EuRBPDB

Description

RBDs

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000170473 (Gene tree)
Gene ID: 84305
Gene Symbol: PYM1
Alias: PYM|WIBG
Full Name: PYM homolog 1, exon junction complex associated factor
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 31,206 bases
Position: chr12:55,901,413-55,932,618
Accession: 30258
RBP type: canonical RBP
Summary: (PYM Homolog 1, Exon Junction Complex Associated Factor) is a Protein Coding gene. Diseases associated with PYM1 include Tongue Disease. Among its related pathways are mRNA surveillance pathway and RNA transport.

RNA binding domains(RBDs)

Protein ID	Domain	Pfam ID	E-value	Domain number	Total number
ENSP00000381271	Mago-bind	PF09282.10	2.9e-13	1	1
ENSP00000386156	Mago-bind	PF09282.10	6.8e-13	1	1

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
22681889	The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts	4SURIC & HEK293	2012 May	Baltz AG	DOI: 10.1016/j.molcel.2012.05.021
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & HEK293	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
29431736	Capturing the interactome of newly transcribed RNA	RIC & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & Hela	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & MCF7	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
14968132	Molecular insights into the interaction of PYM with the Mago-Y14 core of the exon junction complex.	EMBO Rep	2004 Mar	Bono F	-
16953428	Biochemical and cellular characterization of the plant ortholog of PYM, a protein that interacts with the exon junction complex core proteins Mago and Y14.	Planta	2007 Feb	Park NI	-
30833725	Identification of antiviral roles for the exon-junction complex and nonsense-mediated decay in flaviviral infection.	Nat Microbiol	2019 Jun	Li M	doi: 10.1038/s41564-019-0375-z

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000557259	PYM1-207	775	-	ENSP00000452447	44 (aa)	-	G3V5P2
ENST00000302533	PYM1-201	890	-	-	- (aa)	-	-
ENST00000547925	PYM1-205	499	-	ENSP00000448858	45 (aa)	-	F8VXH2
ENST00000549939	PYM1-206	653	-	ENSP00000452291	37 (aa)	-	H0YJW5
ENST00000454792	PYM1-204	884	-	ENSP00000402829	77 (aa)	-	F8VT68
ENST00000398213	PYM1-202	1073	-	ENSP00000381271	203 (aa)	-	Q9BRP8
ENST00000408946	PYM1-203	1226	-	ENSP00000386156	204 (aa)	-	Q9BRP8

Gene Model

Click here to download ENSG00000170473's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa03013	RNA transport	KEGG
hsa03015	mRNA surveillance pathway	KEGG

