EuRBPDB

Note: to get the extension of tumor abbreviations.

Cancer Related Information
Basic Information

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
21266548	Molecular basis for ubiquitin and ISG15 cross-reactivity in viral ovarian tumor domains.	Proc Natl Acad Sci U S A	2011 Feb 8	Akutsu M	doi: 10.1073/pnas.1015287108
16144914	Estrogen-responsive finger protein as a new potential biomarker for breast cancer.	Clin Cancer Res	2005 Sep 1	Suzuki T	-
12943693	Estrogen-responsive RING finger protein controls breast cancer growth.	J Steroid Biochem Mol Biol	2003 Jun	Horie K	-
22452784	Oestrogen causes ATBF1 protein degradation through the oestrogen-responsive E3 ubiquitin ligase EFP.	Biochem J	2012 Jun 15	Dong XY	doi: 10.1042/BJ20111890.
27528750	The role of Trim25 in development, disease and RNA metabolism.	Biochem Soc Trans	2016 Aug 15	Heikel G	doi: 10.1042/BST20160077.
26113559	Overexpression of TRIM25 in Lung Cancer Regulates Tumor Cell Progression.	Technol Cancer Res Treat	2016 Oct	Qin Y	doi: 10.1177/1533034615595903
27626314	The ubiquitin ligase TRIM25 targets ERG for degradation in prostate cancer.	Oncotarget	2016 Oct 4	Wang S	doi: 10.18632/oncotarget.11915.
28813674	An Integrated Systems Biology Approach Identifies TRIM25 as a Key Determinant of Breast Cancer Metastasis.	Cell Rep	2017 Aug 15	Walsh LA	doi: 10.1016/j.celrep.2017.07.052.
29379164	TRIM25 enhances cell growth and cell survival by modulating p53 signals via interaction with G3BP2 in prostate cancer.	Oncogene	2018 Apr	Takayama KI	doi: 10.1038/s41388-017-0095-x

