EuRBPDB

Basic Information
Cancer Related Information

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000143748 (Gene tree)
Gene ID: 4931
Gene Symbol: NVL
Alias: NVL2
Full Name: nuclear VCP like
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 103,054 bases
Position: chr1:224,227,334-224,330,387
Accession: 8070
RBP type: non-canonical RBP
Summary: This gene encodes a member of the AAA (ATPases associated with diverse cellular activities) superfamily. Multiple transcript variants encoding different isoforms have been found for this gene. Two encoded proteins, described as major and minor isoforms, have been localized to distinct regions of the nucleus. The largest encoded protein (major isoform) has been localized to the nucleolus and shown to participate in ribosome biosynthesis (PMID: 15469983, 16782053), while the minor isoform has been localized to the nucleoplasmin. [provided by RefSeq, Aug 2011]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
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	PolyT-RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
29431736	Capturing the interactome of newly transcribed RNA	RICK & 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
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
21474449	Structure and function of the N-terminal nucleolin binding domain of nuclear valosin-containing protein-like 2 (NVL2) harboring a nucleolar localization signal.	J Biol Chem	2011 Jun 17	Fujiwara Y	doi: 10.1074/jbc.M110.174680

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000468673	NVL-210	921	-	-	- (aa)	-	-
ENST00000340871	NVL-202	2431	XM_011544200	ENSP00000341362	667 (aa)	XP_011542502	O15381
ENST00000493060	NVL-222	639	-	-	- (aa)	-	-
ENST00000498767	NVL-224	581	-	-	- (aa)	-	-
ENST00000468088	NVL-209	248	-	-	- (aa)	-	-
ENST00000483094	NVL-217	652	-	-	- (aa)	-	-
ENST00000467882	NVL-208	1310	-	ENSP00000419930	296 (aa)	-	E9PH71
ENST00000482491	NVL-216	3003	XM_011544199	ENSP00000417213	667 (aa)	XP_011542501	O15381
ENST00000489194	NVL-220	692	-	-	- (aa)	-	-
ENST00000487758	NVL-218	640	-	-	- (aa)	-	-
ENST00000488718	NVL-219	564	-	ENSP00000419828	184 (aa)	-	E7EWK7
ENST00000462893	NVL-207	624	-	-	- (aa)	-	-
ENST00000436927	NVL-204	766	-	ENSP00000394884	171 (aa)	-	C9JP83
ENST00000391875	NVL-203	2832	XM_011544198	ENSP00000375747	750 (aa)	XP_011542500	O15381
ENST00000496393	NVL-223	588	-	-	- (aa)	-	-
ENST00000281701	NVL-201	3123	XM_011544196	ENSP00000281701	856 (aa)	XP_011542498	O15381
ENST00000469075	NVL-211	2566	-	ENSP00000417826	765 (aa)	-	O15381
ENST00000492281	NVL-221	553	-	ENSP00000418380	180 (aa)	-	C9J6P7
ENST00000470989	NVL-214	567	-	ENSP00000419586	53 (aa)	-	F8WF01
ENST00000461546	NVL-206	577	-	ENSP00000418085	175 (aa)	-	E9PGD8
ENST00000461466	NVL-205	693	-	-	- (aa)	-	-
ENST00000481213	NVL-215	591	-	ENSP00000479235	48 (aa)	-	A0A087WV72
ENST00000470903	NVL-213	548	-	-	- (aa)	-	-
ENST00000469968	NVL-212	2510	-	ENSP00000419420	659 (aa)	-	O15381

Gene Model

Click here to download ENSG00000143748's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa03008	Ribosome biogenesis in eukaryotes	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000143748	Heart Failure	9.1038000E-004	-

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000143748's network

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

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000143748	NVL	100	89.339	ENSMUSG00000026516	Nvl	100	87.850	Mus_musculus
ENSG00000143748	NVL	93	47.699	YLL034C		74	49.760	Saccharomyces_cerevisiae

