EuRBPDB

Basic Information
Cancer Related Information

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

PPI

Gene Ontology

Description

Ensembl ID: ENSG00000006712 (Gene tree)
Gene ID: 54623
Gene Symbol: PAF1
Alias: PD2|F23149_1|FLJ11123
Full Name: PAF1 homolog, Paf1/RNA polymerase II complex component
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 5,567 bases
Position: chr19:39,385,629-39,391,195
Accession: 25459
RBP type: non-canonical RBP
Summary: This gene encodes a subunit of the polymerase associated factor (PAF1) complex. The PAF1 complex interacts with RNA polymerase II and plays a role in transcription elongation as well as histone modifications including ubiquitylation and methylation. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Feb 2012]

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	RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
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

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
23008333	A role for the RNA pol II-associated PAF complex in AID-induced immune diversification.	J Exp Med	2012 Oct 22	Willmann KL	doi: 10.1084/jem.20112145
29864419	Cigarette Smoke Induces Stem Cell Features of Pancreatic Cancer Cells via PAF1.	Gastroenterology	2018 Sep	Nimmakayala RK	doi: 10.1053/j.gastro.2018.05.041

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000597365	PAF1-206	606	-	-	- (aa)	-	-
ENST00000595379	PAF1-203	281	-	ENSP00000469742	94 (aa)	-	M0QYC7
ENST00000598127	PAF1-207	558	-	-	- (aa)	-	-
ENST00000598594	PAF1-208	280	-	-	- (aa)	-	-
ENST00000595564	PAF1-204	1810	-	ENSP00000468874	485 (aa)	-	Q8N7H5
ENST00000595797	PAF1-205	760	-	-	- (aa)	-	-
ENST00000416728	PAF1-202	1383	-	ENSP00000396412	288 (aa)	-	B4DGJ5
ENST00000221265	PAF1-201	2066	-	ENSP00000221265	531 (aa)	-	Q8N7H5

Gene Model

Click here to download ENSG00000006712's gene model file

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000006712's network

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

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000122	negative regulation of transcription by RNA polymerase II	-	ISS	Process
GO:0000993	RNA polymerase II complex binding	21873635.	IBA	Function
GO:0000993	RNA polymerase II complex binding	15923622.	IDA	Function
GO:0001711	endodermal cell fate commitment	-	ISS	Process
GO:0003682	chromatin binding	21873635.	IBA	Function
GO:0005515	protein binding	15923622.16024656.16307923.19136632.19410543.20178742.20541477.21516116.22419161.25277244.25416956.26496610.29774127.	IPI	Function
GO:0005654	nucleoplasm	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005737	cytoplasm	22046413.	IDA	Component
GO:0006366	transcription by RNA polymerase II	-	TAS	Process
GO:0006368	transcription elongation from RNA polymerase II promoter	-	TAS	Process
GO:0006378	mRNA polyadenylation	21329879.	IMP	Process
GO:0010390	histone monoubiquitination	16307923.	IDA	Process
GO:0016020	membrane	22046413.	IDA	Component
GO:0016055	Wnt signaling pathway	-	IEA	Process
GO:0016567	protein ubiquitination	-	TAS	Process
GO:0016584	nucleosome positioning	22046413.	IMP	Process
GO:0016593	Cdc73/Paf1 complex	21873635.	IBA	Component
GO:0016593	Cdc73/Paf1 complex	16307923.20178742.	IDA	Component
GO:0019827	stem cell population maintenance	-	IEA	Process
GO:0030054	cell junction	-	IDA	Component
GO:0031062	positive regulation of histone methylation	22046413.	IMP	Process
GO:0031442	positive regulation of mRNA 3'-end processing	21329879.	IMP	Process
GO:0032968	positive regulation of transcription elongation from RNA polymerase II promoter	20178742.	IDA	Process
GO:0033523	histone H2B ubiquitination	16307923.	IDA	Process
GO:0034504	protein localization to nucleus	22046413.	IMP	Process
GO:0035327	transcriptionally active chromatin	21873635.	IBA	Component
GO:0045638	negative regulation of myeloid cell differentiation	20541477.	IDA	Process
GO:0045944	positive regulation of transcription by RNA polymerase II	20178742.	IDA	Process
GO:0071222	cellular response to lipopolysaccharide	-	ISS	Process
GO:1902808	positive regulation of cell cycle G1/S phase transition	15923622.	IMP	Process

