EuRBPDB

Basic Information
Cancer Related Information

Description

RBDs

RBPome

PRI

Literatures

Expression

Transcripts

Gene Model

Pathways

PPI

Paralogs

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000244509 (Gene tree)
Gene ID: 27350
Gene Symbol: APOBEC3C
Alias: APOBEC1L|PBI|bK150C2.3|ARDC2|ARDC4|ARP5
Full Name: apolipoprotein B mRNA editing enzyme catalytic subunit 3C
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 6,270 bases
Position: chr22:39,014,083-39,020,352
Accession: 17353
RBP type: canonical RBP
Summary: This gene is a member of the cytidine deaminase gene family. It is one of seven related genes or pseudogenes found in a cluster thought to result from gene duplication, on chromosome 22. Members of the cluster encode proteins that are structurally and functionally related to the C to U RNA-editing cytidine deaminase APOBEC1. It is thought that the proteins may be RNA editing enzymes and have roles in growth or cell cycle control. [provided by RefSeq, Jul 2008]

RNA binding domains(RBDs)

Protein ID	Domain	Pfam ID	E-value	Domain number	Total number
ENSP00000355340	APOBEC_N	PF08210.11	4.4e-58	1	1
ENSP00000355340	APOBEC_C	PF05240.14	4.4e-32	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
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
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

Protein-RNA interaction（RNA-Binding Site）

Click here to download all RNA binding sites

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
20926562	Association of potent human antiviral cytidine deaminases with 7SL RNA and viral RNP in HIV-1 virions.	J Virol	2010 Dec	Zhang W	doi: 10.1128/JVI.01632-10
24101588	Human LINE-1 restriction by APOBEC3C is deaminase independent and mediated by an ORF1p interaction that affects LINE reverse transcriptase activity.	Nucleic Acids Res	2014 Jan	Horn AV	doi: 10.1093/nar/gkt898

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000428892	APOBEC3C-202	1056	-	ENSP00000390855	61 (aa)	-	F8WB92
ENST00000361441	APOBEC3C-201	2818	XM_024452218	ENSP00000355340	190 (aa)	XP_024307986	Q9NRW3

Gene Model

Click here to download ENSG00000244509's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa05170	Human immunodeficiency virus 1 infection	KEGG

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000244509'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
ENSG00000244509	APOBEC3C	100	79.032	ENSG00000128394	APOBEC3F	100	79.032
ENSG00000244509	APOBEC3C	100	52.105	ENSG00000179750	APOBEC3B	98	52.105
ENSG00000244509	APOBEC3C	93	31.522	ENSG00000124701	APOBEC2	79	32.597
ENSG00000244509	APOBEC3C	71	40.288	ENSG00000100298	APOBEC3H	74	41.045
ENSG00000244509	APOBEC3C	100	43.077	ENSG00000239713	APOBEC3G	99	43.077