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000176	nuclear exosome (RNase complex)	26166824.	IDA	Component
GO:0003723	RNA binding	22658674.	HDA	Function
GO:0005515	protein binding	15469983.16782053.22226966.26166824.28416111.	IPI	Function
GO:0005524	ATP binding	22226966.	IMP	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005634	nucleus	16782053.	IDA	Component
GO:0005654	nucleoplasm	15469983.	IDA	Component
GO:0005697	telomerase holoenzyme complex	22226966.	IDA	Component
GO:0005730	nucleolus	15469983.22226966.	IDA	Component
GO:0005730	nucleolus	26456651.	IDA	Component
GO:0006364	rRNA processing	29107693.	IDA	Process
GO:0016020	membrane	19946888.	HDA	Component
GO:0016887	ATPase activity	21873635.	IBA	Function
GO:0032092	positive regulation of protein binding	29107693.	IDA	Process
GO:0042254	ribosome biogenesis	21873635.	IBA	Process
GO:0042254	ribosome biogenesis	15469983.16782053.	IMP	Process
GO:0042273	ribosomal large subunit biogenesis	26166824.	IDA	Process
GO:0042273	ribosomal large subunit biogenesis	26456651.	IMP	Process
GO:0051973	positive regulation of telomerase activity	21873635.	IBA	Process
GO:0051973	positive regulation of telomerase activity	22226966.	IMP	Process
GO:1904749	regulation of protein localization to nucleolus	29107693.	IDA	Process
GO:1990275	preribosome binding	21873635.	IBA	Function
GO:1990275	preribosome binding	16782053.	IDA	Function

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
22226966	The AAA-ATPase NVL2 is a telomerase component essential for holoenzyme assembly.	Biochem Biophys Res Commun	2012 Jan 20	Her J	doi: 10.1016/j.bbrc.2011.12.101

