EuRBPDB

Basic Information
Cancer Related Information

Description

RBPome

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000133119 (Gene tree)
Gene ID: 5983
Gene Symbol: RFC3
Alias: RFC38|MGC5276
Full Name: replication factor C subunit 3
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Plus strand
Length: 155,898 bases
Position: chr13:33,818,049-33,973,946
Accession: 9971
RBP type: non-canonical RBP
Summary: The elongation of primed DNA templates by DNA polymerase delta and DNA polymerase epsilon requires the accessory proteins proliferating cell nuclear antigen (PCNA) and replication factor C (RFC). RFC, also named activator 1, is a protein complex consisting of five distinct subunits of 140, 40, 38, 37, and 36 kDa. This gene encodes the 38 kDa subunit. This subunit is essential for the interaction between the 140 kDa subunit and the core complex that consists of the 36, 37, and 40 kDa subunits. Alternatively spliced transcript variants encoding distinct isoforms have been described. [provided by RefSeq, Jul 2008]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
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

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000434425	RFC3-202	1461	XM_011535172	ENSP00000401001	305 (aa)	XP_011533474	P40938
ENST00000380071	RFC3-201	2402	XM_011535174	ENSP00000369411	356 (aa)	XP_011533476	P40938
ENST00000616236	RFC3-203	612	-	ENSP00000484747	103 (aa)	-	A0A087X270

Gene Model

Click here to download ENSG00000133119's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa03030	DNA replication	KEGG
hsa03420	Nucleotide excision repair	KEGG
hsa03430	Mismatch repair	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000133119	Body Weights and Measures	5.11969458985379E-6	17903300
ENSG00000133119	Body Weights and Measures	3.49703759575645E-6	17903300

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000133119'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
ENSG00000133119	RFC3	100	97.191	ENSMUSG00000033970	Rfc3	100	97.191	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000731	DNA synthesis involved in DNA repair	9488738.	TAS	Process
GO:0003677	DNA binding	9488738.	IDA	Function
GO:0003689	DNA clamp loader activity	21873635.	IBA	Function
GO:0003689	DNA clamp loader activity	12930902.	IDA	Function
GO:0003689	DNA clamp loader activity	9488738.	TAS	Function
GO:0005515	protein binding	9488738.	IPI	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005663	DNA replication factor C complex	21873635.	IBA	Component
GO:0005663	DNA replication factor C complex	9488738.	IDA	Component
GO:0005663	DNA replication factor C complex	7774928.	TAS	Component
GO:0006260	DNA replication	9488738.	IDA	Process
GO:0006260	DNA replication	-	TAS	Process
GO:0006261	DNA-dependent DNA replication	21873635.	IBA	Process
GO:0006271	DNA strand elongation involved in DNA replication	7774928.	TAS	Process
GO:0006283	transcription-coupled nucleotide-excision repair	-	TAS	Process
GO:0006296	nucleotide-excision repair, DNA incision, 5'-to lesion	-	TAS	Process
GO:0006297	nucleotide-excision repair, DNA gap filling	-	TAS	Process
GO:0016887	ATPase activity	9488738.	IDA	Function
GO:0019985	translesion synthesis	-	TAS	Process
GO:0031390	Ctf18 RFC-like complex	12930902.	IDA	Component
GO:0032201	telomere maintenance via semi-conservative replication	-	TAS	Process
GO:0033683	nucleotide-excision repair, DNA incision	-	TAS	Process
GO:0042276	error-prone translesion synthesis	-	TAS	Process
GO:0042769	DNA damage response, detection of DNA damage	-	TAS	Process
GO:0043142	single-stranded DNA-dependent ATPase activity	12930902.	IDA	Function
GO:0046683	response to organophosphorus	16079077.	IEP	Process
GO:0070987	error-free translesion synthesis	-	TAS	Process
GO:1900264	positive regulation of DNA-directed DNA polymerase activity	12930902.	IDA	Process
GO:1901796	regulation of signal transduction by p53 class mediator	-	TAS	Process

