EuRBPDB

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  • Description
  • RBDs
  • RBPome
  • Literatures
  • Expression
  • Transcripts
  • Gene Model
  • Pathways
  • Phenotypes
  • GWAS
  • PPI
  • Orthologs
  • Gene Ontology
Description
Ensembl ID
ENSG00000151461 (Gene tree)
Gene ID
26019
Gene Symbol
UPF2
Alias
RENT2|DKFZP434D222|KIAA1408|smg-3
Full Name
UPF2 regulator of nonsense mediated mRNA decay
Gene Type
protein_coding
Species
Homo_sapiens
Status
confidence
Strand
Minus strand
Length
123,151 bases
Position
chr10:11,920,022-12,043,172
Accession
17854
RBP type
canonical RBP
Summary
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]
RNA binding domains(RBDs)
Protein IDDomain Pfam IDE-value Domain number Total number
ENSP00000348708Upf2PF04050.142.1e-3211
ENSP00000350221Upf2PF04050.142.1e-3211
ENSP00000380244Upf2PF04050.142.1e-3211
ENSP00000348708MIF4GPF02854.194e-8013
ENSP00000348708MIF4GPF02854.194e-8023
ENSP00000348708MIF4GPF02854.194e-8033
ENSP00000350221MIF4GPF02854.194e-8013
ENSP00000350221MIF4GPF02854.194e-8023
ENSP00000350221MIF4GPF02854.194e-8033
ENSP00000380244MIF4GPF02854.194e-8013
ENSP00000380244MIF4GPF02854.194e-8023
ENSP00000380244MIF4GPF02854.194e-8033
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & HEK2932018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
29431736Capturing the interactome of newly transcribed RNARIC & Hela2018 Feb 12Bao XDOI: 10.1038/nmeth.4595
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & Hela2018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & MCF72018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
30352994Discovery of RNA-binding proteins and characterization of their dynamic responses by enhanced RNA interactome captureRIC & Jurkat2018 Oct 23Perez-Perri JIDOI:10.1038/s41467-018-06557-8

Literatures on RNA binding capacity
PIDTitleArticle TimeAuthorDoi
15004547The structural basis for the interaction between nonsense-mediated mRNA decay factors UPF2 and UPF3.Nat Struct Mol Biol2004 AprKadlec J-
24100012Intra- and intermolecular regulatory interactions in Upf1, the RNA helicase central to nonsense-mediated mRNA decay in yeast.Mol Cell Biol2013 DecHe Fdoi: 10.1128/MCB.01136-13
22713324Biochemical characterization of the RNA helicase UPF1 involved in nonsense-mediated mRNA decay.Methods Enzymol2012Fiorini Fdoi: 10.1016/B978-0-12-396546-2.00012-7.
21419337UPF1 learns to relax and unwind.Mol Cell2011 Mar 18Gleghorn MLdoi: 10.1016/j.molcel.2011.03.001.
21419344Molecular mechanisms for the RNA-dependent ATPase activity of Upf1 and its regulation by Upf2.Mol Cell2011 Mar 18Chakrabarti Sdoi: 10.1016/j.molcel.2011.02.010.