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr1	224305150	Missense_Mutation	NA	S211C	0.32
BLCA	chr1	224233207	Missense_Mutation	NA	E817Q	0.22
BLCA	chr1	224289568	Silent	NA	Q497Q	0.39
BLCA	chr1	224300608	Missense_Mutation	novel	S339F	0.45
BLCA	chr1	224308174	Frame_Shift_Del	novel	*E145Kfs9**	0.14
BLCA	chr1	224308038	Silent	novel	L190L	0.71
BLCA	chr1	224287810	Missense_Mutation	novel	E587Q	0.12
BLCA	chr1	224300614	Missense_Mutation	novel	G337V	0.32
BLCA	chr1	224287910	Silent	novel	L553L	0.28
BLCA	chr1	224304750	Missense_Mutation	NA	D271N	0.18
BRCA	chr1	224304751	Silent	NA	N270N	0.16
BRCA	chr1	224330126	Translation_Start_Site	NA	M1?	0.15
BRCA	chr1	224300656	Missense_Mutation	novel	D323A	0.42
BRCA	chr1	224233255	Missense_Mutation	NA	S801A	0.15
BRCA	chr1	224275408	Silent	rs149269387	K671K	0.14
BRCA	chr1	224289516	Missense_Mutation	rs751450518	R515G	0.04
BRCA	chr1	224289693	Missense_Mutation	rs755757900	A456T	0.14
BRCA	chr1	224227670	Missense_Mutation	novel	D843N	0.15
BRCA	chr1	224275343	Missense_Mutation	rs376797399	R693Q	0.13
CESC	chr1	224294358	Nonsense_Mutation	rs773133873	R412*	0.1
CESC	chr1	224308182	Missense_Mutation	novel	E142Q	0.07
CESC	chr1	224236521	Missense_Mutation	rs761421541	R784H	0.23
CESC	chr1	224289576	Missense_Mutation	NA	E495K	0.36
CHOL	chr1	224289638	Missense_Mutation	novel	L474P	0.25
COAD	chr1	224231231	Missense_Mutation	novel	K841Q	0.32
COAD	chr1	224227632	Silent	NA	S855S	0.35
COAD	chr1	224287856	Silent	NA	G571G	0.34
COAD	chr1	224305153	Missense_Mutation	NA	S210Y	0.36
COAD	chr1	224275387	Silent	novel	I678I	0.12
COAD	chr1	224311847	Missense_Mutation	novel	S99R	0.2
COAD	chr1	224300649	Silent	novel	P325P	0.26
COAD	chr1	224330082	Nonsense_Mutation	rs749185581	R16*	0.23
COAD	chr1	224330150	5'UTR	novel		0.38
COAD	chr1	224308132	Silent	novel	G158G	0.04
COAD	chr1	224308069	Silent	NA	P179P	0.32
COAD	chr1	224236552	Missense_Mutation	NA	V774I	0.13
COAD	chr1	224236521	Missense_Mutation	rs761421541	R784H	0.15
COAD	chr1	224303801	Silent	rs760806939	G294G	0.19
COAD	chr1	224303830	Missense_Mutation	rs772843150	R285C	0.24
COAD	chr1	224287876	Missense_Mutation	NA	P565S	0.61
ESCA	chr1	224308068	Missense_Mutation	novel	S180C	0.25
ESCA	chr1	224305092	Missense_Mutation	novel	R230S	0.48
ESCA	chr1	224326457	Frame_Shift_Ins	novel	*T22Ifs15**	0.16
ESCA	chr1	224286107	Silent	novel	Q606Q	0.04
GBM	chr1	224294380	Silent	novel	V404V	0.06
GBM	chr1	224231243	Missense_Mutation	novel	S837P	0.3
GBM	chr1	224326403	Missense_Mutation	NA	Q40R	0.4
GBM	chr1	224257082	Intron	novel		0.45
GBM	chr1	224330083	Silent	novel	Q15Q	0.26
GBM	chr1	224257036	Intron	rs778692074		0.78
HNSC	chr1	224317906	Frame_Shift_Del	novel	*R52Kfs4**	0.17
HNSC	chr1	224304795	Missense_Mutation	novel	E256Q	0.06
HNSC	chr1	224275392	Missense_Mutation	novel	V677L	0.34
HNSC	chr1	224275397	Missense_Mutation	novel	P675R	0.35
KIRC	chr1	224257036	Intron	rs778692074		0.42
KIRC	chr1	224317887	Missense_Mutation	rs754254646	V59I	0.2
KIRC	chr1	224303840	Silent	NA	L281L	0.31
KIRP	chr1	224257021	Intron	novel		0.47
KIRP	chr1	224236561	Missense_Mutation	novel	D771Y	0.31
LGG	chr1	224289667	Silent	NA	H464H	0.36
LIHC	chr1	224294348	Missense_Mutation	NA	S415L	0.07
LIHC	chr1	224227635	Silent	novel	L854L	0.28
LIHC	chr1	224287901	Missense_Mutation	NA	F556L	0.24
LUAD	chr1	224227596	3'UTR	novel		0.24
LUAD	chr1	224281173	Missense_Mutation	novel	E638K	0.1
LUAD	chr1	224281151	Missense_Mutation	novel	S645F	0.25
LUAD	chr1	224317743	Missense_Mutation	novel	E79K	0.15
LUAD	chr1	224289540	Missense_Mutation	NA	P507S	0.06
LUAD	chr1	224326400	Missense_Mutation	novel	R41K	0.3
LUAD	chr1	224303729	Missense_Mutation	novel	I318M	0.51
LUAD	chr1	224236539	Missense_Mutation	NA	A778V	0.16
LUAD	chr1	224300573	Nonsense_Mutation	novel	E351*	0.41
LUAD	chr1	224287913	Silent	novel	E552E	0.23
LUSC	chr1	224294348	Missense_Mutation	NA	S415L	0.24
LUSC	chr1	224227473	3'UTR	novel		0.75
LUSC	chr1	224268101	Silent	novel	L705L	0.35
LUSC	chr1	224286074	Silent	NA	G617G	0.24
LUSC	chr1	224287884	Nonsense_Mutation	NA	S562*	0.18
LUSC	chr1	224275410	Missense_Mutation	novel	K671E	0.51
LUSC	chr1	224326410	Missense_Mutation	NA	D38H	0.11
LUSC	chr1	224287979	Silent	NA	R530R	0.57
LUSC	chr1	224233207	Missense_Mutation	NA	E817K	0.1
LUSC	chr1	224275408	Missense_Mutation	novel	K671N	0.34
LUSC	chr1	224250288	Missense_Mutation	novel	G738D	0.34
LUSC	chr1	224227520	3'UTR	novel		0.26
LUSC	chr1	224308091	Missense_Mutation	rs537722770	G172E	0.04
LUSC	chr1	224305102	Missense_Mutation	novel	G227V	0.48
LUSC	chr1	224303854	Missense_Mutation	novel	V277L	0.18
MESO	chr1	224303787	Missense_Mutation	novel	R299H	0.65
OV	chr1	224268049	Missense_Mutation	novel	A723T	0.1
PAAD	chr1	224257026	Intron	novel		0.37
PRAD	chr1	224294311	Silent	novel	D427D	0.39
READ	chr1	224257096	Intron	novel		0.04
READ	chr1	224311852	Missense_Mutation	NA	T97S	0.34
