EuRBPDB

Description

RBDs

RBPome

Expression

Transcripts

Gene Model

Pathways

PPI

Paralogs

Orthologs

Gene Ontology

Description

Ensembl ID: ENSMUSG00000030189 (Gene tree)
Gene ID: 56449
Gene Symbol: Ybx3
Alias: Csda|Dpba|MSY3|MSY4|Yb2|dbpA|oxyR
Full Name: Y box protein 3
Gene Type: protein_coding
Species: Mus_musculus
Status: confidence
Strand: Minus strand
Length: 23622 bases
Position: chr6:131364855-131388476
Accession: 2137670
RBP type: canonical RBP
Summary: -

RNA binding domains(RBDs)

Protein ID	Domain	Pfam ID	E-value	Domain number	Total number
ENSMUSP00000032309	CSD	PF00313.22	4.9e-26	1	1
ENSMUSP00000085172	CSD	PF00313.22	8.9e-26	1	1

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
25993413	Label-Free Protein RNA Interactome Analysis Identifies Khsrp Signaling Downstream of the p38/Mk2 Kinase Complex as a Critical Modulator of Cell Cycle Progression	IC & MEF	2015	Boucas J	DOI: 10.1371/journal.pone.0125745
27281784	Identification of RNA binding Proteins in Macrophages by Interactome Capture	IC & RAW264.7	2016 Jun 8	Liepelt A	DOI: 10.1074/mcp.M115.056564
23912277	The RNA binding protein repertoire of embryonic stem cells	IC & mESC	2013 Aug 4	Kwon SC	DOI: 10.1038/nsmb.2638
27452465	The Cardiomyocyte RNA Binding Proteome: Links to Intermediary Metabolism and Heart Disease	IC & HL_1	2016 Jul 21	Liao Y	DOI: 10.1016/j.celrep.2016.06.084
27452465	The Cardiomyocyte RNA Binding Proteome: Links to Intermediary Metabolism and Heart Disease	RBDmap & HL_1	2016 Jul 21	Liao Y	DOI: 10.1016/j.celrep.2016.06.084

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENSMUST00000204481	-	745	-	-	- (aa)	-	-
ENSMUST00000087865	-	1684	-	ENSMUSP00000085172	292 (aa)	-	Q9JKB3
ENSMUST00000205035	-	838	-	-	- (aa)	-	-
ENSMUST00000032309	-	1853	-	ENSMUSP00000032309	361 (aa)	-	Q9JKB3
ENSMUST00000203157	-	1035	-	-	- (aa)	-	-

Gene Model

Click here to download ENSMUSG00000030189's gene model file

Pathways

Pathway ID	Pathway Name	Source
mmu04530	Tight junction	KEGG

Protein-Protein Interaction (PPI)

Clik here to download ENSMUSG00000030189's network

Paralogs

Ensembl ID	Gene Symbol	Coverage	Identiy	Paralog	Gene Symbol	Coverage	Identiy
ENSMUSG00000030189	Ybx3	83	50.000	ENSMUSG00000028639	Ybx1	90	57.143

