EuRBPDB

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  • Description
  • RBDs
  • RBPome
  • Literatures
  • Expression
  • Transcripts
  • Gene Model
  • Pathways
  • Phenotypes
  • GWAS
  • PPI
  • Paralogs
  • Orthologs
  • Gene Ontology
Description
Ensembl ID
ENSG00000204392 (Gene tree)
Gene ID
57819
Gene Symbol
LSM2
Alias
G7b|YBL026W|C6orf28
Full Name
LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated
Gene Type
protein_coding
Species
Homo_sapiens
Status
confidence
Strand
Minus strand
Length
9,593 bases
Position
chr6:31,797,392-31,806,984
Accession
13940
RBP type
canonical RBP
Summary
This gene encodes a member of the LSm family of RNA-binding proteins. LSm proteins form stable heteromers that bind specifically to the 3'-terminal oligo(U) tract of U6 snRNA and may play a role in pre-mRNA splicing by mediating U4/U6 snRNP formation. Pseudogenes of this gene are located on the short arm of chromosomes 6 and 19. [provided by RefSeq, Nov 2011]
RNA binding domains(RBDs)
Protein IDDomain Pfam IDE-value Domain number Total number
ENSP00000364813LSMPF01423.222.4e-1611
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
22681889The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts4SURIC & HEK2932012 MayBaltz AGDOI: 10.1016/j.molcel.2012.05.021
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & HEK2932018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
22658674Insights into RNA biology from an atlas of mammalian mRNA-binding proteinsRIC & Hela2012 May 31Castello ADOI: 10.1016/j.cell.2012.04.031
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & Hela2018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & MCF10A2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
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
22615807Crystal structures of Lsm3, Lsm4 and Lsm5/6/7 from Schizosaccharomyces pombe.PLoS One2012Wu Ddoi: 10.1371/journal.pone.0036768
24247251Lsm2 and Lsm3 bridge the interaction of the Lsm1-7 complex with Pat1 for decapping activation.Cell Res2014 FebWu Ddoi: 10.1038/cr.2013.152
29615482Defining essential elements and genetic interactions of the yeast Lsm2-8 ring and demonstration that essentiality of Lsm2-8 is bypassed via overexpression of U6 snRNA or the U6 snRNP subunit Prp24.RNA2018 JunRoth AJdoi: 10.1261/rna.066175.118
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000493387LSM2-214767--- (aa)--
ENST00000470086LSM2-210713--- (aa)--
ENST00000491421LSM2-213820--- (aa)--
ENST00000375661LSM2-208876-ENSP0000036481395 (aa)-Q9Y333
ENST00000470083LSM2-209641--- (aa)--
ENST00000477182LSM2-212767--- (aa)--
ENST00000475835LSM2-211211--- (aa)--
Gene Model
Click here to download ENSG00000204392's gene model file
Pathways
Pathway IDPathway NameSource
hsa03018RNA degradationKEGG
hsa03040SpliceosomeKEGG
Phenotypes
ensgIDTraitpValuePubmed ID
ENSG00000204392Platelet Function Tests3.4449400E-005-
GWAS
ensgIDSNPChromosomePositionSNP-risk TraitPubmedID95% CIOr or BEAT EFO ID
ENSG00000204392rs1144710631798087TRosacea symptom severity29771307[0.14-0.25] unit increase0.192529EFO_0009180
ENSG00000204392rs1144710631798087?Urinary tract infection frequency28928442[0.027-0.068] unit increase0.0474EFO_0008413