READ	chr1	224308056	Missense_Mutation	novel	D184Y	0.46
READ	chr1	224233248	Missense_Mutation	novel	C803Y	0.24
SKCM	chr1	224308016	Missense_Mutation	rs776316720	P197L	0.23
SKCM	chr1	224286068	Silent	novel	L619L	0.45
SKCM	chr1	224308224	Missense_Mutation	rs200984793	R128W	0.51
SKCM	chr1	224250252	Missense_Mutation	rs571963590	P750L	0.28
SKCM	chr1	224287901	Silent	NA	F556F	0.32
SKCM	chr1	224294370	Missense_Mutation	NA	G408R	0.13
SKCM	chr1	224227610	3'UTR	novel		0.45
SKCM	chr1	224227611	3'UTR	rs188400054		0.45
SKCM	chr1	224286097	Missense_Mutation	novel	L610V	0.13
SKCM	chr1	224287887	Missense_Mutation	NA	S561F	0.11
SKCM	chr1	224289555	Nonsense_Mutation	NA	E502*	0.25
SKCM	chr1	224294339	Missense_Mutation	novel	P418L	0.34
SKCM	chr1	224294348	Missense_Mutation	NA	S415L	0.1
SKCM	chr1	224286068	Silent	novel	L619L	0.13
SKCM	chr1	224294386	Silent	NA	A402A	0.18
SKCM	chr1	224308124	Missense_Mutation	novel	P161L	0.09
SKCM	chr1	224287808	Silent	NA	E587E	0.48
SKCM	chr1	224289667	Silent	NA	H464H	0.35
SKCM	chr1	224231295	Splice_Region	NA	G819G	0.16
STAD	chr1	224303727	Missense_Mutation	NA	A319V	0.08
STAD	chr1	224227570	3'UTR	novel		0.24
STAD	chr1	224257036	Intron	rs778692074		0.45
STAD	chr1	224268118	Nonsense_Mutation	rs367715317	R700*	0.27
STAD	chr1	224326414	Silent	rs758806110	A36A	0.37
STAD	chr1	224308097	Missense_Mutation	NA	E170G	0.03
STAD	chr1	224236506	Missense_Mutation	rs768455674	T789M	0.19
STAD	chr1	224300607	Silent	rs143457273	S339S	0.51
STAD	chr1	224326414	Silent	rs758806110	A36A	0.24
STAD	chr1	224257077	Intron	novel		0.26
UCEC	chr1	224250230	Silent	novel	I757I	0.05
UCEC	chr1	224294314	Silent	NA	F426F	0.25
UCEC	chr1	224308224	Missense_Mutation	rs200984793	R128W	0.13
UCEC	chr1	224257084	Intron	NA		0.34
UCEC	chr1	224227532	3'UTR	novel		0.25
UCEC	chr1	224250264	Frame_Shift_Del	rs765634292	*F745Wfs13**	0.48
UCEC	chr1	224227622	3'UTR	novel		0.29
UCEC	chr1	224231226	Frame_Shift_Ins	NA	*D843Gfs6**	0.38
UCEC	chr1	224227532	3'UTR	novel		0.48
UCEC	chr1	224317752	Missense_Mutation	NA	T76A	0.19
UCEC	chr1	224250298	Missense_Mutation	NA	L735M	0.2
UCEC	chr1	224289576	Missense_Mutation	NA	E495K	0.22
UCEC	chr1	224250254	Silent	rs769904366	P749P	0.51
UCEC	chr1	224294299	Silent	novel	C431C	0.27
UCEC	chr1	224231290	Missense_Mutation	novel	L821R	0.14
UCEC	chr1	224305110	Silent	novel	K224K	0.17
UCEC	chr1	224257112	Intron	novel		0.07
UCEC	chr1	224287924	Silent	novel	L549L	0.23
UCEC	chr1	224275408	Missense_Mutation	novel	K671N	0.37
UCEC	chr1	224317907	Missense_Mutation	novel	R52I	0.16
UCEC	chr1	224326448	Missense_Mutation	novel	K25T	0.36
UCEC	chr1	224289628	Silent	novel	L477L	0.22
UCEC	chr1	224250254	Silent	rs769904366	P749P	0.24
UCEC	chr1	224250253	Missense_Mutation	novel	P750S	0.35
UCEC	chr1	224326436	Missense_Mutation	NA	Y29C	0.34
UCEC	chr1	224250291	Missense_Mutation	NA	P737L	0.34
UCEC	chr1	224296547	Frame_Shift_Del	novel	*D379Ifs7**	0.35
UCEC	chr1	224227531	3'UTR	novel		0.63
UCEC	chr1	224296586	Missense_Mutation	novel	E365D	0.13
UCEC	chr1	224257036	Intron	rs778692074		0.39
UCEC	chr1	224275436	Missense_Mutation	NA	A662D	0.21
UCEC	chr1	224317759	Missense_Mutation	rs148207074	K73N	0.36
UCEC	chr1	224233254	Missense_Mutation	NA	S801Y	0.41
UCEC	chr1	224294361	Missense_Mutation	NA	N411D	0.35
UCEC	chr1	224257036	Intron	rs778692074		0.69
UCEC	chr1	224317779	Missense_Mutation	novel	S67G	0.27
UCEC	chr1	224275431	Nonsense_Mutation	rs760493438	R664*	0.34
UCEC	chr1	224300653	Missense_Mutation	NA	L324P	0.19
UCEC	chr1	224289623	Missense_Mutation	rs769948002	R479Q	0.24
UCEC	chr1	224308155	Missense_Mutation	novel	P151S	0.41
UCEC	chr1	224294332	Silent	NA	L420L	0.24
UCEC	chr1	224257030	Intron	rs770476742		0.28
UCEC	chr1	224326414	Silent	rs758806110	A36A	0.43
UCEC	chr1	224250264	Frame_Shift_Del	rs765634292	*F745Wfs13**	0.3
UCEC	chr1	224296561	Nonsense_Mutation	novel	E374*	0.09
UCEC	chr1	224308045	Missense_Mutation	NA	F187L	0.13
UCEC	chr1	224268073	Missense_Mutation	NA	R715C	0.33
UCEC	chr1	224287877	Silent	novel	Q564Q	0.23
UCEC	chr1	224257131	Intron	NA		0.16
UCEC	chr1	224300664	Splice_Site	novel	X321_splice	0.32
UCEC	chr1	224311821	Missense_Mutation	novel	M107I	0.19
UCEC	chr1	224308152	Missense_Mutation	rs748891622	R152W	0.18
UCEC	chr1	224308046	Frame_Shift_Del	novel	*F187Sfs15**	0.15
UCEC	chr1	224317917	Nonsense_Mutation	rs748581297	R49*	0.42
UCEC	chr1	224294309	Missense_Mutation	rs753321668	R428Q	0.08
UCEC	chr1	224307997	Missense_Mutation	novel	E203D	0.16
UCEC	chr1	224275384	Missense_Mutation	NA	F679L	0.24
UCEC	chr1	224227572	3'UTR	novel		0.14
UCEC	chr1	224257125	Intron	novel		0.18
UCEC	chr1	224317907	Missense_Mutation	novel	R52I	0.37
UCEC	chr1	224227533	3'UTR	novel		0.31
UCEC	chr1	224281164	Silent	NA	L641L	0.16
UCEC	chr1	224296578	Missense_Mutation	novel	A368V	0.05
UCEC	chr1	224227570	3'UTR	novel		0.36
UCS	chr1	224294313	Missense_Mutation	novel	D427N	0.28

