 
                         Customized lentivirus expression plasmids for stable overexpression of UPF3A 

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for UPF3A
    Search LifeMap BioReagents cell lines for UPF3A
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UPF3A


    (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 UPF3A About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Metabolism of mRNA
    Metabolism of RNA0.92
    Metabolism of mRNA0.92
    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


    5        Reactome Pathways for UPF3A
        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 UPF3A):
        RNA transport
    mRNA surveillance pathway


    UPF3A for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for UPF3A

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

    5/95 Interacting proteins for UPF3A (Q9H1J11, 2, 3 ENSP000003644484) via UniProtKB, MINT, STRING, and/or I2D (see all 95)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UPF1Q929001, 2, 3, ENSP000002628034EBI-521530,EBI-373471 MINT-6539908 I2D: score=3 STRING: ENSP00000262803
    PIGTQ969N22, 3, ENSP000002790364MINT-65103 I2D: score=4 STRING: ENSP00000279036
    RBM8AQ9Y5S91, 3, ENSP000003330014EBI-521530,EBI-447231 I2D: score=4 STRING: ENSP00000333001
    UPF2Q9HAU52, 3, ENSP000003487084MINT-6539908 I2D: score=1 STRING: ENSP00000348708
    SMG1Q96Q152, 3, ENSP000004025154MINT-6539908 I2D: score=3 STRING: ENSP00000402515
    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 TAS--
    GO:0006913nucleocytoplasmic transport NAS11163187
    GO:0010467gene expression TAS--
    GO:0016070RNA metabolic process TAS--
    GO:0016071mRNA metabolic process TAS--

    UPF3A 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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for UPF3A (REN3A)

    Search CenterWatch for drugs/clinical trials and news about UPF3A / REN3A

    (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 UPF3A gene (2 alternative transcripts): 
    NM_023011.3  NM_080687.2  

    Unigene Cluster for UPF3A:

    UPF3 regulator of nonsense transcripts homolog A (yeast)
    Hs.533855  [show with all ESTs]
    Unigene Representative Sequence: NM_023011
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000375299(uc010tkn.2 uc001vup.3 uc001vuq.3 uc001vur.3 uc001vut.3 uc001vuu.3)
    ENST00000492270 ENST00000351487 ENST00000484246 ENST00000480362 ENST00000474056
    ENST00000493727 ENST00000481131 ENST00000479712 ENST00000475218
    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat UPF3A
    8/22 QIAGEN miScript miRNA Assays for microRNAs that regulate UPF3A (see all 22):
    hsa-miR-520e hsa-miR-302d hsa-miR-520f hsa-miR-106a hsa-miR-302e hsa-miR-520a-3p hsa-miR-372 hsa-miR-93
    SwitchGear 3'UTR luciferase reporter plasmidUPF3A 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for UPF3A
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat UPF3A
    Clone
    Products:
         
    OriGene clones in human, mouse for UPF3A (see all 13)
    OriGene ORF clones in mouse, rat for UPF3A
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): UPF3A (NM_023011)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for UPF3A
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UPF3A
    Sirion Biotech Customized lentivirus for stable overexpression of UPF3A 
                         Customized lentivirus expression plasmids for stable overexpression of UPF3A 
    Primer
    Products:
        
    OriGene qSTAR qPCR primer pairs in human, mouse for UPF3A
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat UPF3A
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat UPF3A
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat UPF3A

    Additional mRNA sequence: 

    AF318575.1 AK001069.1 AK302003.1 AY013250.1 BC008694.1 BC023569.1 

    24/29 DOTS entries (see all 29):

    DT.97847674  DT.40198088  DT.95100773  DT.40218661  DT.120791649  DT.75173882  DT.100792369  DT.75123646 
    DT.97847675  DT.91852926  DT.100792370  DT.95124464  DT.100672126  DT.102831760  DT.102831761  DT.95124461 
    DT.100027895  DT.120791613  DT.120791648  DT.91796201  DT.95124460  DT.97766040  DT.97847677  DT.100027894 

    24/262 AceView cDNA sequences (see all 262):

    CA337766 BM460042 CD722111 AI206468 AW197446 CA435562 CA438773 AA808165 
    BE795988 BC047735 BM720131 AI673242 AI972578 AY013250 BU608678 AA452506 
    AW090497 BM503819 AI554217 AI561013 AA682645 BG121109 AI081872 BU737129 

    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™, 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

    UPF3A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GTTTAAGAAT
    UPF3A Expression
    About this image


    See UPF3A Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for UPF3A

    SOURCE GeneReport for Unigene cluster: Hs.533855

    UniProtKB/Swiss-Prot: REN3A_HUMAN, Q9H1J1
    Tissue specificity: Isoform 1 is strongly expressed in testis, uterus, muscle, fetal brain and spinal cord.
    Isoform 2 is strongly expressed in fetal brain and spinal cord

        SABiosciences Custom PCR Arrays for UPF3A
    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for UPF3A
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat UPF3A
    QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat UPF3A
    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat UPF3A
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UPF3A

    (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 animals.

