EuRBPDB

Description

RBDs

RBPome

Literatures

Expression

Transcripts

Gene Model

Phenotypes

GWAS

PPI

Paralogs

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000004534 (Gene tree)
Gene ID: 10180
Gene Symbol: RBM6
Alias: DEF-3|3G2|NY-LU-12|g16|DEF3
Full Name: RNA binding motif protein 6
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 160,039 bases
Position: chr3:49,940,007-50,100,045
Accession: 9903
RBP type: canonical RBP
Summary: (RNA Binding Motif Protein 6) is a Protein Coding gene. Diseases associated with RBM6 include Lung Cancer. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is RBM5.

RNA binding domains(RBDs)

Protein ID	Domain	Pfam ID	E-value	Domain number	Total number
ENSP00000392475	G-patch	PF01585.23	1.4e-08	1	1
ENSP00000392939	G-patch	PF01585.23	1.7e-07	1	1
ENSP00000393530	G-patch	PF01585.23	1.7e-07	1	1
ENSP00000396466	G-patch	PF01585.23	3.3e-07	1	1
ENSP00000266022	G-patch	PF01585.23	3.9e-07	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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & HEK293	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 & HEK293	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
29431736	Capturing the interactome of newly transcribed RNA	NascentRICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
29431736	Capturing the interactome of newly transcribed RNA	RIC & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
22658674	Insights into RNA biology from an atlas of mammalian mRNA-binding proteins	RIC & Hela	2012 May 31	Castello A	DOI: 10.1016/j.cell.2012.04.031
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
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30352994	Discovery of RNA-binding proteins and characterization of their dynamic responses by enhanced RNA interactome capture	RIC & Jurkat	2018 Oct 23	Perez-Perri JI	DOI:10.1038/s41467-018-06557-8

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
17908320	RBM6-RBM5 transcription-induced chimeras are differentially expressed in tumours.	BMC Genomics	2007 Oct 1	Wang K	-
10352938	A comparison of genomic structures and expression patterns of two closely related flanking genes in a critical lung cancer region at 3p21.3.	Eur J Hum Genet	1999 May-Jun	Timmer T	-
10353602	DEF-3(g16/NY-LU-12), an RNA binding protein from the 3p21.3 homozygous deletion region in SCLC.	Oncogene	1999 Apr 22	Drabkin HA	-
31207145	RNA-Binding Motif Protein 6 is a Candidate Serum Biomarker for Pancreatic Cancer.	Proteomics Clin Appl	2019 Jun 17:e1900048	Duan B	doi: 10.1002/prca.201900048
9500467	Human lung cancer antigens recognized by autologous antibodies: definition of a novel cDNA derived from the tumor suppressor gene locus on chromosome 3p21.3.	Cancer Res	1998 Mar 1	Gure AO	-
17360941	A novel fusion of RBM6 to CSF1R in acute megakaryoblastic leukemia.	Blood	2007 Jul 1	Gu TL	-
21086038	Subnuclear targeting of the RNA-binding motif protein RBM6 to splicing speckles and nascent transcripts.	Chromosome Res	2010 Dec	Heath E	doi: 10.1007/s10577-010-9170-7
24332178	RBM5, 6, and 10 differentially regulate NUMB alternative splicing to control cancer cell proliferation.	Mol Cell	2013 Dec 12	Bechara EG	doi: 10.1016/j.molcel.2013.11.010.
30772516	RNA-binding protein RBM6 as a tumor suppressor gene represses the growth and progression in laryngocarcinoma.	Gene	2019 May 20	Wang Q	doi: 10.1016/j.gene.2019.02.025
29450990	Splicing Site Recognition by Synergy of Three Domains in Splicing Factor RBM10.	Biochemistry	2018 Mar 13	Serrano P	doi: 10.1021/acs.biochem.7b01242