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr17	56901474	Silent	novel	L344L	0.09
BLCA	chr17	56891569	3'UTR	novel		0.6
BLCA	chr17	56913937	Missense_Mutation	NA	E18K	0.24
BLCA	chr17	56913699	Missense_Mutation	novel	S97F	0.81
BLCA	chr17	56891812	Missense_Mutation	NA	A594D	0.47
BLCA	chr17	56892229	Frame_Shift_Ins	novel	*Y455Lfs4**	0.04
BLCA	chr17	56904345	Silent	novel	Q279Q	0.69
BLCA	chr17	56908517	Missense_Mutation	NA	G215A	0.4
BLCA	chr17	56913812	Silent	NA	A59A	0.3
BLCA	chr17	56892137	Missense_Mutation	novel	Q486E	0.39
BRCA	chr17	56891509	3'UTR	novel		0.4
BRCA	chr17	56891973	Frame_Shift_Del	novel	*S540Rfs60**	0.09
BRCA	chr17	56901553	Nonsense_Mutation	novel	S318*	0.06
BRCA	chr17	56891989	Missense_Mutation	rs367715143	R535Q	0.82
BRCA	chr17	56913467	Silent	NA	C174C	0.55
BRCA	chr17	56901579	Splice_Site	novel	X310_splice	0.09
BRCA	chr17	56904386	Missense_Mutation	novel	E266Q	0.09
BRCA	chr17	56895942	Missense_Mutation	NA	K388N	0.13
CESC	chr17	56891599	3'UTR	novel		0.42
CESC	chr17	56891329	3'UTR	novel		0.41
CESC	chr17	56892095	Nonsense_Mutation	novel	Q500*	0.24
CESC	chr17	56891967	Silent	rs137888736	L542L	0.22
COAD	chr17	56891638	3'UTR	novel		0.33
COAD	chr17	56904376	Missense_Mutation	novel	R269M	0.17
COAD	chr17	56892123	Silent	rs142382736	P490P	0.15
COAD	chr17	56891731	Missense_Mutation	novel	G621D	0.15
COAD	chr17	56892016	Missense_Mutation	NA	V526A	0.25
COAD	chr17	56913526	Frame_Shift_Ins	novel	*R155Ffs32**	0.58
COAD	chr17	56914004	5'UTR	novel		0.32
COAD	chr17	56901426	Frame_Shift_Del	NA	*S361Vfs20**	0.13
COAD	chr17	56891966	Missense_Mutation	novel	G543S	0.23
COAD	chr17	56913427	Missense_Mutation	rs763430514	P188S	0.4
COAD	chr17	56899164	Silent	rs759955328	H368H	0.34
COAD	chr17	56891927	Missense_Mutation	novel	T556A	0.32
COAD	chr17	56908515	Frame_Shift_Del	rs746988951	*A216Rfs8**	0.11
DLBC	chr17	56891920	Missense_Mutation	novel	I558N	0.35
ESCA	chr17	56901497	Missense_Mutation	novel	I337F	0.33
GBM	chr17	56891820	Silent	rs748000227	F591F	0.26
GBM	chr17	56901449	Missense_Mutation	novel	G353R	0.2
GBM	chr17	56901503	Missense_Mutation	novel	K335E	0.2
GBM	chr17	56913547	Missense_Mutation	novel	P148T	0.34
GBM	chr17	56904327	Missense_Mutation	novel	K285N	0.08
HNSC	chr17	56913481	Missense_Mutation	novel	E170K	0.23
HNSC	chr17	56913563	Silent	novel	D142D	0.4
HNSC	chr17	56891653	3'UTR	novel		0.21
HNSC	chr17	56914039	5'Flank	novel		0.62
HNSC	chr17	56908542	Missense_Mutation	novel	T207A	0.28
KICH	chr17	56908518	Missense_Mutation	rs777785843	G215R	0.47
KIRC	chr17	56908489	Missense_Mutation	NA	R224S	0.25
KIRP	chr17	56891765	Missense_Mutation	NA	A610P	0.6
LIHC	chr17	56913999	5'UTR	novel		0.44
LIHC	chr17	56904402	Silent	novel	T260T	0.26
LIHC	chr17	56904453	Missense_Mutation	novel	Q243H	0.35
LUAD	chr17	56891939	Nonsense_Mutation	novel	E552*	0.1
LUAD	chr17	56901562	Missense_Mutation	NA	R315L	0.4
LUAD	chr17	56891980	Missense_Mutation	NA	P538L	0.27
LUAD	chr17	56913636	Missense_Mutation	novel	T118K	0.23
LUAD	chr17	56904365	Nonsense_Mutation	novel	K273*	0.25
LUSC	chr17	56913428	Silent	novel	S187S	0.08
LUSC	chr17	56891866	Missense_Mutation	NA	R576P	0.48
LUSC	chr17	56891936	Missense_Mutation	NA	W553R	0.18
LUSC	chr17	56913500	Silent	novel	L163L	0.6
LUSC	chr17	56891676	3'UTR	novel		0.42
LUSC	chr17	56904302	Nonsense_Mutation	novel	E294*	0.18
LUSC	chr17	56908555	Silent	novel	L202L	0.2
MESO	chr17	56899155	Silent	novel	A371A	0.18
OV	chr17	56908482	Missense_Mutation	novel	Q227K	0.12
OV	chr17	56887974	3'UTR	novel		1
OV	chr17	56895599	Missense_Mutation	novel	V396F	0.05
OV	chr17	56891698	3'UTR	novel		0.1
PRAD	chr17	56891961	Silent	NA	R544R	0.27
PRAD	chr17	56891872	Missense_Mutation	novel	A574V	0.42
PRAD	chr17	56892182	Missense_Mutation	novel	A471T	0.38
READ	chr17	56892144	Missense_Mutation	NA	E483D	0.36
READ	chr17	56904266	Missense_Mutation	rs747508258	E306K	0.49
SARC	chr17	56891641	3'UTR	novel		0.88
SKCM	chr17	56913615	Missense_Mutation	novel	S125F	0.34
SKCM	chr17	56901467	Missense_Mutation	rs772478621	E347K	0.23
SKCM	chr17	56891823	Silent	novel	F590F	0.29
SKCM	chr17	56904302	Missense_Mutation	NA	E294K	0.31
SKCM	chr17	56891950	Missense_Mutation	novel	S548F	0.09
SKCM	chr17	56891802	Silent	NA	V597V	0.28
SKCM	chr17	56891756	Missense_Mutation	NA	P613S	0.21
STAD	chr17	56895526	Missense_Mutation	NA	L420S	0.22
STAD	chr17	56892063	Frame_Shift_Del	novel	*I511Sfs16**	0.16
STAD	chr17	56913551	Silent	novel	Q146Q	0.13
STAD	chr17	56904416	Nonsense_Mutation	NA	E256*	0.22
STAD	chr17	56892126	Silent	NA	R489R	0.08
STAD	chr17	56891745	Nonsense_Mutation	NA	W616*	0.24
STAD	chr17	56904399	Silent	rs766353810	R261R	0.17
STAD	chr17	56891671	3'UTR	novel		0.34
STAD	chr17	56899135	Missense_Mutation	rs200203148	R378H	0.19
UCEC	chr17	56895942	Missense_Mutation	NA	K388N	0.34
UCEC	chr17	56904325	Missense_Mutation	NA	S286N	0.27
UCEC	chr17	56892198	Silent	rs770136591	T465T	0.18
UCEC	chr17	56895372	Missense_Mutation	rs766569547	L445P	0.44
UCEC	chr17	56892197	Missense_Mutation	rs141649169	A466T	0.11
UCEC	chr17	56890864	3'UTR	novel		0.15
UCEC	chr17	56895413	Silent	rs756570736	P431P	0.08
UCEC	chr17	56891013	3'UTR	novel		0.67
UCEC	chr17	56892133	Missense_Mutation	novel	N487T	0.28
UCEC	chr17	56891963	Missense_Mutation	rs762576334	R544C	0.32
UCEC	chr17	56891383	3'UTR	novel		0.6
UCEC	chr17	56895413	Silent	rs756570736	P431P	0.2
UCEC	chr17	56892197	Missense_Mutation	novel	A466S	0.44
UCEC	chr17	56895520	Splice_Site	rs752704891	X422_splice	0.27
UCEC	chr17	56908514	Missense_Mutation	rs769575690	A216V	0.34
UCEC	chr17	56891279	3'UTR	novel		0.43
UCEC	chr17	56904355	Missense_Mutation	novel	T276I	0.05
UCEC	chr17	56908506	Missense_Mutation	NA	A219S	0.37
UCEC	chr17	56904341	Missense_Mutation	NA	L281I	0.26
UCEC	chr17	56913910	Missense_Mutation	novel	P27T	0.27
UCEC	chr17	56895411	Missense_Mutation	novel	N432S	0.35
UCEC	chr17	56901479	Missense_Mutation	novel	D343Y	0.18
UCEC	chr17	56908552	Silent	NA	R203R	0.24
UCEC	chr17	56891869	Missense_Mutation	rs764739358	T575M	0.45
UCEC	chr17	56901531	Silent	rs755954951	P325P	0.31
UCEC	chr17	56908519	Silent	rs749229572	N214N	0.39
UCEC	chr17	56891941	Missense_Mutation	novel	V551A	0.38
UCS	chr17	56901508	Missense_Mutation	novel	L333P	0.29