23619768Functional characterization of Upf1 targets in Schizosaccharomyces pombe.RNA Biol2013 JunMatia-Gonzalez AMdoi: 10.4161/rna.24569
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000357604UPF2-2025193-ENSP000003502211272 (aa)-Q9HAU5
ENST00000460569UPF2-204640--- (aa)--
ENST00000397053UPF2-2035369-ENSP000003802441272 (aa)-Q9HAU5
ENST00000356352UPF2-2015569-ENSP000003487081272 (aa)-Q9HAU5
Gene Model
Click here to download ENSG00000151461's gene model file
Pathways
Pathway IDPathway NameSource
hsa03013RNA transportKEGG
hsa03015mRNA surveillance pathwayKEGG
Phenotypes
ensgIDTraitpValuePubmed ID
ENSG00000151461Prostatic Neoplasms7E-722219177
GWAS
ensgIDSNPChromosomePositionSNP-risk TraitPubmedID95% CIOr or BEAT EFO ID
ENSG00000151461rs118193441011949311?Mean corpuscular hemoglobin30595370EFO_0004527
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000151461's network

* RBP PPI network refers to all genes directly bind to RBP
Orthologs
Ensembl IDGene SymbolCoverageIdentiy OrthologGene SymbolCoverageIdentiy Species
ENSG00000151461UPF29978.326ENSAPOG00000015837UPF210078.169Acanthochromis_polyacanthus
ENSG00000151461UPF210097.720ENSAMEG00000004586UPF210097.720Ailuropoda_melanoleuca
ENSG00000151461UPF29982.436ENSACIG00000018078UPF210082.358Amphilophus_citrinellus
ENSG00000151461UPF210082.463ENSAOCG00000016766UPF210082.541Amphiprion_ocellaris
ENSG00000151461UPF210082.541ENSAPEG00000019084UPF210082.619Amphiprion_percula
ENSG00000151461UPF210082.284ENSATEG00000021677UPF29982.490Anabas_testudineus
ENSG00000151461UPF210086.557ENSAPLG00000010287UPF210086.085Anas_platyrhynchos
ENSG00000151461UPF210092.217ENSACAG00000009259UPF210092.217Anolis_carolinensis
ENSG00000151461UPF29988.522ENSANAG00000028451UPF29987.186Aotus_nancymaae
ENSG00000151461UPF210080.904ENSACLG00000012696UPF210082.619Astatotilapia_calliptera
ENSG00000151461UPF29982.408ENSAMXG00000013700UPF29982.799Astyanax_mexicanus
ENSG00000151461UPF210097.642ENSBTAG00000000288UPF210097.642Bos_taurus
ENSG00000151461UPF210099.057ENSCJAG00000020685UPF210099.057Callithrix_jacchus
ENSG00000151461UPF210097.720ENSCAFG00000004839UPF210097.720Canis_familiaris
ENSG00000151461UPF29995.276ENSCAFG00020005882UPF210095.276Canis_lupus_dingo
ENSG00000151461UPF210097.720ENSCHIG00000020359UPF210097.720Capra_hircus
ENSG00000151461UPF210097.877ENSTSYG00000000935UPF210097.877Carlito_syrichta
ENSG00000151461UPF29187.188ENSCAPG00000016658UPF210086.204Cavia_aperea
ENSG00000151461UPF29993.978ENSCPOG00000008809UPF29994.770Cavia_porcellus
ENSG00000151461UPF210093.711ENSCCAG00000035991UPF210093.711Cebus_capucinus
ENSG00000151461UPF210099.607ENSCATG00000032679UPF210099.607Cercocebus_atys
ENSG00000151461UPF210097.091ENSCLAG00000011434UPF210097.091Chinchilla_lanigera
ENSG00000151461UPF210099.686ENSCSAG00000013372UPF210099.686Chlorocebus_sabaeus
ENSG00000151461UPF28799.330ENSCHOG00000000422UPF28999.330Choloepus_hoffmanni
ENSG00000151461UPF29992.598ENSCPBG00000027823UPF210092.441Chrysemys_picta_bellii
ENSG00000151461UPF27948.963ENSCSAVG00000007772-7950.446Ciona_savignyi
ENSG00000151461UPF29993.203ENSCANG00000040396UPF210093.863Colobus_angolensis_palliatus
ENSG00000151461UPF210097.327ENSCGRG00001019347Upf210097.327Cricetulus_griseus_chok1gshd
ENSG00000151461UPF210097.327ENSCGRG00000017993Upf210097.327Cricetulus_griseus_crigri