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000170473's network

* RBP PPI network refers to all genes directly bind to RBP

Orthologs

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000170473	PYM1	99	57.944	ENSAPOG00000023045	pym1	94	58.049	Acanthochromis_polyacanthus
ENSG00000170473	PYM1	93	92.553	ENSAMEG00000003091	PYM1	93	92.553	Ailuropoda_melanoleuca
ENSG00000170473	PYM1	99	61.111	ENSACIG00000012769	pym1	94	59.420	Amphilophus_citrinellus
ENSG00000170473	PYM1	99	58.294	ENSAOCG00000021358	pym1	94	58.824	Amphiprion_ocellaris
ENSG00000170473	PYM1	99	58.294	ENSAPEG00000022679	pym1	94	58.824	Amphiprion_percula
ENSG00000170473	PYM1	99	57.944	ENSATEG00000024022	pym1	94	60.488	Anabas_testudineus
ENSG00000170473	PYM1	94	67.980	ENSACAG00000005714	PYM1	94	67.980	Anolis_carolinensis
ENSG00000170473	PYM1	100	99.015	ENSANAG00000036967	PYM1	100	99.015	Aotus_nancymaae
ENSG00000170473	PYM1	100	57.339	ENSAMXG00000007650	pym1	94	60.194	Astyanax_mexicanus
ENSG00000170473	PYM1	94	95.812	ENSBTAG00000031146	PYM1	94	95.812	Bos_taurus
ENSG00000170473	PYM1	100	98.522	ENSCJAG00000041077	PYM1	100	98.522	Callithrix_jacchus
ENSG00000170473	PYM1	100	97.537	ENSCAFG00000000076	PYM1	100	97.537	Canis_familiaris
ENSG00000170473	PYM1	100	97.537	ENSCAFG00020026099	PYM1	100	97.537	Canis_lupus_dingo
ENSG00000170473	PYM1	94	93.194	ENSCHIG00000026207	PYM1	94	93.194	Capra_hircus
ENSG00000170473	PYM1	94	95.288	ENSTSYG00000000787	PYM1	94	95.288	Carlito_syrichta
ENSG00000170473	PYM1	88	93.296	ENSCAPG00000010374	PYM1	94	93.296	Cavia_aperea
ENSG00000170473	PYM1	94	93.717	ENSCPOG00000031546	PYM1	94	93.717	Cavia_porcellus
ENSG00000170473	PYM1	100	99.507	ENSCCAG00000026187	PYM1	100	99.507	Cebus_capucinus
ENSG00000170473	PYM1	100	99.015	ENSCATG00000018801	PYM1	100	99.015	Cercocebus_atys
ENSG00000170473	PYM1	94	88.482	ENSCLAG00000007964	PYM1	94	88.482	Chinchilla_lanigera
ENSG00000170473	PYM1	95	98.958	ENSCSAG00000005291	PYM1	99	98.446	Chlorocebus_sabaeus
ENSG00000170473	PYM1	98	42.593	ENSCING00000006448	-	93	41.463	Ciona_intestinalis
ENSG00000170473	PYM1	98	36.111	ENSCSAVG00000009805	-	89	40.976	Ciona_savignyi
ENSG00000170473	PYM1	100	99.015	ENSCANG00000020338	-	100	99.015	Colobus_angolensis_palliatus
ENSG00000170473	PYM1	98	90.404	ENSCANG00000019757	-	86	95.263	Colobus_angolensis_palliatus
ENSG00000170473	PYM1	94	90.576	ENSCGRG00001018051	-	94	90.576	Cricetulus_griseus_chok1gshd
ENSG00000170473	PYM1	94	75.916	ENSCGRG00001004231	-	93	75.916	Cricetulus_griseus_chok1gshd
ENSG00000170473	PYM1	94	75.916	ENSCGRG00000018933	-	93	75.916	Cricetulus_griseus_crigri
ENSG00000170473	PYM1	94	90.576	ENSCGRG00000012495	-	94	90.576	Cricetulus_griseus_crigri
ENSG00000170473	PYM1	94	55.882	ENSCSEG00000021531	pym1	94	58.128	Cynoglossus_semilaevis
ENSG00000170473	PYM1	95	60.294	ENSCVAG00000017360	pym1	82	60.000	Cyprinodon_variegatus
ENSG00000170473	PYM1	99	57.500	ENSDARG00000046024	pym1	94	55.072	Danio_rerio
ENSG00000170473	PYM1	94	92.670	ENSDNOG00000048414	PYM1	86	92.670	Dasypus_novemcinctus
ENSG00000170473	PYM1	94	94.764	ENSDORG00000029448	Pym1	94	94.764	Dipodomys_ordii