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
16491129	The human homologue of the RNA polymerase II-associated factor 1 (hPaf1), localized on the 19q13 amplicon, is associated with tumorigenesis.	Oncogene	2006 Jun 1	Moniaux N	-
26282204	Human RNA polymerase II associated factor 1 complex promotes tumorigenesis by activating c-MYC transcription in non-small cell lung cancer.	Biochem Biophys Res Commun	2015 Oct 2	Zhi X	doi: 10.1016/j.bbrc.2015.08.017
25003666	Novel role of pancreatic differentiation 2 in facilitating self-renewal and drug resistance of pancreatic cancer stem cells.	Br J Cancer	2014 Jul 29	Vaz AP	doi: 10.1038/bjc.2014.152
22046413	Human RNA polymerase II-association factor 1 (hPaf1/PD2) regulates histone methylation and chromatin remodeling in pancreatic cancer.	PLoS One	2011	Dey P	doi: 10.1371/journal.pone.0026926
28122356	hPaf1/PD2 interacts with OCT3/4 to promote self-renewal of ovarian cancer stem cells.	Oncotarget	2017 Feb 28	Karmakar S	doi: 10.18632/oncotarget.14775.

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr19	39386121	Missense_Mutation	NA	G489A	0.11
BLCA	chr19	39386203	In_Frame_Ins	novel	E461_D462insK	0.49
BLCA	chr19	39389674	Silent	NA	L86L	0.07
BLCA	chr19	39386023	Missense_Mutation	NA	D522N	0.14
BLCA	chr19	39389506	Missense_Mutation	rs200763809	E111D	0.19
BLCA	chr19	39386758	Missense_Mutation	NA	S343L	0.21
BRCA	chr19	39385932	3'UTR	NA		0.25
BRCA	chr19	39386719	Missense_Mutation	NA	M356T	0.2
BRCA	chr19	39390160	Missense_Mutation	novel	S27T	0.08
BRCA	chr19	39385977	3'UTR	novel		0.2
BRCA	chr19	39390264	Nonsense_Mutation	NA	E25*	0.23
CESC	chr19	39390888	5'UTR	novel		0.32
CESC	chr19	39389671	Missense_Mutation	NA	I87M	0.3
CESC	chr19	39389161	Missense_Mutation	NA	E167K	0.28
CESC	chr19	39386353	Missense_Mutation	NA	E412Q	0.18
CESC	chr19	39386566	Missense_Mutation	NA	R367W	0.36
COAD	chr19	39386266	Missense_Mutation	novel	E441Q	0.31
COAD	chr19	39388772	Missense_Mutation	novel	A244T	0.09
COAD	chr19	39388974	Missense_Mutation	NA	E203D	0.16
COAD	chr19	39389134	Missense_Mutation	NA	I176L	0.36
COAD	chr19	39389132	Silent	NA	I176I	0.48
COAD	chr19	39390141	Missense_Mutation	novel	V33A	0.37
COAD	chr19	39388394	Missense_Mutation	novel	Y311H	0.1
COAD	chr19	39388604	Silent	novel	R271R	0.15
COAD	chr19	39386721	Silent	NA	D355D	0.4
COAD	chr19	39388834	Missense_Mutation	novel	F223S	0.09
ESCA	chr19	39390953	5'UTR	novel		0.13
GBM	chr19	39386314	Silent	novel	R425R	0.08
GBM	chr19	39386162	Missense_Mutation	novel	Q475H	0.06
GBM	chr19	39389161	Nonsense_Mutation	novel	E167*	0.47
GBM	chr19	39386698	Missense_Mutation	novel	A363V	0.08
GBM	chr19	39388955	Missense_Mutation	novel	D210Y	0.51
GBM	chr19	39386329	Missense_Mutation	rs200627106	R420W	0.78
GBM	chr19	39386208	Missense_Mutation	novel	S460Y	0.05
GBM	chr19	39386297	Silent	novel	D430D	0.09
GBM	chr19	39386331	Missense_Mutation	novel	E419V	0.11