Orthologs

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000244509	APOBEC3C	100	68.947	ENSANAG00000030088	-	97	68.280	Aotus_nancymaae
ENSG00000244509	APOBEC3C	69	68.182	ENSCJAG00000015317	-	100	68.182	Callithrix_jacchus
ENSG00000244509	APOBEC3C	98	47.368	ENSCAFG00020002615	-	99	47.368	Canis_lupus_dingo
ENSG00000244509	APOBEC3C	96	49.727	ENSTSYG00000030036	-	99	49.727	Carlito_syrichta
ENSG00000244509	APOBEC3C	100	52.381	ENSTSYG00000034260	-	98	52.381	Carlito_syrichta
ENSG00000244509	APOBEC3C	96	53.005	ENSTSYG00000028254	-	99	53.005	Carlito_syrichta
ENSG00000244509	APOBEC3C	98	67.742	ENSCCAG00000030932	-	84	67.742	Cebus_capucinus
ENSG00000244509	APOBEC3C	100	82.632	ENSCATG00000043226	APOBEC3C	100	82.632	Cercocebus_atys
ENSG00000244509	APOBEC3C	100	76.871	ENSCATG00000033502	-	100	76.882	Cercocebus_atys
ENSG00000244509	APOBEC3C	100	83.158	ENSCSAG00000006402	APOBEC3C	100	83.158	Chlorocebus_sabaeus
ENSG00000244509	APOBEC3C	100	75.806	ENSCSAG00000006382	APOBEC3F	100	75.806	Chlorocebus_sabaeus
ENSG00000244509	APOBEC3C	100	77.957	ENSCANG00000032904	-	100	77.957	Colobus_angolensis_palliatus
ENSG00000244509	APOBEC3C	100	82.632	ENSCANG00000039177	APOBEC3C	100	82.632	Colobus_angolensis_palliatus
ENSG00000244509	APOBEC3C	100	71.505	ENSCANG00000033269	-	99	73.370	Colobus_angolensis_palliatus
ENSG00000244509	APOBEC3C	100	73.656	ENSCANG00000031957	-	100	73.656	Colobus_angolensis_palliatus
ENSG00000244509	APOBEC3C	97	40.323	ENSDNOG00000044642	-	99	40.323	Dasypus_novemcinctus
ENSG00000244509	APOBEC3C	100	43.627	ENSEASG00005018641	-	100	43.627	Equus_asinus_asinus
ENSG00000244509	APOBEC3C	98	47.849	ENSECAG00000006071	-	100	47.849	Equus_caballus
ENSG00000244509	APOBEC3C	100	79.570	ENSGGOG00000038678	APOBEC3F	100	79.570	Gorilla_gorilla
ENSG00000244509	APOBEC3C	100	87.368	ENSGGOG00000036587	-	100	87.368	Gorilla_gorilla
ENSG00000244509	APOBEC3C	98	45.213	ENSHGLG00000017315	-	85	43.316	Heterocephalus_glaber_female
ENSG00000244509	APOBEC3C	98	45.213	ENSHGLG00100003105	-	94	45.213	Heterocephalus_glaber_male
ENSG00000244509	APOBEC3C	100	76.344	ENSMFAG00000002331	-	100	76.344	Macaca_fascicularis
ENSG00000244509	APOBEC3C	100	74.731	ENSMFAG00000004037	APOBEC3F	100	74.731	Macaca_fascicularis
ENSG00000244509	APOBEC3C	100	83.684	ENSMFAG00000016792	APOBEC3C	100	83.684	Macaca_fascicularis
ENSG00000244509	APOBEC3C	100	77.419	ENSMMUG00000004017	APOBEC3F	100	77.419	Macaca_mulatta
ENSG00000244509	APOBEC3C	97	84.783	ENSMMUG00000004018	APOBEC3C	95	84.783	Macaca_mulatta
ENSG00000244509	APOBEC3C	100	76.344	ENSMNEG00000043316	APOBEC3D	100	76.344	Macaca_nemestrina
ENSG00000244509	APOBEC3C	100	84.211	ENSMNEG00000045196	APOBEC3C	100	84.211	Macaca_nemestrina
ENSG00000244509	APOBEC3C	100	82.632	ENSMLEG00000036992	APOBEC3C	100	82.632	Mandrillus_leucophaeus
ENSG00000244509	APOBEC3C	100	75.269	ENSMLEG00000029642	APOBEC3F	100	75.269	Mandrillus_leucophaeus
ENSG00000244509	APOBEC3C	99	53.723	ENSMICG00000042615	-	89	53.723	Microcebus_murinus
ENSG00000244509	APOBEC3C	97	45.550	ENSMLUG00000023676	-	99	45.550	Myotis_lucifugus
ENSG00000244509	APOBEC3C	100	64.211	ENSNLEG00000035811	-	100	64.211	Nomascus_leucogenys
ENSG00000244509	APOBEC3C	100	82.105	ENSNLEG00000028392	APOBEC3C	100	82.105	Nomascus_leucogenys
ENSG00000244509	APOBEC3C	98	45.251	ENSOGAG00000033404	-	100	45.251	Otolemur_garnettii
ENSG00000244509	APOBEC3C	98	48.663	ENSOGAG00000032498	-	99	48.663	Otolemur_garnettii
ENSG00000244509	APOBEC3C	98	42.781	ENSOGAG00000030300	-	97	42.781	Otolemur_garnettii
ENSG00000244509	APOBEC3C	100	97.895	ENSPPAG00000014118	APOBEC3C	100	97.895	Pan_paniscus
ENSG00000244509	APOBEC3C	100	77.368	ENSPPAG00000028218	-	100	77.368	Pan_paniscus
ENSG00000244509	APOBEC3C	97	48.404	ENSPPRG00000003726	-	98	48.404	Panthera_pardus
ENSG00000244509	APOBEC3C	100	78.495	ENSPTRG00000014385	APOBEC3C	100	78.495	Pan_troglodytes
ENSG00000244509	APOBEC3C	100	77.368	ENSPTRG00000041588	APOBEC3D	100	77.368	Pan_troglodytes
ENSG00000244509	APOBEC3C	100	82.105	ENSPANG00000010775	APOBEC3F	100	82.105	Papio_anubis
ENSG00000244509	APOBEC3C	100	85.263	ENSPPYG00000011832	APOBEC3C	100	85.263	Pongo_abelii
ENSG00000244509	APOBEC3C	67	57.031	ENSPCOG00000022067	-	97	57.031	Propithecus_coquereli
ENSG00000244509	APOBEC3C	66	57.143	ENSPCOG00000018072	-	95	57.143	Propithecus_coquereli
ENSG00000244509	APOBEC3C	64	50.000	ENSPVAG00000009461	-	50	50.000	Pteropus_vampyrus
ENSG00000244509	APOBEC3C	100	75.556	ENSRBIG00000042297	-	99	77.707	Rhinopithecus_bieti
ENSG00000244509	APOBEC3C	100	82.105	ENSRBIG00000030323	-	100	82.105	Rhinopithecus_bieti
ENSG00000244509	APOBEC3C	100	76.344	ENSRBIG00000030834	-	100	76.344	Rhinopithecus_bieti
ENSG00000244509	APOBEC3C	100	75.000	ENSRROG00000029996	-	100	75.000	Rhinopithecus_roxellana
ENSG00000244509	APOBEC3C	100	82.105	ENSRROG00000029045	APOBEC3C	100	82.105	Rhinopithecus_roxellana
ENSG00000244509	APOBEC3C	100	75.806	ENSRROG00000028557	-	100	75.806	Rhinopithecus_roxellana
ENSG00000244509	APOBEC3C	100	69.474	ENSSBOG00000032780	-	100	69.474	Saimiri_boliviensis_boliviensis
ENSG00000244509	APOBEC3C	85	49.068	ENSUAMG00000004433	-	89	49.068	Ursus_americanus
ENSG00000244509	APOBEC3C	86	50.000	ENSUMAG00000014441	-	76	50.000	Ursus_maritimus
ENSG00000244509	APOBEC3C	77	51.007	ENSVVUG00000014628	-	91	50.685	Vulpes_vulpes