ENSG00000170473	PYM1	93	35.644	FBgn0034918	Pym	88	33.668	Drosophila_melanogaster
ENSG00000170473	PYM1	89	88.889	ENSETEG00000004461	-	94	88.889	Echinops_telfairi
ENSG00000170473	PYM1	93	96.842	ENSEASG00005002271	PYM1	86	96.842	Equus_asinus_asinus
ENSG00000170473	PYM1	100	97.044	ENSECAG00000011870	PYM1	100	97.044	Equus_caballus
ENSG00000170473	PYM1	96	58.291	ENSELUG00000024250	pym1	94	59.091	Esox_lucius
ENSG00000170473	PYM1	100	97.044	ENSFCAG00000013967	PYM1	100	97.044	Felis_catus
ENSG00000170473	PYM1	94	94.241	ENSFDAG00000006314	PYM1	94	94.241	Fukomys_damarensis
ENSG00000170473	PYM1	94	58.911	ENSFHEG00000005884	pym1	94	58.911	Fundulus_heteroclitus
ENSG00000170473	PYM1	94	57.436	ENSGMOG00000007239	pym1	93	58.462	Gadus_morhua
ENSG00000170473	PYM1	94	70.256	ENSGALG00000046169	PYM1	94	70.256	Gallus_gallus
ENSG00000170473	PYM1	99	61.033	ENSGAFG00000003280	pym1	93	61.194	Gambusia_affinis
ENSG00000170473	PYM1	100	55.340	ENSGACG00000010703	pym1	94	55.897	Gasterosteus_aculeatus
ENSG00000170473	PYM1	92	64.216	ENSGAGG00000001973	PYM1	88	64.216	Gopherus_agassizii
ENSG00000170473	PYM1	100	99.510	ENSGGOG00000043246	PYM1	100	99.510	Gorilla_gorilla
ENSG00000170473	PYM1	94	60.294	ENSHBUG00000012719	pym1	94	60.294	Haplochromis_burtoni
ENSG00000170473	PYM1	94	95.288	ENSHGLG00000017155	PYM1	94	95.288	Heterocephalus_glaber_female
ENSG00000170473	PYM1	94	95.288	ENSHGLG00100015341	PYM1	94	95.288	Heterocephalus_glaber_male
ENSG00000170473	PYM1	99	57.619	ENSHCOG00000007987	pym1	80	58.081	Hippocampus_comes
ENSG00000170473	PYM1	100	59.242	ENSIPUG00000005975	wibga	94	58.537	Ictalurus_punctatus
ENSG00000170473	PYM1	100	96.552	ENSSTOG00000014206	PYM1	100	96.552	Ictidomys_tridecemlineatus
ENSG00000170473	PYM1	94	90.576	ENSJJAG00000013338	Pym1	94	90.576	Jaculus_jaculus
ENSG00000170473	PYM1	99	56.757	ENSKMAG00000006351	pym1	95	55.869	Kryptolebias_marmoratus
ENSG00000170473	PYM1	99	59.615	ENSLBEG00000015707	pym1	94	59.296	Labrus_bergylta
ENSG00000170473	PYM1	89	60.733	ENSLACG00000014398	PYM1	90	60.104	Latimeria_chalumnae
ENSG00000170473	PYM1	94	93.717	ENSLAFG00000002369	PYM1	94	93.717	Loxodonta_africana
ENSG00000170473	PYM1	100	99.015	ENSMFAG00000003048	PYM1	100	99.015	Macaca_fascicularis
ENSG00000170473	PYM1	100	99.015	ENSMMUG00000011002	PYM1	100	99.015	Macaca_mulatta
ENSG00000170473	PYM1	100	99.015	ENSMNEG00000034677	PYM1	100	99.015	Macaca_nemestrina
ENSG00000170473	PYM1	100	99.015	ENSMLEG00000007971	PYM1	100	99.015	Mandrillus_leucophaeus
ENSG00000170473	PYM1	99	55.455	ENSMAMG00000001588	pym1	94	57.346	Mastacembelus_armatus
ENSG00000170473	PYM1	94	59.804	ENSMZEG00005026458	pym1	94	59.804	Maylandia_zebra
ENSG00000170473	PYM1	94	90.576	ENSMAUG00000007318	Pym1	94	90.576	Mesocricetus_auratus
ENSG00000170473	PYM1	100	96.552	ENSMICG00000032962	PYM1	100	96.552	Microcebus_murinus
ENSG00000170473	PYM1	94	88.482	ENSMOCG00000010208	Pym1	94	88.482	Microtus_ochrogaster
ENSG00000170473	PYM1	99	57.282	ENSMMOG00000009301	pym1	92	60.309	Mola_mola
ENSG00000170473	PYM1	99	58.491	ENSMALG00000013496	pym1	94	58.209	Monopterus_albus