    Orthologs for UPF3A gene from 6/13 species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Upf3a1 , 5 UPF3 regulator of nonsense transcripts homolog A (yeast)1, 5 76.43(n)1
    73.1(a)1
      8 (6.38 cM)5
    670311  NM_025924.21  NP_080200.11 
     137856155 
    chicken
    (Gallus gallus)
    Aves UPF3A1 UPF3 regulator of nonsense transcripts homolog A (yeast) 72.34(n)
    67.66(a)
      418734  XM_416933.3  XP_416933.2 
    lizard
    (Anolis carolinensis)
    Reptilia UPF3A6
    Uncharacterized protein
    65(a)
    1 ↔ 1
    3(106778991-106799339)
    zebrafish
    (Danio rerio)
    Actinopterygii upf3a1 UPF3 regulator of nonsense transcripts homolog A (yeast) 62.12(n)
    59.82(a)
      566608  NM_001202448.1  NP_001189377.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Upf36
    Upf3
    23(a)
    1 → many
    2R(19780589-19782510)
    worm
    (Caenorhabditis elegans)
    Secernentea smg-46
    Protein SMG-4, isoform b
    23(a)
    1 → many
    V(9775936-9777743)


    ENSEMBL Gene Tree for UPF3A (if available)
    TreeFam Gene Tree for UPF3A (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for UPF3A gene
    UPF3B2  
    1 SIMAP similar gene for UPF3A using alignment to 2 protein entries:     REN3A_HUMAN (see all proteins):
    UPF3B

    UPF3A for paralogs           About GeneDecksing


    3 Pseudogenes.org Pseudogenes for UPF3A
    PGOHUM00000236936 PGOHUM00000236959 PGOHUM00000236281


    (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

    10/767 SNPs in UPF3A are shown (see all 767)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 13 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1849739881,2
    --96133089(+) TCATAC/TGGTTT 2 -- us2k10--------
    rs1477026831,2
    --96133121(+) AACAGC/GTGAAT 2 -- us2k10--------
    rs1385602361,2
    C--96133140(+) CTACC-/ATTTTT 2 -- us2k10--------
    rs98058131,2
    C,F,A,H--96133159(+) CATTTT/CTCAGA 2 -- us2k127Minor allele frequency- C:0.35NS EA NA WA CSA 2771
    rs1176024321,2
    F--96133173(+) TTGCAA/GTAACA 2 -- us2k11Minor allele frequency- G:0.01NA 120
    rs1151608351,2
    F--96133256(+) GTTTAC/TGAAAT 2 -- us2k11Minor allele frequency- T:0.04WA 118
    rs741168701,2
    C,F--96133263(+) AAATAT/CACACA 2 -- us2k12Minor allele frequency- C:0.08WA 120
    rs346279471,2
    C,F--96133378(+) GAGGCC/AAACCT 2 -- us2k13Minor allele frequency- A:0.33NA 6
    rs1491624731,2
    --96133388(+) TGGCTC/TCAGAG 2 -- us2k10--------
    rs560025391,2
    C,F--96133419(+) GAGAAC/GAGGGC 2 -- us2k12Minor allele frequency- G:0.08WA 120

    HapMap Linkage Disequilibrium report for UPF3A (115047059 - 115071292 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 8 variations for UPF3A:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv1401261CNV Insertion17803354
    nsv64869CNV Insertion16902084
    esv1000540CNV Insertion20482838
    nsv826841CNV Loss20364138
    nsv518491CNV Loss19592680
    nsv901115CNV Gain21882294
    nsv901116CNV Gain21882294
    esv25715CNV Gain+Loss19812545

    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing UPF3A
    DNA2.0 Custom Variant and Variant Library Synthesis for UPF3A

    (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: 605530    OMIM disorders: --