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
BLCA	DEL	0.0784	0.033566
DLBC	DEL	0.125	0.0017831
GBM	DEL	0.0711	0.00056261
KIRC	DEL	0.0663	0.018371
LGG	DEL	0.0351	0.11599
PCPG	DEL	0.0802	0.12617
READ	AMP	0.2606	0.14328
SARC	DEL	0.2957	2.6086e-08
TGCT	DEL	0.0333	0.16985
THYM	AMP	0.1789	0.24554
UCEC	AMP	0.3748	2.3921e-06

Survival Analysis

Cancer	P-value	Q-value
KIRC	0.00013	Kaplan-Meier Survival Analysis
MESO	0.039	Kaplan-Meier Survival Analysis
ESCA	0.028	Kaplan-Meier Survival Analysis
KIRP	0.00012	Kaplan-Meier Survival Analysis
COAD	0.018	Kaplan-Meier Survival Analysis
KICH	0.0088	Kaplan-Meier Survival Analysis
GBM	0.027	Kaplan-Meier Survival Analysis
LIHC	0.0021	Kaplan-Meier Survival Analysis
LGG	0.032	Kaplan-Meier Survival Analysis
LUAD	0.022	Kaplan-Meier Survival Analysis
OV	0.038	Kaplan-Meier Survival Analysis

Drugs

EuRBPDB

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

Phenotypes

PPI

Orthologs

Gene Ontology

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Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742