ENSG00000170473	PYM1	94	90.576	MGP_CAROLIEiJ_G0015953	Pym1	94	90.576	Mus_caroli
ENSG00000170473	PYM1	94	91.623	ENSMUSG00000064030	Pym1	94	91.623	Mus_musculus
ENSG00000170473	PYM1	94	89.529	MGP_PahariEiJ_G0031131	Pym1	94	89.529	Mus_pahari
ENSG00000170473	PYM1	94	91.623	MGP_SPRETEiJ_G0016778	Pym1	94	91.623	Mus_spretus
ENSG00000170473	PYM1	100	97.537	ENSMPUG00000000931	PYM1	100	97.537	Mustela_putorius_furo
ENSG00000170473	PYM1	94	89.529	ENSMLUG00000003586	PYM1	90	93.923	Myotis_lucifugus
ENSG00000170473	PYM1	89	92.778	ENSNGAG00000019207	Pym1	88	92.265	Nannospalax_galili
ENSG00000170473	PYM1	99	61.033	ENSNBRG00000006951	pym1	94	60.294	Neolamprologus_brichardi
ENSG00000170473	PYM1	100	100.000	ENSNLEG00000017588	PYM1	100	100.000	Nomascus_leucogenys
ENSG00000170473	PYM1	88	80.337	ENSMEUG00000001017	PYM1	93	80.226	Notamacropus_eugenii
ENSG00000170473	PYM1	94	89.062	ENSOPRG00000007797	PYM1	94	89.062	Ochotona_princeps
ENSG00000170473	PYM1	94	94.241	ENSODEG00000004289	PYM1	94	94.241	Octodon_degus
ENSG00000170473	PYM1	94	59.420	ENSONIG00000016740	pym1	94	59.420	Oreochromis_niloticus
ENSG00000170473	PYM1	91	90.860	ENSOCUG00000025969	PYM1	83	90.860	Oryctolagus_cuniculus
ENSG00000170473	PYM1	99	61.722	ENSORLG00000030592	pym1	94	61.307	Oryzias_latipes
ENSG00000170473	PYM1	99	61.137	ENSORLG00020011264	pym1	94	61.194	Oryzias_latipes_hni
ENSG00000170473	PYM1	99	62.500	ENSORLG00015005287	pym1	94	62.121	Oryzias_latipes_hsok
ENSG00000170473	PYM1	99	62.136	ENSOMEG00000022250	pym1	94	61.421	Oryzias_melastigma
ENSG00000170473	PYM1	89	97.222	ENSOGAG00000007038	PYM1	88	97.222	Otolemur_garnettii
ENSG00000170473	PYM1	94	93.717	ENSOARG00000010856	PYM1	94	93.717	Ovis_aries
ENSG00000170473	PYM1	100	100.000	ENSPPAG00000043630	PYM1	100	100.000	Pan_paniscus
ENSG00000170473	PYM1	94	95.288	ENSPPRG00000013243	PYM1	94	95.288	Panthera_pardus
ENSG00000170473	PYM1	94	94.764	ENSPTIG00000017380	PYM1	94	94.764	Panthera_tigris_altaica
ENSG00000170473	PYM1	100	100.000	ENSPTRG00000005067	PYM1	100	100.000	Pan_troglodytes
ENSG00000170473	PYM1	100	98.522	ENSPANG00000009562	PYM1	100	98.522	Papio_anubis
ENSG00000170473	PYM1	100	60.849	ENSPKIG00000006301	pym1	94	60.000	Paramormyrops_kingsleyae
ENSG00000170473	PYM1	94	64.251	ENSPSIG00000003043	PYM1	94	64.390	Pelodiscus_sinensis
ENSG00000170473	PYM1	100	62.201	ENSPMGG00000023161	pym1	94	62.437	Periophthalmus_magnuspinnatus
ENSG00000170473	PYM1	94	89.005	ENSPEMG00000009372	Pym1	94	89.005	Peromyscus_maniculatus_bairdii
ENSG00000170473	PYM1	92	80.108	ENSPCIG00000024658	PYM1	91	79.787	Phascolarctos_cinereus
ENSG00000170473	PYM1	99	62.085	ENSPFOG00000008193	pym1	93	62.312	Poecilia_formosa
ENSG00000170473	PYM1	99	61.137	ENSPLAG00000009228	pym1	93	61.307	Poecilia_latipinna
ENSG00000170473	PYM1	99	61.137	ENSPMEG00000001505	pym1	93	61.307	Poecilia_mexicana
ENSG00000170473	PYM1	100	98.039	ENSPPYG00000004635	PYM1	100	98.039	Pongo_abelii
ENSG00000170473	PYM1	100	97.537	ENSPCOG00000019706	PYM1	100	97.537	Propithecus_coquereli
ENSG00000170473	PYM1	95	98.438	ENSPVAG00000011437	PYM1	98	98.438	Pteropus_vampyrus