GBM	chr19	39388849	Missense_Mutation	novel	C218Y	0.08
HNSC	chr19	39388632	Missense_Mutation	novel	L262Q	0.22
HNSC	chr19	39386326	Frame_Shift_Del	novel	*E421Rfs137**	0.13
HNSC	chr19	39390072	Missense_Mutation	novel	N56S	0.06
HNSC	chr19	39388767	Missense_Mutation	novel	M245I	0.28
HNSC	chr19	39389167	Nonsense_Mutation	novel	E165*	0.23
HNSC	chr19	39389330	Missense_Mutation	novel	S138F	0.16
HNSC	chr19	39389734	Silent	novel	L66L	0.16
KIRC	chr19	39389722	Missense_Mutation	NA	H70Q	0.15
KIRC	chr19	39389716	Silent	rs778687735	H72H	0.36
KIRP	chr19	39388669	Missense_Mutation	NA	M250V	0.19
LGG	chr19	39389755	Silent	novel	V59V	0.3
LUAD	chr19	39390071	Splice_Region	novel	N56N	0.04
LUAD	chr19	39386023	Missense_Mutation	NA	D522N	0.18
LUAD	chr19	39390136	Missense_Mutation	novel	Y35H	0.15
LUAD	chr19	39386182	Missense_Mutation	NA	E469K	0.37
LUAD	chr19	39388435	Missense_Mutation	NA	W297L	0.32
LUSC	chr19	39386518	Missense_Mutation	novel	E383Q	0.06
LUSC	chr19	39386058	Missense_Mutation	rs778486153	S510L	0.12
LUSC	chr19	39386323	Nonsense_Mutation	novel	E422*	0.08
OV	chr19	39389172	Missense_Mutation	novel	F163C	0.07
OV	chr19	39389488	Missense_Mutation	novel	S117R	0.1
OV	chr19	39386208	Missense_Mutation	novel	S460Y	0.13
OV	chr19	39386039	Missense_Mutation	novel	S516R	0.14
OV	chr19	39389007	Missense_Mutation	novel	Q192H	0.15
OV	chr19	39386571	Missense_Mutation	novel	E365G	0.05
OV	chr19	39386561	Missense_Mutation	novel	K368N	0.04
OV	chr19	39386399	Missense_Mutation	novel	E396D	0.06
OV	chr19	39390153	Missense_Mutation	novel	V29G	0.74
OV	chr19	39388617	Missense_Mutation	NA	T267M	0.03
OV	chr19	39390985	5'UTR	novel		0.13
PAAD	chr19	39388772	Missense_Mutation	novel	A244T	0.18
PAAD	chr19	39389659	Silent	novel	T91T	0.21
PRAD	chr19	39389316	Missense_Mutation	novel	R143C	0.1
PRAD	chr19	39389349	Nonsense_Mutation	rs775209420	R132*	0.3
PRAD	chr19	39388616	Silent	rs143167089	T267T	0.18
READ	chr19	39386757	Silent	novel	S343S	0.47
READ	chr19	39388424	Missense_Mutation	NA	N301H	0.27
READ	chr19	39390106	Missense_Mutation	novel	D45N	0.35
READ	chr19	39390861	Missense_Mutation	novel	A2T	0.11
SARC	chr19	39389667	Missense_Mutation	novel	P89S	0.22
SKCM	chr19	39389137	Nonsense_Mutation	novel	Q175*	0.36
SKCM	chr19	39389138	Silent	novel	S174S	0.35
SKCM	chr19	39390098	Silent	novel	K47K	0.49
SKCM	chr19	39386778	Silent	NA	R336R	0.41
SKCM	chr19	39388950	Missense_Mutation	novel	F211L	0.45
SKCM	chr19	39386182	Nonsense_Mutation	NA	E469*	0.24
SKCM	chr19	39386538	Missense_Mutation	rs761456502	P376L	0.33
SKCM	chr19	39389514	Missense_Mutation	NA	E109K	0.27
SKCM	chr19	39389296	Silent	NA	E149E	0.2
SKCM	chr19	39388564	Missense_Mutation	NA	D285N	0.41
STAD	chr19	39388677	Splice_Site	NA	X247_splice	0.28
STAD	chr19	39389336	Missense_Mutation	novel	Y136C	0.4
STAD	chr19	39388762	In_Frame_Del	novel	I246_R247delinsM	0.16
STAD	chr19	39390265	Silent	novel	P24P	0.32
STAD	chr19	39385960	3'UTR	novel		0.15