ENSG00000204392rs1144710631798087?Pneumonia28928442[0.059-0.111] unit increase0.0847EFO_0008410
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000204392's network

* RBP PPI network refers to all genes directly bind to RBP
Paralogs
Ensembl IDGene SymbolCoverageIdentiy ParalogGene SymbolCoverageIdentiy
ENSG00000204392LSM27430.000ENSG00000181817LSM105530.000
ENSG00000204392LSM28235.000ENSG00000130520LSM47032.000
Orthologs
Ensembl IDGene SymbolCoverageIdentiy OrthologGene SymbolCoverageIdentiy Species
ENSG00000204392LSM210098.947ENSAPOG00000017967si:ch73-14h10.210098.947Acanthochromis_polyacanthus
ENSG00000204392LSM299100.000ENSAMEG00000006483LSM2100100.000Ailuropoda_melanoleuca
ENSG00000204392LSM29998.936ENSACIG00000007795si:ch73-14h10.26298.936Amphilophus_citrinellus
ENSG00000204392LSM29998.936ENSAOCG00000006949si:ch73-14h10.27898.936Amphiprion_ocellaris
ENSG00000204392LSM29998.936ENSAPEG00000020375si:ch73-14h10.28798.936Amphiprion_percula
ENSG00000204392LSM210098.947ENSATEG00000011376si:ch73-14h10.210098.947Anabas_testudineus
ENSG00000204392LSM299100.000ENSACAG00000017281LSM290100.000Anolis_carolinensis
ENSG00000204392LSM2100100.000ENSANAG00000028372LSM2100100.000Aotus_nancymaae
ENSG00000204392LSM29681.319ENSANAG00000028033-9681.319Aotus_nancymaae
ENSG00000204392LSM210098.947ENSACLG00000024717smx510098.947Astatotilapia_calliptera
ENSG00000204392LSM210098.947ENSAMXG00000036868si:ch73-14h10.210098.947Astyanax_mexicanus
ENSG00000204392LSM2100100.000ENSBTAG00000005634LSM2100100.000Bos_taurus
ENSG00000204392LSM29984.043WBGene00001808gut-29784.043Caenorhabditis_elegans
ENSG00000204392LSM2100100.000ENSCJAG00000040899LSM2100100.000Callithrix_jacchus
ENSG00000204392LSM27598.592ENSCAFG00020016978-8898.592Canis_lupus_dingo
ENSG00000204392LSM299100.000ENSCHIG00000016153LSM2100100.000Capra_hircus
ENSG00000204392LSM29989.362ENSTSYG00000030015-10089.362Carlito_syrichta
ENSG00000204392LSM2100100.000ENSTSYG00000034844LSM2100100.000Carlito_syrichta
ENSG00000204392LSM276100.000ENSCAPG00000009970LSM292100.000Cavia_aperea
ENSG00000204392LSM2100100.000ENSCPOG00000021053LSM2100100.000Cavia_porcellus
ENSG00000204392LSM2100100.000ENSCCAG00000024276LSM2100100.000Cebus_capucinus
ENSG00000204392LSM2100100.000ENSCATG00000013737LSM2100100.000Cercocebus_atys
ENSG00000204392LSM2100100.000ENSCLAG00000008081LSM2100100.000Chinchilla_lanigera
ENSG00000204392LSM2100100.000ENSCSAG00000008800LSM2100100.000Chlorocebus_sabaeus
ENSG00000204392LSM2100100.000ENSCHOG00000007702LSM2100100.000Choloepus_hoffmanni
ENSG00000204392LSM210095.789ENSCING00000022677-10095.789Ciona_intestinalis
ENSG00000204392LSM2100100.000ENSCANG00000039576LSM2100100.000Colobus_angolensis_palliatus
ENSG00000204392LSM2100100.000ENSCGRG00001013932Lsm2100100.000Cricetulus_griseus_chok1gshd
ENSG00000204392LSM276100.000ENSCGRG00000013311Lsm262100.000Cricetulus_griseus_crigri
ENSG00000204392LSM210098.947ENSCSEG00000002911si:ch73-14h10.210098.947Cynoglossus_semilaevis
ENSG00000204392LSM29998.936ENSCVAG00000015394si:ch73-14h10.28998.936Cyprinodon_variegatus
ENSG00000204392LSM210098.947ENSDARG00000070867smx510098.947Danio_rerio