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
20573375	Mutational and expressional analysis of RFC3, a clamp loader in DNA replication, in gastric and colorectal cancers.	Hum Pathol	2010 Oct	Kim YR	doi: 10.1016/j.humpath.2010.03.006
26464638	ShRNA-mediated silencing of the RFC3 gene suppress ovarian tumor cells proliferation.	Int J Clin Exp Pathol	2015 Aug 1	Shen H	-
22949521	9-Cis-retinoic acid induces growth inhibition in retinoid-sensitive breast cancer and sea urchin embryonic cells via retinoid X receptor α and replication factor C3.	Mol Endocrinol	2012 Nov	Maeng S	doi: 10.1210/me.2012-1104

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr13	33818135	5'UTR	novel		0.13
BLCA	chr13	33836114	Nonsense_Mutation	novel	S297*	0.22
BRCA	chr13	33825839	Missense_Mutation	rs758867827	V115A	0.06
BRCA	chr13	33836363	3'UTR	novel		0.34
BRCA	chr13	33966119	Missense_Mutation	novel	I304M	0.06
CESC	chr13	33830731	Silent	novel	L196L	0.29
CESC	chr13	33836122	Silent	novel	L300L	0.49
CESC	chr13	33821153	Missense_Mutation	NA	H37Y	0.18
COAD	chr13	33836402	3'UTR	rs1053960		0.33
COAD	chr13	33836395	3'UTR	novel		0.31
COAD	chr13	33966180	3'UTR	novel		0.34
COAD	chr13	33829867	Silent	NA	T141T	0.4
COAD	chr13	33831346	Silent	novel	T267T	0.15
COAD	chr13	33836368	3'UTR	novel		0.19
COAD	chr13	33821255	Nonsense_Mutation	novel	*H71Lfs3**	0.07
ESCA	chr13	33836289	Missense_Mutation	novel	M355I	0.07
GBM	chr13	33830728	Missense_Mutation	novel	V195L	0.16
HNSC	chr13	33825844	Frame_Shift_Ins	novel	*S118Ifs5**	0.24
HNSC	chr13	33836324	3'UTR	novel		0.3
HNSC	chr13	33818135	5'UTR	rs368066565		0.42
KIRC	chr13	33836379	3'UTR	novel		0.28
KIRP	chr13	33966326	3'UTR	novel		0.5
LAML	chr13	33835148	Splice_Region	NA	R270R	0.33
LAML	chr13	33821220	Missense_Mutation	novel	L59P	0.04
LAML	chr13	33829946	Missense_Mutation	NA	T168P	0.29
LUAD	chr13	33829873	Silent	novel	D143D	0.86
LUAD	chr13	33830806	Nonsense_Mutation	NA	R221*	0.21
LUAD	chr13	33830804	Missense_Mutation	NA	C220F	0.17
LUSC	chr13	33830761	Missense_Mutation	novel	N206Y	0.07
LUSC	chr13	33966125	Nonstop_Mutation	novel	306Cext19	0.57
LUSC	chr13	33829967	Missense_Mutation	novel	I175V	0.43
LUSC	chr13	33966211	3'UTR	novel		0.29
LUSC	chr13	33818148	5'UTR	rs777426991		0.11
LUSC	chr13	33831255	Splice_Site	novel	X237_splice	0.12
OV	chr13	33818127	5'UTR	novel		0.46
PRAD	chr13	33825854	Missense_Mutation	novel	Q120P	0.25
PRAD	chr13	33818219	Missense_Mutation	rs140507898	G14E	0.2
PRAD	chr13	33829985	Missense_Mutation	novel	A181T	0.34
READ	chr13	33836314	3'UTR	novel		0.24
SKCM	chr13	33836265	Missense_Mutation	novel	M347I	0.9
SKCM	chr13	33836266	Missense_Mutation	novel	E348K	0.9
SKCM	chr13	33831283	Silent	novel	I246I	0.45
SKCM	chr13	33835161	Missense_Mutation	rs761845498	R275C	0.16