STAD	chr19	39386234	Silent	NA	E451E	0.18
STAD	chr19	39390286	Silent	NA	P17P	0.43
STAD	chr19	39388791	Silent	rs547127898	A237A	0.12
TGCT	chr19	39389379	Nonsense_Mutation	rs757357536	Q122*	0.38
UCEC	chr19	39388823	Missense_Mutation	novel	P227T	0.2
UCEC	chr19	39389368	Silent	NA	A125A	0.31
UCEC	chr19	39388846	Missense_Mutation	novel	A219V	0.45
UCEC	chr19	39386565	Missense_Mutation	rs372480955	R367Q	0.44
UCEC	chr19	39386770	Missense_Mutation	novel	A339D	0.14
UCEC	chr19	39388599	Missense_Mutation	rs754420217	R273Q	0.4
UCEC	chr19	39390275	Missense_Mutation	novel	R21Q	0.09
UCEC	chr19	39385969	3'UTR	novel		0.38
UCEC	chr19	39386266	Missense_Mutation	rs201740690	E441K	0.29
UCEC	chr19	39390833	Missense_Mutation	NA	R11L	0.14
UCEC	chr19	39386173	Nonsense_Mutation	NA	G472*	0.41
UCEC	chr19	39386201	Silent	rs777154167	D462D	0.12
UCEC	chr19	39388845	Silent	novel	A219A	0.21
UCEC	chr19	39386056	Missense_Mutation	novel	A511T	0.32
UCEC	chr19	39388366	Missense_Mutation	rs745419714	G320E	0.33
UCEC	chr19	39389348	Missense_Mutation	novel	R132Q	0.45
UCEC	chr19	39386364	Missense_Mutation	novel	G408D	0.31
UCEC	chr19	39389161	Nonsense_Mutation	novel	E167*	0.6
UCEC	chr19	39389710	Silent	NA	L74L	0.14
UCEC	chr19	39388981	Missense_Mutation	rs751010774	P201L	0.35
UCEC	chr19	39386156	Silent	novel	G477G	0.36
UCEC	chr19	39385912	3'UTR	novel		0.5
UCEC	chr19	39386506	Nonsense_Mutation	novel	E387*	0.41
UCEC	chr19	39389099	Silent	novel	Q187Q	0.38
UCEC	chr19	39389524	Missense_Mutation	NA	E105D	0.25
UCEC	chr19	39386726	Missense_Mutation	NA	R354W	0.08
UCEC	chr19	39389340	Nonsense_Mutation	novel	E135*	0.42
UCEC	chr19	39386276	Silent	rs145049661	D437D	0.31
UCEC	chr19	39388605	Missense_Mutation	rs747480050	R271Q	0.3
UCEC	chr19	39386090	Silent	rs371726994	S499S	0.17
UCEC	chr19	39386506	Nonsense_Mutation	novel	E387*	0.44
UCEC	chr19	39386223	Missense_Mutation	novel	G455D	0.41
UCEC	chr19	39386725	Missense_Mutation	novel	R354Q	0.36
UCEC	chr19	39389679	Missense_Mutation	NA	D85N	0.26
UCEC	chr19	39390923	5'UTR	novel		0.26

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
KIRP	DEL	0.0451	0.054726
OV	AMP	0.3541	2.2539e-28
PAAD	AMP	0.2011	3.1883e-10
READ	DEL	0.0545	0.23023
UCS	DEL	0.125	0.12448

Survival Analysis

Cancer	P-value	Q-value
KIRC	0.028	Kaplan-Meier Survival Analysis
ACC	0.0016	Kaplan-Meier Survival Analysis
BRCA	0.017	Kaplan-Meier Survival Analysis
PAAD	0.0044	Kaplan-Meier Survival Analysis
LAML	0.00048	Kaplan-Meier Survival Analysis
LIHC	0.018	Kaplan-Meier Survival Analysis
DLBC	0.018	Kaplan-Meier Survival Analysis
LGG	0.0018	Kaplan-Meier Survival Analysis
CHOL	0.0015	Kaplan-Meier Survival Analysis
UVM	0.00082	Kaplan-Meier Survival Analysis

Drugs

EuRBPDB

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

PPI

Gene Ontology

Select Dataset :

Input Drug :

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Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742