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000488807	RBM6-218	675	-	-	- (aa)	-	-
ENST00000425608	RBM6-205	1886	-	ENSP00000408665	520 (aa)	-	P78332
ENST00000466247	RBM6-215	500	-	-	- (aa)	-	-
ENST00000441115	RBM6-209	1876	-	-	- (aa)	-	-
ENST00000419610	RBM6-202	2128	-	ENSP00000396410	35 (aa)	-	F8WCT0
ENST00000266022	RBM6-201	3750	-	ENSP00000266022	1123 (aa)	-	P78332
ENST00000434592	RBM6-207	2342	-	ENSP00000399942	199 (aa)	-	F8WF63
ENST00000464013	RBM6-214	397	-	-	- (aa)	-	-
ENST00000478026	RBM6-216	480	-	-	- (aa)	-	-
ENST00000438912	RBM6-208	473	-	ENSP00000403865	120 (aa)	-	C9JII0
ENST00000421682	RBM6-203	684	-	ENSP00000392475	119 (aa)	-	C9J250
ENST00000493652	RBM6-220	581	-	-	- (aa)	-	-
ENST00000443081	RBM6-211	4010	XM_005264784	ENSP00000396466	991 (aa)	XP_005264841	E9PGM9
ENST00000433811	RBM6-206	582	-	ENSP00000389763	76 (aa)	-	C9JMC8
ENST00000442092	RBM6-210	2260	XM_017005497	ENSP00000393530	601 (aa)	XP_016860986	P78332
ENST00000422955	RBM6-204	2324	XM_005264785	ENSP00000392939	601 (aa)	XP_005264842	P78332
ENST00000454079	RBM6-213	4324	-	ENSP00000406548	697 (aa)	-	F8WCA5
ENST00000483350	RBM6-217	988	-	-	- (aa)	-	-
ENST00000491874	RBM6-219	480	-	-	- (aa)	-	-
ENST00000446471	RBM6-212	695	-	ENSP00000394336	156 (aa)	-	C9JSL1

Gene Model

Click here to download ENSG00000004534's gene model file

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000004534	Alcoholism	6.07E-05	-
ENSG00000004534	Alcoholism	6.15E-05	-
ENSG00000004534	Menarche	8E-12	25231870
ENSG00000004534	Menarche	2E-8	21102462
ENSG00000004534	Education	9E-9	27225129
ENSG00000004534	Education	3E-12	27225129
ENSG00000004534	Education	2E-8	27225129