Orthologs

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSMUSG00000030189	Ybx3	100	83.871	ENSG00000060138	YBX3	91	97.619	Homo_sapiens
ENSMUSG00000030189	Ybx3	96	85.227	ENSAMEG00000009393	YBX3	89	90.385	Ailuropoda_melanoleuca
ENSMUSG00000030189	Ybx3	73	98.077	ENSAPLG00000003147	YBX3	76	98.077	Anas_platyrhynchos
ENSMUSG00000030189	Ybx3	86	86.520	ENSANAG00000024492	-	100	89.241	Aotus_nancymaae
ENSMUSG00000030189	Ybx3	100	64.120	ENSANAG00000033366	-	77	78.049	Aotus_nancymaae
ENSMUSG00000030189	Ybx3	100	83.158	ENSBTAG00000009663	YBX3	83	86.901	Bos_taurus
ENSMUSG00000030189	Ybx3	100	83.827	ENSCJAG00000021660	-	86	88.365	Callithrix_jacchus
ENSMUSG00000030189	Ybx3	96	66.549	ENSCJAG00000033824	-	88	84.810	Callithrix_jacchus
ENSMUSG00000030189	Ybx3	79	93.031	ENSCAFG00000013401	YBX3	100	93.548	Canis_familiaris
ENSMUSG00000030189	Ybx3	100	81.867	ENSCAFG00020006412	YBX3	84	88.924	Canis_lupus_dingo
ENSMUSG00000030189	Ybx3	100	83.158	ENSCHIG00000010863	YBX3	88	89.776	Capra_hircus
ENSMUSG00000030189	Ybx3	100	73.401	ENSTSYG00000035821	-	72	95.745	Carlito_syrichta
ENSMUSG00000030189	Ybx3	79	93.031	ENSTSYG00000004204	-	96	88.254	Carlito_syrichta
ENSMUSG00000030189	Ybx3	79	88.112	ENSCAPG00000015039	YBX3	93	88.112	Cavia_aperea
ENSMUSG00000030189	Ybx3	81	89.078	ENSCPOG00000011329	YBX3	92	87.540	Cavia_porcellus
ENSMUSG00000030189	Ybx3	100	83.602	ENSCCAG00000016469	YBX3	85	88.365	Cebus_capucinus
ENSMUSG00000030189	Ybx3	100	83.646	ENSCATG00000034411	YBX3	85	88.679	Cercocebus_atys
ENSMUSG00000030189	Ybx3	79	89.161	ENSCLAG00000016030	YBX3	94	89.161	Chinchilla_lanigera
ENSMUSG00000030189	Ybx3	100	83.378	ENSCSAG00000008744	YBX3	85	88.365	Chlorocebus_sabaeus
ENSMUSG00000030189	Ybx3	94	76.301	ENSCHOG00000011988	YBX3	56	95.745	Choloepus_hoffmanni
ENSMUSG00000030189	Ybx3	80	79.381	ENSCPBG00000014147	YBX3	78	86.957	Chrysemys_picta_bellii
ENSMUSG00000030189	Ybx3	57	58.140	ENSCING00000010654	yb1/2/3	73	54.673	Ciona_intestinalis
ENSMUSG00000030189	Ybx3	81	89.831	ENSCANG00000036801	YBX3	100	88.571	Colobus_angolensis_palliatus
ENSMUSG00000030189	Ybx3	100	97.784	ENSCGRG00001016148	Ybx3	100	97.784	Cricetulus_griseus_chok1gshd
ENSMUSG00000030189	Ybx3	79	96.194	ENSCGRG00000004563	Ybx3	98	96.194	Cricetulus_griseus_crigri
ENSMUSG00000030189	Ybx3	91	82.371	ENSDORG00000009103	Ybx3	89	85.079	Dipodomys_ordii
ENSMUSG00000030189	Ybx3	78	82.807	ENSETEG00000002557	YBX3	99	82.042	Echinops_telfairi
ENSMUSG00000030189	Ybx3	100	81.572	ENSEASG00005014726	YBX3	100	84.011	Equus_asinus_asinus
ENSMUSG00000030189	Ybx3	100	84.553	ENSECAG00000013777	YBX3	100	86.992	Equus_caballus
ENSMUSG00000030189	Ybx3	78	89.789	ENSEEUG00000010415	YBX3	100	91.197	Erinaceus_europaeus
ENSMUSG00000030189	Ybx3	100	84.718	ENSFCAG00000027748	YBX3	85	91.167	Felis_catus
ENSMUSG00000030189	Ybx3	78	64.336	ENSFALG00000003661	YBX3	71	98.837	Ficedula_albicollis
ENSMUSG00000030189	Ybx3	79	85.315	ENSFDAG00000021192	YBX3	92	85.315	Fukomys_damarensis
ENSMUSG00000030189	Ybx3	91	71.481	ENSGALG00000031890	YBX3	78	86.087	Gallus_gallus
ENSMUSG00000030189	Ybx3	91	73.881	ENSGAGG00000017780	YBX3	78	88.596	Gopherus_agassizii
ENSMUSG00000030189	Ybx3	100	83.646	ENSGGOG00000001352	YBX3	85	88.679	Gorilla_gorilla
ENSMUSG00000030189	Ybx3	83	77.632	ENSHGLG00000014798	-	90	80.000	Heterocephalus_glaber_female
ENSMUSG00000030189	Ybx3	75	80.882	ENSHGLG00000015495	-	87	79.592	Heterocephalus_glaber_female
ENSMUSG00000030189	Ybx3	74	90.826	ENSHGLG00100003589	YBX3	87	90.826	Heterocephalus_glaber_male
ENSMUSG00000030189	Ybx3	93	84.412	ENSSTOG00000032577	-	87	85.577	Ictidomys_tridecemlineatus
ENSMUSG00000030189	Ybx3	79	87.324	ENSSTOG00000002108	-	88	87.324	Ictidomys_tridecemlineatus
ENSMUSG00000030189	Ybx3	81	71.088	ENSJJAG00000014239	Ybx3	100	85.417	Jaculus_jaculus
ENSMUSG00000030189	Ybx3	100	86.992	ENSLAFG00000017247	YBX3	94	86.076	Loxodonta_africana
ENSMUSG00000030189	Ybx3	100	83.602	ENSMFAG00000039369	YBX3	85	88.365	Macaca_fascicularis
ENSMUSG00000030189	Ybx3	88	85.538	ENSMMUG00000022469	YBX3	98	88.365	Macaca_mulatta