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
DLBC	DEL	0.0417	0.18166
KIRP	AMP	0.6632	0.14801
READ	AMP	0.1697	0.15915
THCA	DEL	0.002	0.221
UVM	AMP	0.1625	0.054583

Survival Analysis

Cancer	P-value	Q-value
STAD	0.00047	Kaplan-Meier Survival Analysis
HNSC	0.042	Kaplan-Meier Survival Analysis
SKCM	0.035	Kaplan-Meier Survival Analysis
BRCA	0.012	Kaplan-Meier Survival Analysis
COAD	0.036	Kaplan-Meier Survival Analysis
PAAD	0.0052	Kaplan-Meier Survival Analysis
BLCA	0.037	Kaplan-Meier Survival Analysis
CESC	0.0064	Kaplan-Meier Survival Analysis
READ	0.0061	Kaplan-Meier Survival Analysis
LAML	0.038	Kaplan-Meier Survival Analysis
KICH	0.0062	Kaplan-Meier Survival Analysis
LIHC	0.004	Kaplan-Meier Survival Analysis
DLBC	0.033	Kaplan-Meier Survival Analysis
LGG	0.0018	Kaplan-Meier Survival Analysis

Drugs

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000121060 (Gene tree)
Gene ID: 7706
Gene Symbol: TRIM25
Alias: EFP|RNF147|ZNF147
Full Name: tripartite motif containing 25
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Minus strand
Length: 77,694 bases
Position: chr17:56,836,387-56,914,080
Accession: 12932
RBP type: non-canonical RBP
Summary: The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. The protein localizes to the cytoplasm. The presence of potential DNA-binding and dimerization-transactivation domains suggests that this protein may act as a transcription factor, similar to several other members of the TRIM family. Expression of the gene is upregulated in response to estrogen, and it is thought to mediate estrogen actions in breast cancer as a primary response gene. [provided by RefSeq, Jul 2008]

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	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
27453046	Comprehensive Identification of RNA-Binding Domains in Human Cells	RIC & Hela	2016 Aug 18	Castello A	DOI: 10.1016/j.molcel.2016.06.029
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
29117863	RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination.	BMC Biol	2017 Nov 8	Choudhury NR	doi: 10.1186/s12915-017-0444-9.
30342007	TRIM25 Binds RNA to Modulate Cellular Anti-viral Defense.	J Mol Biol	2018 Dec 7	Sanchez JG	doi: 10.1016/j.jmb.2018.10.003
31289203	Hypoxia-induced long non-coding RNA DARS-AS1 regulates RBM39 stability to promote myeloma malignancy.	Haematologica	2019 Jul 9	Tong J	doi: 10.3324/haematol.2019.218289
23950712	A distinct role of Riplet-mediated K63-Linked polyubiquitination of the RIG-I repressor domain in human antiviral innate immune responses.	PLoS Pathog	2013	Oshiumi H	doi: 10.1371/journal.ppat.1003533
27122586	Robust Lys63-Linked Ubiquitination of RIG-I Promotes Cytokine Eruption in Early Influenza B Virus Infection.	J Virol	2016 Jun 24	Jiang J	doi: 10.1128/JVI.00549-16
29107643	Nuclear TRIM25 Specifically Targets Influenza Virus Ribonucleoproteins to Block the Onset of RNA Chain Elongation.	Cell Host Microbe	2017 Nov 8	Meyerson NR	doi: 10.1016/j.chom.2017.10.003
30797711	Blockade of miR-3614 maturation by IGF2BP3 increases TRIM25 expression and promotes breast cancer cell proliferation.	EBioMedicine	2019 Mar	Wang Z	doi: 10.1016/j.ebiom.2018.12.061
26687707	Phosphorylation of influenza A virus NS1 protein at threonine 49 suppresses its interferon antagonistic activity.	Cell Microbiol	2016 Jun	Kathum OA	doi: 10.1111/cmi.12559