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000004534	rs6800916	3	50015440	A	Educational attainment (years of education)	27225129	NR unit decrease	0.024491152	EFO_0004784
ENSG00000004534	rs2624818	3	50018832	A	Educational attainment (years of education)	27225129	NR unit increase	0.021383287	EFO_0004784
ENSG00000004534	rs112634398	3	50038061	A	Educational attainment (years of education)	27225129	NR unit increase	0.038380705	EFO_0004784
ENSG00000004534	rs6762477	3	50055776	G	Menarche (age at onset)	25231870	[0.028-0.052] unit increase	0.04	EFO_0004703
ENSG00000004534	rs2013208	3	50091966	T	HDL cholesterol	24097068	[NR] unit increase	0.025	EFO_0004612
ENSG00000004534	rs4688759	3	49970685	C	Blood protein levels	28240269	[0.83-1.09] unit increase	0.9591	EFO_0008298
ENSG00000004534	rs35849525	3	50029917	T	Intelligence (MTAG)	29326435	[0.022-0.036] unit increase	0.029065153	EFO_0004337
ENSG00000004534	rs2624816	3	50079879	T	Intelligence (MTAG)	29326435	[0.026-0.038] unit decrease	0.032145794	EFO_0004337
ENSG00000004534	rs6762477	3	50055776	G	Menarche (age at onset)	21102462	[1.72-3.28] week increase	2.5	EFO_0004703
ENSG00000004534	rs2013208	3	50091966	T	HDL cholesterol levels	28334899	[0.018-0.032] unit increase (EA Beta values)	0.0254	EFO_0004612
ENSG00000004534	rs17304079	3	50047720	A	Cognitive performance (MTAG)	30038396	[0.026-0.036] unit increase	0.0309	EFO_0008354
ENSG00000004534	rs11130226	3	49955758	T	General cognitive ability	29844566	z-score increase	7.287	EFO_0004337
ENSG00000004534	rs35012435	3	49994407	T	Intelligence	29942086	z-score decrease	6.76	EFO_0004337
ENSG00000004534	rs2013208	3	50091966	T	Intelligence	29942086	z-score increase	9.775	EFO_0004337
ENSG00000004534	rs6800913	3	50015434	?	Heel bone mineral density	30048462	[0.024-0.033] unit increase	0.0285482	EFO_0009270
ENSG00000004534	rs2624834	3	50094698	G	Heel bone mineral density	30598549	[0.013-0.022] unit increase	0.0175388	EFO_0009270
ENSG00000004534	rs112634398	3	50038061	A	Educational attainment (years of education)	30038396	[0.015-0.029] unit increase	0.0223	EFO_0004784
ENSG00000004534	rs4688760	3	49943163	T	Insomnia symptoms (never/rarely vs. usually)	30804566	[1.02-1.05]	1.03	EFO_0007876
ENSG00000004534	rs4688760	3	49943163	T	Insomnia symptoms (never/rarely vs. sometimes/usually)	30804566	[1.02-1.05]	1.03	EFO_0007876
ENSG00000004534	rs1986599	3	49997204	G	Body fat distribution (leg fat ratio)	30664634	NR unit increase (replication)	0.01158	EFO_0004341
ENSG00000004534	rs62262139	3	49984616	A	Osteoarthritis	30664745	[1.03-1.05]	1.04	EFO_0002506
ENSG00000004534	rs2013208	3	50091966	T	HDL cholesterol x physical activity interaction (2df test)	30670697			EFO_0007805\|EFO_0003940
ENSG00000004534	rs1986599	3	49997204	G	Body fat distribution (arm fat ratio)	30664634	NR unit increase (replication)	0.02692	EFO_0004341
ENSG00000004534	rs1986599	3	49997204	G	Body fat distribution (arm fat ratio)	30664634	NR unit increase (replication)	0.02323	EFO_0004341
ENSG00000004534	rs1986599	3	49997204	G	Body fat distribution (trunk fat ratio)	30664634	NR unit decrease (replication)	0.01826	EFO_0004341
ENSG00000004534	rs1986599	3	49997204	G	Body fat distribution (trunk fat ratio)	30664634	NR unit decrease (replication)	0.02446	EFO_0004341
ENSG00000004534	rs1986599	3	49997204	G	Body fat distribution (trunk fat ratio)	30664634	NR unit decrease (replication)	0.0212	EFO_0004341
ENSG00000004534	rs12636669	3	49965890	T	Chronotype	30696823		1.0586559	EFO_0008328
ENSG00000004534	rs12636669	3	49965890	T	Morning person	30696823		1.0596	EFO_0008328

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000004534's network

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

Paralogs

Ensembl ID	Gene Symbol	Coverage	Identiy	Paralog	Gene Symbol	Coverage	Identiy
ENSG00000004534	RBM6	71	37.666	ENSG00000003756	RBM5	70	36.870
ENSG00000004534	RBM6	89	33.067	ENSG00000182872	RBM10	69	33.509