ENSMUSG00000030189	Ybx3	100	83.333	ENSMNEG00000045109	YBX3	85	88.365	Macaca_nemestrina
ENSMUSG00000030189	Ybx3	93	82.006	ENSMLEG00000033618	YBX3	81	91.608	Mandrillus_leucophaeus
ENSMUSG00000030189	Ybx3	72	98.095	ENSMGAG00000014224	YBX3	93	100.000	Meleagris_gallopavo
ENSMUSG00000030189	Ybx3	88	97.179	ENSMAUG00000012185	Ybx3	100	97.179	Mesocricetus_auratus
ENSMUSG00000030189	Ybx3	100	85.135	ENSMICG00000038002	-	85	91.772	Microcebus_murinus
ENSMUSG00000030189	Ybx3	100	74.150	ENSMICG00000031459	-	85	76.543	Microcebus_murinus
ENSMUSG00000030189	Ybx3	86	96.117	ENSMOCG00000016291	Ybx3	100	97.872	Microtus_ochrogaster
ENSMUSG00000030189	Ybx3	78	84.266	ENSMODG00000018248	YBX3	91	83.972	Monodelphis_domestica
ENSMUSG00000030189	Ybx3	100	99.658	MGP_CAROLIEiJ_G0028947	Ybx3	100	99.658	Mus_caroli
ENSMUSG00000030189	Ybx3	100	99.446	MGP_PahariEiJ_G0022709	Ybx3	100	99.446	Mus_pahari
ENSMUSG00000030189	Ybx3	100	99.723	MGP_SPRETEiJ_G0029994	Ybx3	100	99.723	Mus_spretus
ENSMUSG00000030189	Ybx3	100	69.737	ENSMPUG00000011810	YBX3	85	75.077	Mustela_putorius_furo
ENSMUSG00000030189	Ybx3	73	89.963	ENSMLUG00000007476	YBX3	100	89.963	Myotis_lucifugus
ENSMUSG00000030189	Ybx3	81	90.136	ENSNGAG00000000710	Ybx3	100	86.992	Nannospalax_galili
ENSMUSG00000030189	Ybx3	87	83.489	ENSNLEG00000034844	YBX3	90	84.906	Nomascus_leucogenys
ENSMUSG00000030189	Ybx3	87	81.505	ENSODEG00000017957	YBX3	93	83.544	Octodon_degus
ENSMUSG00000030189	Ybx3	81	88.095	ENSOCUG00000001889	YBX3	88	87.748	Oryctolagus_cuniculus
ENSMUSG00000030189	Ybx3	100	85.411	ENSOGAG00000013245	YBX3	86	90.093	Otolemur_garnettii
ENSMUSG00000030189	Ybx3	71	97.938	ENSOARG00000020919	YBX3	99	80.602	Ovis_aries
ENSMUSG00000030189	Ybx3	100	81.096	ENSPPAG00000039068	YBX3	82	91.554	Pan_paniscus
ENSMUSG00000030189	Ybx3	100	84.987	ENSPPRG00000005859	YBX3	85	91.483	Panthera_pardus
ENSMUSG00000030189	Ybx3	78	93.662	ENSPTIG00000005322	YBX3	81	93.357	Panthera_tigris_altaica
ENSMUSG00000030189	Ybx3	100	83.422	ENSPTRG00000004681	YBX3	85	88.679	Pan_troglodytes
ENSMUSG00000030189	Ybx3	100	83.871	ENSPANG00000010280	YBX3	85	88.679	Papio_anubis
ENSMUSG00000030189	Ybx3	58	99.038	ENSPSIG00000009247	YBX3	90	100.000	Pelodiscus_sinensis
ENSMUSG00000030189	Ybx3	83	96.680	ENSPEMG00000010391	-	92	96.680	Peromyscus_maniculatus_bairdii
ENSMUSG00000030189	Ybx3	88	97.468	ENSPEMG00000012132	-	100	97.468	Peromyscus_maniculatus_bairdii
ENSMUSG00000030189	Ybx3	71	83.398	ENSPCIG00000029949	YBX3	100	83.398	Phascolarctos_cinereus
ENSMUSG00000030189	Ybx3	100	83.827	ENSPPYG00000004279	YBX3	100	84.906	Pongo_abelii
ENSMUSG00000030189	Ybx3	78	84.722	ENSPCAG00000001397	YBX3	100	86.806	Procavia_capensis
ENSMUSG00000030189	Ybx3	51	91.257	ENSPCOG00000011663	YBX3	80	87.805	Propithecus_coquereli
ENSMUSG00000030189	Ybx3	82	78.333	ENSPVAG00000006740	YBX3	85	77.918	Pteropus_vampyrus
ENSMUSG00000030189	Ybx3	100	98.615	ENSRNOG00000005480	Ybx3	100	98.615	Rattus_norvegicus
ENSMUSG00000030189	Ybx3	100	83.558	ENSRBIG00000039208	YBX3	100	84.097	Rhinopithecus_bieti
ENSMUSG00000030189	Ybx3	100	83.558	ENSRROG00000029638	YBX3	100	84.636	Rhinopithecus_roxellana
ENSMUSG00000030189	Ybx3	100	77.628	ENSSBOG00000030573	YBX3	86	90.034	Saimiri_boliviensis_boliviensis
ENSMUSG00000030189	Ybx3	66	98.837	ENSSHAG00000003262	YBX3	98	84.192	Sarcophilus_harrisii
ENSMUSG00000030189	Ybx3	91	85.965	ENSSSCG00000000633	YBX3	84	90.625	Sus_scrofa
ENSMUSG00000030189	Ybx3	72	97.143	ENSTGUG00000012047	YBX3	75	97.143	Taeniopygia_guttata
ENSMUSG00000030189	Ybx3	100	80.654	ENSTBEG00000012570	YBX3	83	90.698	Tupaia_belangeri
ENSMUSG00000030189	Ybx3	72	82.331	ENSTTRG00000008045	YBX3	100	83.459	Tursiops_truncatus
ENSMUSG00000030189	Ybx3	76	89.531	ENSUAMG00000016662	YBX3	100	89.531	Ursus_americanus
ENSMUSG00000030189	Ybx3	78	92.958	ENSUMAG00000016118	YBX3	94	92.657	Ursus_maritimus
ENSMUSG00000030189	Ybx3	59	100.000	ENSVPAG00000000876	YBX3	100	70.070	Vicugna_pacos
ENSMUSG00000030189	Ybx3	76	89.170	ENSVVUG00000004956	YBX3	100	89.531	Vulpes_vulpes
ENSMUSG00000030189	Ybx3	74	72.727	ENSXETG00000016239	ybx3	86	82.857	Xenopus_tropicalis