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000572550	TRIM25-206	519	-	-	- (aa)	-	-
ENST00000570473	TRIM25-203	498	-	-	- (aa)	-	-
ENST00000572021	TRIM25-205	1555	-	ENSP00000459980	43 (aa)	-	I3L2W4
ENST00000537230	TRIM25-202	2906	-	ENSP00000445961	630 (aa)	-	Q14258
ENST00000316881	TRIM25-201	5734	-	ENSP00000323889	630 (aa)	-	Q14258
ENST00000570749	TRIM25-204	614	-	-	- (aa)	-	-
ENST00000574997	TRIM25-209	440	-	-	- (aa)	-	-
ENST00000573108	TRIM25-207	952	-	-	- (aa)	-	-
ENST00000574234	TRIM25-208	471	-	-	- (aa)	-	-
ENST00000648772	TRIM25-210	4248	-	ENSP00000498158	456 (aa)	-	-

Gene Model

Click here to download ENSG00000121060's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa04064	NF-kappa B signaling pathway	KEGG
hsa04622	RIG-I-like receptor signaling pathway	KEGG
hsa05164	Influenza A	KEGG

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000121060	rs28488643	17	56880732	T	Myopia (age of diagnosis)	29808027	[1.08-1.6] unit decrease	1.3391	EFO_0004847\|HP_0000545

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000121060'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
ENSG00000121060	TRIM25	99	73.386	ENSMUSG00000000275	Trim25	99	73.071	Mus_musculus

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0003723	RNA binding	22658674.	HDA	Function
GO:0005515	protein binding	19454348.20818395.22452784.24478431.	IPI	Function
GO:0005654	nucleoplasm	-	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005829	cytosol	-	IDA	Component
GO:0005829	cytosol	-	TAS	Component
GO:0006511	ubiquitin-dependent protein catabolic process	22452784.24810856.	IMP	Process
GO:0006513	protein monoubiquitination	24810856.	IMP	Process
GO:0008270	zinc ion binding	-	IEA	Function
GO:0016032	viral process	-	IEA	Process
GO:0016604	nuclear body	-	IDA	Component
GO:0016874	ligase activity	-	IEA	Function
GO:0019985	translesion synthesis	-	TAS	Process
GO:0030433	ubiquitin-dependent ERAD pathway	24810856.	IMP	Process
GO:0032480	negative regulation of type I interferon production	-	TAS	Process
GO:0033280	response to vitamin D	-	IEA	Process
GO:0043123	positive regulation of I-kappaB kinase/NF-kappaB signaling	23077300.	IDA	Process
GO:0043627	response to estrogen	22452784.	IDA	Process
GO:0045087	innate immune response	18248090.	IDA	Process
GO:0045087	innate immune response	-	TAS	Process
GO:0045296	cadherin binding	25468996.	HDA	Function
GO:0046596	regulation of viral entry into host cell	18248090.	IDA	Process
GO:0046597	negative regulation of viral entry into host cell	-	IEA	Process
GO:0051091	positive regulation of DNA-binding transcription factor activity	23077300.	IMP	Process
GO:0051092	positive regulation of NF-kappaB transcription factor activity	23077300.	IMP	Process
GO:0051607	defense response to virus	-	IEA	Process
GO:0060333	interferon-gamma-mediated signaling pathway	-	TAS	Process
GO:0061630	ubiquitin protein ligase activity	24810856.	IMP	Function
GO:1902186	regulation of viral release from host cell	18248090.	IMP	Process
GO:1902187	negative regulation of viral release from host cell	-	IEA	Process
GO:1990830	cellular response to leukemia inhibitory factor	-	IEA	Process

EuRBPDB

Note: to get the extension of tumor abbreviations.

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

Pathways

GWAS

PPI

Orthologs

Gene Ontology

Note: Click here to get the extension of tumor abbreviations.

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742

Note: to get the extension of tumor abbreviations.