Orthologs

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000004534	RBM6	100	98.684	ENSAMEG00000012049	RBM6	100	92.431	Ailuropoda_melanoleuca
ENSG00000004534	RBM6	100	70.886	ENSAPLG00000003536	RBM6	100	58.347	Anas_platyrhynchos
ENSG00000004534	RBM6	100	75.000	ENSACAG00000008480	RBM6	100	54.390	Anolis_carolinensis
ENSG00000004534	RBM6	100	98.684	ENSANAG00000037161	RBM6	100	97.061	Aotus_nancymaae
ENSG00000004534	RBM6	100	98.684	ENSBTAG00000006328	RBM6	100	90.828	Bos_taurus
ENSG00000004534	RBM6	100	99.167	ENSCJAG00000004620	RBM6	100	97.506	Callithrix_jacchus
ENSG00000004534	RBM6	100	98.684	ENSCAFG00000010914	RBM6	100	92.431	Canis_familiaris
ENSG00000004534	RBM6	100	98.684	ENSCAFG00020022120	RBM6	100	92.431	Canis_lupus_dingo
ENSG00000004534	RBM6	100	98.684	ENSCHIG00000007341	RBM6	100	90.739	Capra_hircus
ENSG00000004534	RBM6	100	97.368	ENSTSYG00000012969	RBM6	100	93.623	Carlito_syrichta
ENSG00000004534	RBM6	100	91.667	ENSCPOG00000008146	RBM6	100	91.065	Cavia_porcellus
ENSG00000004534	RBM6	100	100.000	ENSCATG00000032064	RBM6	100	98.043	Cercocebus_atys
ENSG00000004534	RBM6	100	97.368	ENSCLAG00000012000	RBM6	100	91.541	Chinchilla_lanigera
ENSG00000004534	RBM6	82	91.837	ENSCSAG00000014407	-	78	91.837	Chlorocebus_sabaeus
ENSG00000004534	RBM6	77	59.236	ENSCPBG00000002465	-	100	58.599	Chrysemys_picta_bellii
ENSG00000004534	RBM6	100	100.000	ENSCANG00000043615	RBM6	100	96.532	Colobus_angolensis_palliatus
ENSG00000004534	RBM6	100	97.368	ENSDNOG00000011746	RBM6	100	91.289	Dasypus_novemcinctus
ENSG00000004534	RBM6	99	94.958	ENSDORG00000004146	-	100	89.909	Dipodomys_ordii
ENSG00000004534	RBM6	100	96.053	ENSETEG00000012770	RBM6	100	81.940	Echinops_telfairi
ENSG00000004534	RBM6	100	98.684	ENSEASG00005011832	RBM6	100	93.321	Equus_asinus_asinus
ENSG00000004534	RBM6	100	98.684	ENSECAG00000015226	RBM6	100	93.321	Equus_caballus
ENSG00000004534	RBM6	100	98.684	ENSFCAG00000014634	RBM6	100	92.965	Felis_catus
ENSG00000004534	RBM6	100	72.152	ENSFALG00000008967	RBM6	100	56.026	Ficedula_albicollis
ENSG00000004534	RBM6	100	96.053	ENSFDAG00000014451	RBM6	100	91.808	Fukomys_damarensis
ENSG00000004534	RBM6	100	73.418	ENSGALG00000035578	RBM6	100	58.097	Gallus_gallus
ENSG00000004534	RBM6	80	46.316	ENSGAGG00000007955	-	98	46.316	Gopherus_agassizii
ENSG00000004534	RBM6	100	100.000	ENSGGOG00000014459	RBM6	100	99.667	Gorilla_gorilla
ENSG00000004534	RBM6	100	90.833	ENSHGLG00000005755	-	100	80.000	Heterocephalus_glaber_female
ENSG00000004534	RBM6	100	97.368	ENSHGLG00000013189	-	100	90.739	Heterocephalus_glaber_female
ENSG00000004534	RBM6	100	97.368	ENSHGLG00100012994	-	100	91.273	Heterocephalus_glaber_male
ENSG00000004534	RBM6	100	98.684	ENSSTOG00000002392	RBM6	100	91.362	Ictidomys_tridecemlineatus
ENSG00000004534	RBM6	100	89.351	ENSJJAG00000016774	Rbm6	100	89.001	Jaculus_jaculus
ENSG00000004534	RBM6	100	95.000	ENSLAFG00000006727	RBM6	100	91.120	Loxodonta_africana
ENSG00000004534	RBM6	100	93.333	ENSMFAG00000040603	-	100	93.333	Macaca_fascicularis
ENSG00000004534	RBM6	100	99.167	ENSMMUG00000003494	RBM6	100	97.883	Macaca_mulatta
ENSG00000004534	RBM6	100	99.167	ENSMLEG00000032642	RBM6	100	97.586	Mandrillus_leucophaeus
ENSG00000004534	RBM6	99	59.015	ENSMGAG00000002602	RBM6	100	59.665	Meleagris_gallopavo