ENSG00000151461UPF29180.723ENSCSEG00000003520UPF29180.206Cynoglossus_semilaevis
ENSG00000151461UPF29982.025ENSCVAG00000006167UPF210081.790Cyprinodon_variegatus
ENSG00000151461UPF210097.720ENSDNOG00000018160UPF210097.720Dasypus_novemcinctus
ENSG00000151461UPF210096.934ENSDORG00000002478Upf210096.934Dipodomys_ordii
ENSG00000151461UPF28936.439FBgn0029992Upf28243.860Drosophila_melanogaster
ENSG00000151461UPF272100.000ENSETEG00000011583-72100.000Echinops_telfairi
ENSG00000151461UPF26968.507ENSEBUG00000012448-8772.483Eptatretus_burgeri
ENSG00000151461UPF210097.877ENSEASG00005019274UPF210099.383Equus_asinus_asinus
ENSG00000151461UPF210097.956ENSECAG00000017022UPF210097.956Equus_caballus
ENSG00000151461UPF28295.208ENSEEUG00000007819UPF28295.208Erinaceus_europaeus
ENSG00000151461UPF29981.499ENSELUG00000012014UPF210081.366Esox_lucius
ENSG00000151461UPF210099.448ENSFCAG00000005785UPF210097.563Felis_catus
ENSG00000151461UPF210091.274ENSFALG00000001889UPF29893.082Ficedula_albicollis
ENSG00000151461UPF210097.013ENSFDAG00000014348UPF210097.013Fukomys_damarensis
ENSG00000151461UPF29982.261ENSFHEG00000009826UPF210082.154Fundulus_heteroclitus
ENSG00000151461UPF29183.938ENSGMOG00000005557UPF210080.391Gadus_morhua
ENSG00000151461UPF210093.244ENSGALG00000033772UPF210093.244Gallus_gallus
ENSG00000151461UPF210079.501ENSGAFG00000020867UPF210081.528Gambusia_affinis
ENSG00000151461UPF29084.383ENSGACG00000001080UPF210082.123Gasterosteus_aculeatus
ENSG00000151461UPF210092.767ENSGAGG00000002700UPF210092.767Gopherus_agassizii
ENSG00000151461UPF210099.921ENSGGOG00000001479UPF210099.921Gorilla_gorilla
ENSG00000151461UPF210080.748ENSHBUG00000004249UPF210082.592Haplochromis_burtoni
ENSG00000151461UPF29985.759ENSHGLG00000003822-9984.894Heterocephalus_glaber_female
ENSG00000151461UPF210097.013ENSHGLG00000015176-10097.013Heterocephalus_glaber_female
ENSG00000151461UPF29992.913ENSHGLG00100010036UPF210093.622Heterocephalus_glaber_male
ENSG00000151461UPF210080.528ENSHCOG00000004025UPF29980.528Hippocampus_comes
ENSG00000151461UPF210081.450ENSIPUG00000015524UPF210081.747Ictalurus_punctatus
ENSG00000151461UPF210097.406ENSSTOG00000013075UPF210097.406Ictidomys_tridecemlineatus
ENSG00000151461UPF210096.305ENSJJAG00000004913Upf210096.305Jaculus_jaculus
ENSG00000151461UPF29982.003ENSKMAG00000001071UPF210082.275Kryptolebias_marmoratus
ENSG00000151461UPF28082.041ENSLBEG00000000728-9382.139Labrus_bergylta
ENSG00000151461UPF210082.609ENSLBEG00000016394-9982.659Labrus_bergylta
ENSG00000151461UPF29181.169ENSLACG00000015945UPF210079.092Latimeria_chalumnae
ENSG00000151461UPF29984.488ENSLOCG00000015698UPF210085.827Lepisosteus_oculatus
ENSG00000151461UPF210099.528ENSMFAG00000043865UPF210099.528Macaca_fascicularis
ENSG00000151461UPF210099.528ENSMMUG00000008241UPF210099.528Macaca_mulatta
ENSG00000151461UPF28199.122ENSMNEG00000008062UPF210099.122Macaca_nemestrina
ENSG00000151461UPF29996.560ENSMLEG00000036120UPF2100100.000Mandrillus_leucophaeus
ENSG00000151461UPF210082.129ENSMAMG00000018276UPF210082.257Mastacembelus_armatus
ENSG00000151461UPF210080.904ENSMZEG00005021595UPF210082.619Maylandia_zebra
ENSG00000151461UPF29992.447ENSMGAG00000004573UPF29992.683Meleagris_gallopavo
ENSG00000151461UPF210094.969ENSMAUG00000016512Upf210094.969Mesocricetus_auratus