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000932	P-body	21873635.	IBA	Component
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0003723	RNA binding	21873635.	IBA	Function
GO:0004126	cytidine deaminase activity	21873635.	IBA	Function
GO:0005515	protein binding	22915799.25416956.	IPI	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005634	nucleus	21835787.	IDA	Component
GO:0005737	cytoplasm	21873635.	IBA	Component
GO:0005737	cytoplasm	21835787.	IDA	Component
GO:0008270	zinc ion binding	-	IEA	Function
GO:0009972	cytidine deamination	21632763.	IDA	Process
GO:0010529	negative regulation of transposition	21873635.	IBA	Process
GO:0010529	negative regulation of transposition	16527742.20062055.	IDA	Process
GO:0016032	viral process	-	IEA	Process
GO:0016554	cytidine to uridine editing	21873635.	IBA	Process
GO:0045071	negative regulation of viral genome replication	21632763.	IDA	Process
GO:0045087	innate immune response	-	IEA	Process
GO:0045869	negative regulation of single stranded viral RNA replication via double stranded DNA intermediate	21873635.	IBA	Process
GO:0051607	defense response to virus	21873635.	IBA	Process
GO:0070383	DNA cytosine deamination	21873635.	IBA	Process
GO:0080111	DNA demethylation	21873635.	IBA	Process
GO:0080111	DNA demethylation	21496894.	IDA	Process

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
26682542	Integrative genomic analysis reveals functional diversification of APOBEC gene family in breast cancer.	Hum Genomics	2015 Dec 18	Zhang Y	doi: 10.1186/s40246-015-0056-9.
23715497	APOBEC3 deletion polymorphism is associated with breast cancer risk among women of European ancestry.	Carcinogenesis	2013 Oct	Xuan D	doi: 10.1093/carcin/bgt185