ENSG00000004534	RBM6	100	98.684	ENSMICG00000016174	RBM6	100	93.767	Microcebus_murinus
ENSG00000004534	RBM6	100	91.139	ENSMODG00000012312	RBM6	100	79.007	Monodelphis_domestica
ENSG00000004534	RBM6	100	98.684	ENSMPUG00000013269	RBM6	100	86.643	Mustela_putorius_furo
ENSG00000004534	RBM6	100	90.833	ENSNGAG00000015804	Rbm6	100	89.606	Nannospalax_galili
ENSG00000004534	RBM6	100	100.000	ENSNLEG00000006932	RBM6	100	96.438	Nomascus_leucogenys
ENSG00000004534	RBM6	98	79.624	ENSMEUG00000006081	RBM6	94	80.825	Notamacropus_eugenii
ENSG00000004534	RBM6	100	90.789	ENSOPRG00000015113	RBM6	100	83.259	Ochotona_princeps
ENSG00000004534	RBM6	89	73.148	ENSOANG00000006556	-	100	72.610	Ornithorhynchus_anatinus
ENSG00000004534	RBM6	100	97.368	ENSOCUG00000011638	RBM6	100	91.986	Oryctolagus_cuniculus
ENSG00000004534	RBM6	100	98.684	ENSOARG00000011125	RBM6	100	90.828	Ovis_aries
ENSG00000004534	RBM6	100	100.000	ENSPPAG00000034940	RBM6	100	99.834	Pan_paniscus
ENSG00000004534	RBM6	100	98.684	ENSPPRG00000006572	RBM6	100	93.054	Panthera_pardus
ENSG00000004534	RBM6	100	98.684	ENSPTIG00000000403	RBM6	100	92.965	Panthera_tigris_altaica
ENSG00000004534	RBM6	100	100.000	ENSPTRG00000014943	RBM6	100	99.667	Pan_troglodytes
ENSG00000004534	RBM6	100	100.000	ENSPANG00000012436	RBM6	100	98.043	Papio_anubis
ENSG00000004534	RBM6	71	56.471	ENSPSIG00000015728	-	100	50.602	Pelodiscus_sinensis
ENSG00000004534	RBM6	100	77.899	ENSPCIG00000021533	RBM6	99	77.895	Phascolarctos_cinereus
ENSG00000004534	RBM6	100	100.000	ENSPPYG00000013855	RBM6	100	95.726	Pongo_abelii
ENSG00000004534	RBM6	99	99.029	ENSPCAG00000005277	RBM6	94	99.029	Procavia_capensis
ENSG00000004534	RBM6	100	98.684	ENSPCOG00000014743	RBM6	100	94.034	Propithecus_coquereli
ENSG00000004534	RBM6	100	98.684	ENSPVAG00000006811	RBM6	100	92.253	Pteropus_vampyrus
ENSG00000004534	RBM6	100	98.333	ENSRBIG00000030131	RBM6	100	97.207	Rhinopithecus_bieti
ENSG00000004534	RBM6	100	100.000	ENSRROG00000029411	RBM6	100	97.418	Rhinopithecus_roxellana
ENSG00000004534	RBM6	100	100.000	ENSSBOG00000010277	-	100	96.637	Saimiri_boliviensis_boliviensis
ENSG00000004534	RBM6	100	91.139	ENSSHAG00000018151	RBM6	100	78.040	Sarcophilus_harrisii
ENSG00000004534	RBM6	100	67.089	ENSSPUG00000001946	RBM6	98	57.886	Sphenodon_punctatus
ENSG00000004534	RBM6	100	97.368	ENSSSCG00000011394	RBM6	100	93.767	Sus_scrofa
ENSG00000004534	RBM6	100	72.152	ENSTGUG00000004964	RBM6	100	57.955	Taeniopygia_guttata
ENSG00000004534	RBM6	98	87.078	ENSTBEG00000003847	RBM6	93	91.703	Tupaia_belangeri
ENSG00000004534	RBM6	100	95.000	ENSTTRG00000007713	RBM6	99	90.812	Tursiops_truncatus
ENSG00000004534	RBM6	100	95.833	ENSUAMG00000028346	RBM6	95	93.381	Ursus_americanus
ENSG00000004534	RBM6	100	98.684	ENSUMAG00000022039	RBM6	100	92.609	Ursus_maritimus
ENSG00000004534	RBM6	100	98.684	ENSVVUG00000028652	RBM6	100	92.431	Vulpes_vulpes
ENSG00000004534	RBM6	100	40.388	ENSXETG00000007303	rbm5	100	37.285	Xenopus_tropicalis

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0003677	DNA binding	10352938.	TAS	Function
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0005515	protein binding	25416956.	IPI	Function
GO:0005634	nucleus	-	IEA	Component
GO:0006396	RNA processing	10352938.	TAS	Process