ENSG00000204392LSM299100.000ENSDNOG00000002633LSM2100100.000Dasypus_novemcinctus
ENSG00000204392LSM2100100.000ENSDORG00000026571Lsm2100100.000Dipodomys_ordii
ENSG00000204392LSM29695.604FBgn0036277CG104189695.604Drosophila_melanogaster
ENSG00000204392LSM299100.000ENSEASG00005015670LSM279100.000Equus_asinus_asinus
ENSG00000204392LSM299100.000ENSECAG00000018791LSM279100.000Equus_caballus
ENSG00000204392LSM2100100.000ENSELUG00000008241smx5100100.000Esox_lucius
ENSG00000204392LSM2100100.000ENSFCAG00000045887LSM2100100.000Felis_catus
ENSG00000204392LSM2100100.000ENSFDAG00000000390LSM2100100.000Fukomys_damarensis
ENSG00000204392LSM29995.833ENSFHEG00000009619si:ch73-14h10.210095.833Fundulus_heteroclitus
ENSG00000204392LSM29998.936ENSGMOG00000019208si:ch73-14h10.210098.936Gadus_morhua
ENSG00000204392LSM210098.947ENSGAFG00000017286si:ch73-14h10.210098.947Gambusia_affinis
ENSG00000204392LSM210098.947ENSGACG00000003827si:ch73-14h10.210098.947Gasterosteus_aculeatus
ENSG00000204392LSM2100100.000ENSGAGG00000012458LSM2100100.000Gopherus_agassizii
ENSG00000204392LSM2100100.000ENSGGOG00000011383LSM2100100.000Gorilla_gorilla
ENSG00000204392LSM2100100.000ENSHGLG00000011299LSM2100100.000Heterocephalus_glaber_female
ENSG00000204392LSM2100100.000ENSHGLG00100017194LSM2100100.000Heterocephalus_glaber_male
ENSG00000204392LSM210098.947ENSHCOG00000014057si:ch73-14h10.210098.947Hippocampus_comes
ENSG00000204392LSM210098.947ENSIPUG00000010539lsm210098.947Ictalurus_punctatus
ENSG00000204392LSM2100100.000ENSSTOG00000013144LSM2100100.000Ictidomys_tridecemlineatus
ENSG00000204392LSM29477.528ENSJJAG00000019477-10077.528Jaculus_jaculus
ENSG00000204392LSM210098.947ENSKMAG00000014909si:ch73-14h10.210098.947Kryptolebias_marmoratus
ENSG00000204392LSM29997.872ENSLBEG00000025781si:ch73-14h10.29897.872Labrus_bergylta
ENSG00000204392LSM210098.947ENSLACG00000015064LSM210098.947Latimeria_chalumnae
ENSG00000204392LSM210098.947ENSLOCG00000005228si:ch73-14h10.210098.947Lepisosteus_oculatus
ENSG00000204392LSM299100.000ENSLAFG00000016139LSM2100100.000Loxodonta_africana
ENSG00000204392LSM2100100.000ENSMFAG00000001016LSM2100100.000Macaca_fascicularis
ENSG00000204392LSM2100100.000ENSMMUG00000006832LSM2100100.000Macaca_mulatta
ENSG00000204392LSM29981.915ENSMMUG00000045473-9781.915Macaca_mulatta
ENSG00000204392LSM27985.333ENSMNEG00000040973-9185.333Macaca_nemestrina
ENSG00000204392LSM2100100.000ENSMNEG00000045355LSM2100100.000Macaca_nemestrina
ENSG00000204392LSM2100100.000ENSMLEG00000037369-100100.000Mandrillus_leucophaeus
ENSG00000204392LSM29980.851ENSMLEG00000031181-9780.851Mandrillus_leucophaeus
ENSG00000204392LSM210098.947ENSMAMG00000010053si:ch73-14h10.27398.947Mastacembelus_armatus
ENSG00000204392LSM29996.875ENSMZEG00005008688si:ch73-14h10.210096.875Maylandia_zebra
ENSG00000204392LSM2100100.000ENSMAUG00000021966Lsm2100100.000Mesocricetus_auratus
ENSG00000204392LSM27679.167ENSMICG00000046764-9279.167Microcebus_murinus
ENSG00000204392LSM2100100.000ENSMOCG00000015306Lsm2100100.000Microtus_ochrogaster
ENSG00000204392LSM29997.872ENSMMOG00000005603si:ch73-14h10.210097.872Mola_mola
ENSG00000204392LSM29998.936ENSMODG00000015177LSM29998.936Monodelphis_domestica