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000122	negative regulation of transcription by RNA polymerase II	17934523.	IDA	Process
GO:0000122	negative regulation of transcription by RNA polymerase II	-	ISO	Process
GO:0000977	RNA polymerase II regulatory region sequence-specific DNA binding	17934523.	IDA	Function
GO:0001227	DNA-binding transcription repressor activity, RNA polymerase II-specific	17934523.	IDA	Function
GO:0001701	in utero embryonic development	16954378.	IGI	Process
GO:0003676	nucleic acid binding	-	IEA	Function
GO:0003677	DNA binding	12433987.	IDA	Function
GO:0003697	single-stranded DNA binding	18676817.	IDA	Function
GO:0003697	single-stranded DNA binding	-	ISO	Function
GO:0003723	RNA binding	-	IEA	Function
GO:0003730	mRNA 3'-UTR binding	10772793.	IDA	Function
GO:0005515	protein binding	11591653.19710015.	IPI	Function
GO:0005634	nucleus	12433987.	IDA	Component
GO:0005634	nucleus	-	ISO	Component
GO:0005737	cytoplasm	10772793.	IDA	Component
GO:0005829	cytosol	-	ISO	Component
GO:0005921	gap junction	16650609.	ISO	Component
GO:0007283	spermatogenesis	16954378.	IMP	Process
GO:0008584	male gonad development	16954378.	IMP	Process
GO:0009566	fertilization	16954378.	IMP	Process
GO:0043021	ribonucleoprotein complex binding	10772793.	IDA	Function
GO:0043066	negative regulation of apoptotic process	16954378.	IMP	Process
GO:0046622	positive regulation of organ growth	16954378.	IMP	Process
GO:0048642	negative regulation of skeletal muscle tissue development	18676817.	IDA	Process
GO:0060546	negative regulation of necroptotic process	-	ISO	Process
GO:0071356	cellular response to tumor necrosis factor	-	ISO	Process
GO:0071474	cellular hyperosmotic response	-	ISO	Process
GO:1902219	negative regulation of intrinsic apoptotic signaling pathway in response to osmotic stress	-	ISO	Process
GO:1905538	polysome binding	12117816.	IDA	Function