SKCM	chr13	33836336	3'UTR	novel		0.35
SKCM	chr13	33966169	3'UTR	novel		0.64
SKCM	chr13	33825881	Missense_Mutation	novel	F129C	0.2
STAD	chr13	33835209	Missense_Mutation	novel	I291V	0.11
STAD	chr13	33829993	Silent	NA	R183R	0.19
STAD	chr13	33835161	Missense_Mutation	rs761845498	R275C	0.35
STAD	chr13	33818163	5'UTR	novel		0.48
STAD	chr13	33836227	Missense_Mutation	NA	F335L	0.19
STAD	chr13	33829893	Missense_Mutation	NA	R150K	0.16
UCEC	chr13	33818082	5'UTR	novel		0.67
UCEC	chr13	33818172	Missense_Mutation	novel		0.05
UCEC	chr13	33821196	Missense_Mutation	NA	R51I	0.29
UCEC	chr13	33836520	3'UTR	novel		0.31
UCEC	chr13	33836331	3'UTR	novel		0.35
UCEC	chr13	33830006	Missense_Mutation	novel	S188R	0.35
UCEC	chr13	33829970	Frame_Shift_Del	NA	*R176Lfs21**	0.28
UCEC	chr13	33823926	Frame_Shift_Del	rs753959887	*I82Lfs25**	0.46
UCEC	chr13	33836245	Missense_Mutation	NA	A341T	0.4
UCEC	chr13	33829992	Missense_Mutation	rs761230186	R183H	0.38
UCEC	chr13	33830728	Missense_Mutation	rs41553716	V195M	0.35
UCEC	chr13	33836167	Missense_Mutation	NA	A315S	0.31
UCEC	chr13	33818082	5'UTR	novel		0.31
UCEC	chr13	33835162	Missense_Mutation	rs751166752	R275H	0.21
UCEC	chr13	33823926	Frame_Shift_Del	NA	*K81Nfs2**	0.29
UCEC	chr13	33821254	Silent	novel	E70E	0.44
UCEC	chr13	33831278	Nonsense_Mutation	novel	E245*	0.12
UCEC	chr13	33836186	Missense_Mutation	novel	R321H	0.43
UCEC	chr13	33821168	Missense_Mutation	rs769043955	G42R	0.4
UCEC	chr13	33818082	5'UTR	novel		0.39
UCEC	chr13	33830728	Missense_Mutation	rs41553716	V195M	0.23
UCEC	chr13	33836181	Silent	novel	E319E	0.46
UCEC	chr13	33829850	Nonsense_Mutation	novel	E136*	0.57
UCEC	chr13	33830745	Silent	novel	C200C	0.08
UCEC	chr13	33823926	Frame_Shift_Del	rs753959887	*I82Lfs25**	0.39
UCEC	chr13	33966355	3'UTR	novel		0.22
UCEC	chr13	33966356	3'UTR	novel		0.22
UCEC	chr13	33830017	Splice_Region	novel	D191D	0.37
UCEC	chr13	33821191	Missense_Mutation	NA	K49N	0.41
UCEC	chr13	33823971	Missense_Mutation	novel	E94K	0.43

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
KIRC	DEL	0.1193	0.031318
MESO	DEL	0.4138	0.0010209
STAD	AMP	0.3107	0.01734

Survival Analysis

Cancer	P-value	Q-value
THYM	0.0027	Kaplan-Meier Survival Analysis
KIRC	0.0041	Kaplan-Meier Survival Analysis
STAD	0.05	Kaplan-Meier Survival Analysis
SARC	0.029	Kaplan-Meier Survival Analysis
MESO	0.0024	Kaplan-Meier Survival Analysis
ACC	0.0001	Kaplan-Meier Survival Analysis
HNSC	0.021	Kaplan-Meier Survival Analysis
KIRP	0.00016	Kaplan-Meier Survival Analysis
KICH	0.012	Kaplan-Meier Survival Analysis
LGG	0.0002	Kaplan-Meier Survival Analysis
LUAD	0.023	Kaplan-Meier Survival Analysis

Drugs

EuRBPDB

Description

RBPome

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

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