ENSG00000204392LSM210098.947ENSMALG00000016490si:ch73-14h10.210098.947Monopterus_albus
ENSG00000204392LSM2100100.000MGP_CAROLIEiJ_G0021490Lsm2100100.000Mus_caroli
ENSG00000204392LSM2100100.000ENSMUSG00000007050Lsm2100100.000Mus_musculus
ENSG00000204392LSM2100100.000MGP_PahariEiJ_G0020485Lsm2100100.000Mus_pahari
ENSG00000204392LSM2100100.000MGP_SPRETEiJ_G0022395Lsm2100100.000Mus_spretus
ENSG00000204392LSM2100100.000ENSNGAG00000003997Lsm2100100.000Nannospalax_galili
ENSG00000204392LSM29996.875ENSNBRG00000012904si:ch73-14h10.210096.875Neolamprologus_brichardi
ENSG00000204392LSM2100100.000ENSNLEG00000035542LSM2100100.000Nomascus_leucogenys
ENSG00000204392LSM27598.592ENSMEUG00000003419LSM210098.592Notamacropus_eugenii
ENSG00000204392LSM2100100.000ENSOPRG00000003668LSM2100100.000Ochotona_princeps
ENSG00000204392LSM2100100.000ENSODEG00000017583LSM2100100.000Octodon_degus
ENSG00000204392LSM210098.947ENSONIG00000019321si:ch73-14h10.210098.947Oreochromis_niloticus
ENSG00000204392LSM299100.000ENSOANG00000005398LSM2100100.000Ornithorhynchus_anatinus
ENSG00000204392LSM2100100.000ENSOCUG00000002583LSM2100100.000Oryctolagus_cuniculus
ENSG00000204392LSM210098.947ENSORLG00000029858si:ch73-14h10.210098.947Oryzias_latipes
ENSG00000204392LSM210075.806ENSORLG00015000465si:ch73-14h10.210075.806Oryzias_latipes_hsok
ENSG00000204392LSM210098.947ENSOMEG00000002892si:ch73-14h10.210098.947Oryzias_melastigma
ENSG00000204392LSM299100.000ENSOARG00000004575LSM2100100.000Ovis_aries
ENSG00000204392LSM27986.667ENSPPAG00000043941-9386.667Pan_paniscus
ENSG00000204392LSM2100100.000ENSPPAG00000032431LSM2100100.000Pan_paniscus
ENSG00000204392LSM2100100.000ENSPPRG00000015353LSM2100100.000Panthera_pardus
ENSG00000204392LSM299100.000ENSPTIG00000010303LSM299100.000Panthera_tigris_altaica
ENSG00000204392LSM2100100.000ENSPTRG00000017986LSM2100100.000Pan_troglodytes
ENSG00000204392LSM2100100.000ENSPANG00000024577LSM2100100.000Papio_anubis
ENSG00000204392LSM210098.947ENSPKIG00000007028si:ch73-14h10.210098.947Paramormyrops_kingsleyae
ENSG00000204392LSM299100.000ENSPSIG00000004458LSM278100.000Pelodiscus_sinensis
ENSG00000204392LSM29996.809ENSPMGG00000018511si:ch73-14h10.210096.809Periophthalmus_magnuspinnatus
ENSG00000204392LSM29998.936ENSPCIG00000018560-9598.936Phascolarctos_cinereus
ENSG00000204392LSM210098.947ENSPFOG00000001621si:ch73-14h10.210098.947Poecilia_formosa
ENSG00000204392LSM210098.947ENSPLAG00000017165si:ch73-14h10.210098.947Poecilia_latipinna
ENSG00000204392LSM210098.947ENSPMEG00000019574si:ch73-14h10.210098.947Poecilia_mexicana
ENSG00000204392LSM29997.872ENSPREG00000016534si:ch73-14h10.210097.872Poecilia_reticulata
ENSG00000204392LSM2100100.000ENSPPYG00000016461-54100.000Pongo_abelii
ENSG00000204392LSM2100100.000ENSPCAG00000013737LSM2100100.000Procavia_capensis
ENSG00000204392LSM2100100.000ENSPCOG00000020134LSM2100100.000Propithecus_coquereli
ENSG00000204392LSM2100100.000ENSPVAG00000012405LSM2100100.000Pteropus_vampyrus
ENSG00000204392LSM210098.947ENSPNYG00000019298smx510098.947Pundamilia_nyererei
ENSG00000204392LSM210098.947ENSPNAG00000027769si:ch73-14h10.210098.947Pygocentrus_nattereri
ENSG00000204392LSM2100100.000ENSRNOG00000048725Lsm2100100.000Rattus_norvegicus