ENSG00000170473	PYM1	94	60.591	ENSPNYG00000012871	pym1	94	60.099	Pundamilia_nyererei
ENSG00000170473	PYM1	99	58.716	ENSPNAG00000018833	pym1	94	59.330	Pygocentrus_nattereri
ENSG00000170473	PYM1	94	84.896	ENSRNOG00000058130	Pym1	94	84.896	Rattus_norvegicus
ENSG00000170473	PYM1	92	67.914	ENSRNOG00000049415	AABR07055413.1	91	62.766	Rattus_norvegicus
ENSG00000170473	PYM1	100	94.581	ENSRBIG00000033362	PYM1	100	94.581	Rhinopithecus_bieti
ENSG00000170473	PYM1	100	99.015	ENSRROG00000043620	PYM1	100	99.015	Rhinopithecus_roxellana
ENSG00000170473	PYM1	100	99.507	ENSSBOG00000029393	PYM1	100	99.507	Saimiri_boliviensis_boliviensis
ENSG00000170473	PYM1	93	81.481	ENSSHAG00000008280	PYM1	93	81.481	Sarcophilus_harrisii
ENSG00000170473	PYM1	93	64.062	ENSSFOG00015021475	pym1	94	63.590	Scleropages_formosus
ENSG00000170473	PYM1	99	58.294	ENSSMAG00000020912	pym1	94	59.406	Scophthalmus_maximus
ENSG00000170473	PYM1	99	56.279	ENSSDUG00000001807	pym1	94	58.937	Seriola_dumerili
ENSG00000170473	PYM1	99	60.488	ENSSLDG00000013730	pym1	94	62.437	Seriola_lalandi_dorsalis
ENSG00000170473	PYM1	89	91.667	ENSSARG00000009569	PYM1	94	91.667	Sorex_araneus
ENSG00000170473	PYM1	93	63.500	ENSSPUG00000015059	PYM1	94	63.500	Sphenodon_punctatus
ENSG00000170473	PYM1	99	57.477	ENSSPAG00000020100	pym1	94	57.547	Stegastes_partitus
ENSG00000170473	PYM1	94	94.764	ENSSSCG00000040825	PYM1	94	94.764	Sus_scrofa
ENSG00000170473	PYM1	99	59.135	ENSTRUG00000021367	pym1	93	60.204	Takifugu_rubripes
ENSG00000170473	PYM1	99	57.971	ENSTNIG00000012534	pym1	92	55.340	Tetraodon_nigroviridis
ENSG00000170473	PYM1	89	88.889	ENSTBEG00000004208	PYM1	94	88.889	Tupaia_belangeri
ENSG00000170473	PYM1	95	96.354	ENSTTRG00000014971	PYM1	98	96.354	Tursiops_truncatus
ENSG00000170473	PYM1	100	96.059	ENSUAMG00000014521	PYM1	100	96.059	Ursus_americanus
ENSG00000170473	PYM1	94	91.667	ENSUMAG00000016241	PYM1	84	92.973	Ursus_maritimus
ENSG00000170473	PYM1	100	96.552	ENSVVUG00000022749	PYM1	100	96.552	Vulpes_vulpes
ENSG00000170473	PYM1	94	62.626	ENSXETG00000021850	pym1	94	63.500	Xenopus_tropicalis
ENSG00000170473	PYM1	99	61.137	ENSXMAG00000011649	pym1	93	61.307	Xiphophorus_maculatus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	19410547.	IDA	Process
GO:0003723	RNA binding	22681889.	HDA	Function
GO:0003723	RNA binding	21873635.	IBA	Function
GO:0005515	protein binding	16209946.18026120.18066079.19410547.19478851.20436455.21044950.23084401.25416956.25616068.	IPI	Function
GO:0005634	nucleus	-	IDA	Component
GO:0005654	nucleoplasm	-	IEA	Component
GO:0005730	nucleolus	-	IDA	Component
GO:0005737	cytoplasm	21873635.	IBA	Component
GO:0005829	cytosol	-	IDA	Component
GO:0030054	cell junction	-	IDA	Component
GO:0035145	exon-exon junction complex	21873635.	IBA	Component
GO:0035145	exon-exon junction complex	18026120.	IDA	Component
GO:0043022	ribosome binding	18026120.19410547.	IDA	Function
GO:0045727	positive regulation of translation	18026120.	IDA	Process
GO:1903259	exon-exon junction complex disassembly	21873635.	IBA	Process
GO:1903259	exon-exon junction complex disassembly	19410547.	IDA	Process