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq	RBD
ACC	chr22	39014278	5'UTR	novel		0.41
BLCA	chr22	39017869	Missense_Mutation	novel	S93Y	0.18
BLCA	chr22	39017937	Missense_Mutation	novel	L116I	0.33	APOBEC_N
BLCA	chr22	39018420	3'UTR	rs769474230		0.91
BRCA	chr22	39018286	Missense_Mutation	NA	E158K	0.22	APOBEC_N
CESC	chr22	39015737	Missense_Mutation	rs756657821	V54I	0.32
CESC	chr22	39015711	Missense_Mutation	rs376538641	R45H	0.36
CESC	chr22	39015707	Missense_Mutation	NA	R44C	0.1
COAD	chr22	39017942	Silent	novel	T117T	0.4
COAD	chr22	39015743	Nonsense_Mutation	rs778502182	R56*	0.14
COAD	chr22	39015666	Missense_Mutation	novel	R30Q	0.23
COAD	chr22	39017956	Missense_Mutation	novel	R122H	0.38	APOBEC_N
COAD	chr22	39015661	Silent	rs773172607	N28N	0.65
COAD	chr22	39017822	Silent	rs201615015	D77D	0.25
COAD	chr22	39017994	Missense_Mutation	NA	L135F	0.28	APOBEC_N
COAD	chr22	39017958	Missense_Mutation	novel	L123I	0.43	APOBEC_N
GBM	chr22	39017956	Missense_Mutation	novel	R122H	0.04	APOBEC_N
GBM	chr22	39014322	5'UTR	novel		0.26
HNSC	chr22	39015607	Silent	novel	K10K	0.1
HNSC	chr22	39018284	Missense_Mutation	novel	W157S	0.18	APOBEC_N
LAML	chr22	39015641	Frame_Shift_Del	novel	*N23Tfs20**	0.04
LAML	chr22	39018332	Missense_Mutation	novel	G173E	0.03	APOBEC_N
LIHC	chr22	39014317	5'UTR	novel		0.2
LUAD	chr22	39018509	3'UTR	novel		0.52
LUAD	chr22	39018027	Nonsense_Mutation	NA	E146*	0.15	APOBEC_N
LUAD	chr22	39017819	Silent	rs140381208	C76C	0.23
LUSC	chr22	39015692	Missense_Mutation	rs201591623	V39M	0.2
LUSC	chr22	39018406	3'UTR	novel		0.17
OV	chr22	39018667	3'UTR	novel		0.15
READ	chr22	39018443	3'UTR	novel		0.4
READ	chr22	39015743	Nonsense_Mutation	rs778502182	R56*	0.46
SKCM	chr22	39018274	Missense_Mutation	NA	K154E	0.33	APOBEC_N
SKCM	chr22	39014299	5'UTR	novel		0.36
SKCM	chr22	39014308	5'UTR	NA		0.28
SKCM	chr22	39015723	Missense_Mutation	NA	S49F	0.32
SKCM	chr22	39014302	5'UTR	novel		0.53
SKCM	chr22	39015606	Missense_Mutation	novel	K10R	0.38
SKCM	chr22	39015607	Silent	novel	K10K	0.38
SKCM	chr22	39017912	Silent	NA	F107F	0.62
SKCM	chr22	39015748	Silent	rs745498036	N57N	0.66
STAD	chr22	39015682	Frame_Shift_Del	novel	*C36Afs7**	0.26
STAD	chr22	39014336	5'UTR	novel		0.32
STAD	chr22	39018038	Missense_Mutation	NA	D149E	0.46	APOBEC_N
STAD	chr22	39017818	Missense_Mutation	novel	C76Y	0.46
THCA	chr22	39018355	Silent	novel	L181L	0.41
UCEC	chr22	39015737	Missense_Mutation	rs756657821	V54I	0.06
UCEC	chr22	39015711	Missense_Mutation	rs376538641	R45H	0.08
UCEC	chr22	39018428	3'UTR	novel		0.37
UCEC	chr22	39018038	Missense_Mutation	NA	D149E	0.24	APOBEC_N
UCEC	chr22	39017926	Missense_Mutation	NA	S112N	0.32	APOBEC_N
UCEC	chr22	39018349	Nonsense_Mutation	rs201889908	R179*	0.23	APOBEC_N
UCEC	chr22	39018021	Missense_Mutation	rs200232887	A144T	0.27	APOBEC_N
UCEC	chr22	39018349	Nonsense_Mutation	rs201889908	R179*	0.21	APOBEC_N
UCEC	chr22	39014322	5'UTR	novel		0.98
UCS	chr22	39018395	3'UTR	NA		0.11

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
PCPG	DEL	0.3272	0.044123
THCA	DEL	0.1563	0.046486
THYM	DEL	0.0813	0.063154

Survival Analysis

Cancer	P-value	Q-value
THYM	0.027	Kaplan-Meier Survival Analysis
KIRC	0.00074	Kaplan-Meier Survival Analysis
SARC	0.00078	Kaplan-Meier Survival Analysis
MESO	0.00052	Kaplan-Meier Survival Analysis
ACC	0.015	Kaplan-Meier Survival Analysis
SKCM	0.03	Kaplan-Meier Survival Analysis
LUSC	0.012	Kaplan-Meier Survival Analysis
BRCA	0.0063	Kaplan-Meier Survival Analysis
ESCA	0.035	Kaplan-Meier Survival Analysis
COAD	0.016	Kaplan-Meier Survival Analysis
PAAD	0.0025	Kaplan-Meier Survival Analysis
BLCA	0.0039	Kaplan-Meier Survival Analysis
CESC	0.003	Kaplan-Meier Survival Analysis
LAML	0.00017	Kaplan-Meier Survival Analysis
UCEC	0.021	Kaplan-Meier Survival Analysis
GBM	0.021	Kaplan-Meier Survival Analysis
OV	0.0023	Kaplan-Meier Survival Analysis

Drugs

EuRBPDB

Description

RBDs

RBPome

PRI

Literatures

Expression

Transcripts

Gene Model

Pathways

PPI

Paralogs

Orthologs

Gene Ontology

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742