ENSG00000204392LSM25692.453ENSRNOG00000011065AC126899.17692.453Rattus_norvegicus
ENSG00000204392LSM27986.667ENSRBIG00000011356-9186.667Rhinopithecus_bieti
ENSG00000204392LSM2100100.000ENSRBIG00000010172LSM2100100.000Rhinopithecus_bieti
ENSG00000204392LSM27986.667ENSRROG00000030708-9186.667Rhinopithecus_roxellana
ENSG00000204392LSM2100100.000ENSRROG00000030345LSM2100100.000Rhinopithecus_roxellana
ENSG00000204392LSM210063.158YBL026WLSM210063.158Saccharomyces_cerevisiae
ENSG00000204392LSM2100100.000ENSSBOG00000018943LSM2100100.000Saimiri_boliviensis_boliviensis
ENSG00000204392LSM210098.947ENSSFOG00015006734lsm210098.947Scleropages_formosus
ENSG00000204392LSM210098.947ENSSMAG00000001122si:ch73-14h10.210098.947Scophthalmus_maximus
ENSG00000204392LSM210098.947ENSSDUG00000021605smx510098.947Seriola_dumerili
ENSG00000204392LSM210098.947ENSSLDG00000002765si:ch73-14h10.210098.947Seriola_lalandi_dorsalis
ENSG00000204392LSM210098.947ENSSPUG00000009631LSM210098.947Sphenodon_punctatus
ENSG00000204392LSM210098.947ENSSPAG00000016904si:ch73-14h10.210098.947Stegastes_partitus
ENSG00000204392LSM2100100.000ENSSSCG00000039021LSM2100100.000Sus_scrofa
ENSG00000204392LSM29997.872ENSTRUG00000002093si:ch73-14h10.210097.872Takifugu_rubripes
ENSG00000204392LSM26995.455ENSTNIG00000013770si:ch73-14h10.29995.455Tetraodon_nigroviridis
ENSG00000204392LSM2100100.000ENSTTRG00000014131LSM2100100.000Tursiops_truncatus
ENSG00000204392LSM299100.000ENSUMAG00000013425LSM265100.000Ursus_maritimus
ENSG00000204392LSM299100.000ENSVPAG00000001761LSM2100100.000Vicugna_pacos
ENSG00000204392LSM27998.667ENSVVUG00000016264-9398.667Vulpes_vulpes
ENSG00000204392LSM210098.947ENSXETG00000024077lsm210098.947Xenopus_tropicalis
ENSG00000204392LSM29997.872ENSXCOG00000006078si:ch73-14h10.210097.872Xiphophorus_couchianus
ENSG00000204392LSM29997.872ENSXMAG00000028018si:ch73-14h10.210097.872Xiphophorus_maculatus
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0000398mRNA splicing, via spliceosome11991638.ICProcess
GO:0000398mRNA splicing, via spliceosome28781166.IDAProcess
GO:0000398mRNA splicing, via spliceosome-TASProcess
GO:0000932P-body21873635.IBAComponent
GO:0003723RNA binding22658674.22681889.HDAFunction
GO:0003723RNA binding21873635.IBAFunction
GO:0005515protein binding14667819.15231747.16169070.16189514.19628699.21516116.22365833.25416956.27107012.29997244.IPIFunction
GO:0005634nucleus10523320.26912367.IDAComponent
GO:0005654nucleoplasm-TASComponent
GO:0005688U6 snRNP21873635.IBAComponent
GO:0005829cytosol-TASComponent
GO:0017070U6 snRNA binding10523320.NASFunction
GO:0017160Ral GTPase binding24056301.IPIFunction
GO:0043928exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay-TASProcess
GO:0046540U4/U6 x U5 tri-snRNP complex21873635.IBAComponent
GO:0046540U4/U6 x U5 tri-snRNP complex26912367.IDAComponent
GO:0071005U2-type precatalytic spliceosome28781166.IDAComponent
GO:0071013catalytic step 2 spliceosome21873635.IBAComponent
GO:0071013catalytic step 2 spliceosome11991638.IDAComponent
GO:0120115Lsm2-8 complex10523320.IDAComponent
GO:1990726Lsm1-7-Pat1 complex21873635.IBAComponent

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