    2 diseases for UPF3A:    About MalaCards
    mental retardation    


    UPF3A for disorders           About GeneDecksing

    Genetic Association Database (GAD): UPF3A

    Export disorders for UPF3A 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 UPF3A gene, integrated from 9 sources (see all 37):
    (articles sorted by number of sources associating them with UPF3A)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Human Upf proteins target an mRNA for nonsense-mediated decay when bound downstream of a termination codon. (PubMed id 11163187)1, 2, 3, 9 Lykke-Andersen J....Steitz J.A. (2000)
    2. 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)
    3. Functions of hUpf3a and hUpf3b in nonsense-mediated mRNA decay and translation. (PubMed id 16601204)1, 2, 9 Kunz J.B....Gehring N.H. (2006)
    4. The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823)1, 2 Dunham A.... Ross M.T. (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. (2004)
    6. 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 Chiu S.-Y.... Maquat L.E. (2003)
    7. Role of the nonsense-mediated decay factor hUpf3 in the splicing- dependent exon-exon junction complex. (PubMed id 11546873)1, 2 Kim V.N.... Dreyfuss G. (2001)
    8. Communication of the position of exon-exon junctions to the mRNA surveillance machinery by the protein RNPS1. (PubMed id 11546874)1, 2 Lykke-Andersen J.... Steitz J.A. (2001)
    9. A UPF3-mediated regulatory switch that maintains RNA surveillance. (PubMed id 19503078)1, 9 Chan W.K....Wilkinson M.F. (2009)
    10. The structural basis for the interaction between nonsense-mediated mRNA decay factors UPF2 and UPF3. (PubMed id 15004547)1, 9 Kadlec J.... Cusack S. (2004)

    (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: 65110 HGNC: 20332 AceView: UPF3A Ensembl:ENSG00000169062 euGenes: HUgn65110
    ECgene: UPF3A Kegg: 65110 H-InvDB: UPF3A

    (According to HUGE)
    About This Section
      --

    (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 UPF3A 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 UPF3A gene:
    Search GeneIP for patents involving UPF3A

    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 UPF3A  
     Browse OriGene qPCR primer pairs and template standards   OriGene Protein Over-expression Lysate for UPF3A  
     OriGene MassSpec something-or-other for UPF3A   OriGene clones in human, mouse for UPF3A  
     OriGene qSTAR qPCR primer pairs in human, mouse for UPF3A   OriGene Purified Protein for UPF3A  
     OriGene ORF clones in mouse, rat for UPF3A   OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling  
     OriGene Custom Antibody Services for UPF3A   OriGene Custom Protein Services for UPF3A  

     
     
     QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat UPF3A
     QIAGEN SeqTarget long-range PCR primers for resequencing UPF3A
     QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat UPF3A
     QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat UPF3A
     QIAGEN QuantiFast Probe-based Assays in human, mouse, rat UPF3A
     QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat UPF3A
     GenScript Custom Purified and Recombinant Proteins Services for UPF3A GenScript cDNA clones with any tag delivered in your preferred vector for UPF3A
     GenScript Custom Assay Services for UPF3A GenScript Custom Superior Antibodies Services for UPF3A
     GenScript Custom overexpressing Cell Line Services for UPF3A 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

     Regulatory tfbs in UPF3A promoter
     Search Chromatin IP Primers for UPF3A
     RT2 qPCR Primer Assay in human, mouse, rat UPF3A
     GNC Network for UPF3A
     SABiosciences Custom PCR Arrays for UPF3A
     Search Tocris compounds for UPF3A (REN3A)
     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
     UPF3A antibodies
     UPF3A proteins
     UPF3A lysates
     Antibodies for UPF3A
     See all of Abcam's Antibodies, Kits and Proteins for UPF3A
     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 UPF3A
     Gene Synthesis
     Protein Engineering
     Variant Library Synthesis
     Codon Optimization
     Protein Production and Purification
     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UPF3A
     SwitchGear 3'UTR luciferase reporter plasmids for UPF3A
     SwitchGear Promoter luciferase reporter plasmids for UPF3A
     Search ThermoFisher Antibodies for UPF3A
     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UPF3A
     inGenious Targeting Laboratory - Custom generated mouse model solutions for UPF3A
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for UPF3A
    Customized:
     lentivirus for stable overexpression of UPF3A
     lentivirus expression plasmids for stable overexpression of UPF3A
     adenovirus for overexpression of UPF3A
     LSBio Antibodies in human, mouse, rat for UPF3A
    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      UPF3A gene at Home site.
    hostname: 356977-web1.xennexinc.com index build: 106 solr: 1.4