ENSG00000151461UPF29993.780ENSMICG00000001716UPF210093.780Microcebus_murinus
ENSG00000151461UPF210096.698ENSMOCG00000008263Upf210096.698Microtus_ochrogaster
ENSG00000151461UPF29979.859ENSMMOG00000006528UPF210080.125Mola_mola
ENSG00000151461UPF210095.362ENSMODG00000016794UPF210095.362Monodelphis_domestica
ENSG00000151461UPF29982.031ENSMALG00000002663UPF210082.003Monopterus_albus
ENSG00000151461UPF210096.934MGP_CAROLIEiJ_G0023157Upf210098.476Mus_caroli
ENSG00000151461UPF210096.934ENSMUSG00000043241Upf210096.934Mus_musculus
ENSG00000151461UPF210096.541MGP_PahariEiJ_G0019217Upf210097.524Mus_pahari
ENSG00000151461UPF210097.170MGP_SPRETEiJ_G0024075Upf210097.905Mus_spretus
ENSG00000151461UPF210097.720ENSMPUG00000001064UPF210097.720Mustela_putorius_furo
ENSG00000151461UPF29997.017ENSMLUG00000000228UPF210097.017Myotis_lucifugus
ENSG00000151461UPF210080.904ENSNBRG00000013629UPF210082.619Neolamprologus_brichardi
ENSG00000151461UPF210099.528ENSNLEG00000012058UPF210099.528Nomascus_leucogenys
ENSG00000151461UPF26197.927ENSMEUG00000002180-6097.927Notamacropus_eugenii
ENSG00000151461UPF276100.000ENSOPRG00000006801-78100.000Ochotona_princeps
ENSG00000151461UPF210096.619ENSODEG00000001290UPF210096.619Octodon_degus
ENSG00000151461UPF210080.982ENSONIG00000017991UPF210082.697Oreochromis_niloticus
ENSG00000151461UPF29996.946ENSOCUG00000006230UPF210096.946Oryctolagus_cuniculus
ENSG00000151461UPF210081.634ENSORLG00000017189UPF210082.215Oryzias_latipes
ENSG00000151461UPF210081.634ENSORLG00020005969UPF210082.215Oryzias_latipes_hni
ENSG00000151461UPF210081.634ENSORLG00015005713UPF210082.215Oryzias_latipes_hsok
ENSG00000151461UPF29978.159ENSOMEG00000023420UPF29879.046Oryzias_melastigma
ENSG00000151461UPF210098.270ENSOGAG00000005796UPF210098.270Otolemur_garnettii
ENSG00000151461UPF210097.567ENSOARG00000014587UPF210097.567Ovis_aries
ENSG00000151461UPF29996.325ENSPPAG00000037953UPF210096.325Pan_paniscus
ENSG00000151461UPF210097.563ENSPPRG00000000690UPF210097.563Panthera_pardus
ENSG00000151461UPF210097.563ENSPTIG00000008867UPF210097.563Panthera_tigris_altaica
ENSG00000151461UPF210099.921ENSPTRG00000002291UPF210099.921Pan_troglodytes
ENSG00000151461UPF210099.528ENSPANG00000023399UPF210099.528Papio_anubis
ENSG00000151461UPF210080.811ENSPKIG00000025502UPF210082.073Paramormyrops_kingsleyae
ENSG00000151461UPF25991.247ENSPSIG00000015158UPF29591.247Pelodiscus_sinensis
ENSG00000151461UPF29979.749ENSPMGG00000005259UPF210080.377Periophthalmus_magnuspinnatus
ENSG00000151461UPF29393.605ENSPEMG00000015731Upf29993.605Peromyscus_maniculatus_bairdii
ENSG00000151461UPF210093.003ENSPCIG00000006656UPF210095.047Phascolarctos_cinereus
ENSG00000151461UPF210079.891ENSPFOG00000017118UPF210081.917Poecilia_formosa
ENSG00000151461UPF210079.844ENSPLAG00000005094UPF210081.917Poecilia_latipinna
ENSG00000151461UPF210079.891ENSPMEG00000017009UPF210081.917Poecilia_mexicana
ENSG00000151461UPF29979.656ENSPREG00000021880UPF210082.081Poecilia_reticulata
ENSG00000151461UPF26699.761ENSPPYG00000002089-10099.761Pongo_abelii
ENSG00000151461UPF210083.333ENSPCAG00000000684UPF210083.333Procavia_capensis
ENSG00000151461UPF29995.433ENSPCOG00000021656UPF210095.512Propithecus_coquereli
ENSG00000151461UPF210090.181ENSPVAG00000017286UPF210090.181Pteropus_vampyrus
ENSG00000151461UPF29978.454ENSPNYG00000017096UPF210080.172Pundamilia_nyererei
ENSG00000151461UPF210082.775ENSPNAG00000009357UPF210083.242Pygocentrus_nattereri
ENSG00000151461UPF29990.667ENSRNOG00000023593Upf2100100.000Rattus_norvegicus
ENSG00000151461UPF29998.425ENSRBIG00000037780UPF210098.425Rhinopithecus_bieti
ENSG00000151461UPF210099.450ENSRROG00000043547UPF210099.450Rhinopithecus_roxellana
ENSG00000151461UPF210098.821ENSSBOG00000020012UPF210098.821Saimiri_boliviensis_boliviensis
ENSG00000151461UPF210081.698ENSSFOG00015023788upf210082.788Scleropages_formosus
ENSG00000151461UPF29083.001ENSSMAG00000007637UPF210080.078Scophthalmus_maximus
ENSG00000151461UPF210082.151ENSSDUG00000017244UPF29982.619Seriola_dumerili
ENSG00000151461UPF29980.438ENSSLDG00000016866UPF210080.986Seriola_lalandi_dorsalis
ENSG00000151461UPF210095.362ENSSARG00000008615UPF210095.362Sorex_araneus
ENSG00000151461UPF29989.929ENSSPUG00000014544UPF29989.929Sphenodon_punctatus
ENSG00000151461UPF26898.964ENSSSCG00000011117-10098.964Sus_scrofa
ENSG00000151461UPF29991.253ENSTGUG00000002163-10093.065Taeniopygia_guttata
ENSG00000151461UPF210081.634ENSTRUG00000007519UPF29981.995Takifugu_rubripes
ENSG00000151461UPF210079.953ENSTNIG00000004453UPF210079.844Tetraodon_nigroviridis
ENSG00000151461UPF29390.271ENSTBEG00000012679UPF29390.609Tupaia_belangeri
ENSG00000151461UPF210097.642ENSTTRG00000016388UPF210097.642Tursiops_truncatus
ENSG00000151461UPF294100.000ENSUAMG00000023560UPF299100.000Ursus_americanus
ENSG00000151461UPF210097.956ENSUMAG00000012953UPF29597.956Ursus_maritimus
ENSG00000151461UPF28596.774ENSVPAG00000006763UPF28596.774Vicugna_pacos
ENSG00000151461UPF210097.642ENSVVUG00000006166UPF210097.642Vulpes_vulpes
ENSG00000151461UPF210083.372ENSXETG00000033103UPF29188.418Xenopus_tropicalis
ENSG00000151461UPF29284.543ENSXCOG00000011604UPF210081.577Xiphophorus_couchianus
ENSG00000151461UPF29284.740ENSXMAG00000017209UPF210081.606Xiphophorus_maculatus
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0000184nuclear-transcribed mRNA catabolic process, nonsense-mediated decay21873635.IBAProcess
GO:0000184nuclear-transcribed mRNA catabolic process, nonsense-mediated decay18369367.IMPProcess
GO:0000184nuclear-transcribed mRNA catabolic process, nonsense-mediated decay16488880.17468741.TASProcess
GO:0001889liver development-IEAProcess
GO:0003723RNA binding-IEAFunction
GO:0005515protein binding11163187.11544179.12417715.14636577.15231747.15680326.16086026.16452507.16488880.16601204.17468741.17469741.18066079.18256688.19150429.19417104.19478851.19503078.19556969.20371770.20479275.20930030.21145460.22522823.23788676.25416956.26496610.IPIFunction
GO:0005634nucleus14636577.21829167.IDAComponent
GO:0005737cytoplasm21873635.IBAComponent
GO:0005737cytoplasm14636577.IDAComponent
GO:0005829cytosol-IDAComponent
GO:0005829cytosol-TASComponent
GO:0005844polysome21873635.IBAComponent
GO:0006406mRNA export from nucleus16488880.TASProcess
GO:0031100animal organ regeneration-IEAProcess
GO:0035145exon-exon junction complex21873635.IBAComponent
GO:0035145exon-exon junction complex16601204.IDAComponent
GO:0036464cytoplasmic ribonucleoprotein granule-IDAComponent
GO:0042162telomeric DNA binding17916692.IDAFunction
GO:0048471perinuclear region of cytoplasm-IEAComponent

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