TROVE2

General Information

Gene Name : TROVE2
Gene ID : ENSG00000116747.12
Essential Gene : No

Functions

rRNA processing
Other

Localization(RBPImage: TROVE2)

Nuclei
Nucleoplasm
Cytoplasm
Cytosolic
Nuclear release mitosis

Domains (AlphaFold: TROVE2)

No checked domain (RRM, ZNF, KH, Helicase, Nuclease, dRBM or PUM_HD)

Antibody Validation

Bethyl Labs: A303-692A

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	TROVE2	ENSG00000116747.12	16.65	14.76	15.70	ENCSR000AEF
HepG2	TROVE2	ENSG00000116747.12	7.74	8.96	8.35	ENCSR985KAT
K562	TROVE2	ENSG00000116747.12	20.57	16.72	18.64	ENCSR000AEO

Assays

5 Released experiments are available on ENCORE database.

Assay Type	Exp_Name	ENCODE ID	Target label	Biosample	Status	Linked Antibody	Controls	Method	Note
eCLIP	eCLIP: 447	ENCSR539ZTS	TROVE2	K562	Released	ENCAB703EAU	ENCSR687GJH
eCLIP	eCLIP: 503	ENCSR993FMY	TROVE2	HepG2	Released	ENCAB703EAU	ENCSR619LRH
knockdown followed by RNA-seq	TROVE2-BGKLV19-K562	ENCSR060KRD	TROVE2	K562	Released		ENCSR092WKG	shRNA	KD% = 82.7,87.4
knockdown followed by RNA-seq	TROVE2-BGHLV16-HepG2	ENCSR946OFN	TROVE2	HepG2	Released		ENCSR689PHN	shRNA	KD% = 57.7,50.8
RNA Bind-n-Seq	RBNS: TROVE2	ENCSR653ZTY	TROVE2	cell-free sample	Released		ENCSR989YKV

eCLIP

RBP	Exp_UID	Cell_Line	ENCODE_ACCESSION	Control_ENCODE_ACCESSION	ENCODE_Antibody_ID	Antibody	Lot_num	Status	Project
TROVE2	447	K562	ENCSR539ZTS	ENCSR687GJH	ENCAB703EAU	A303-692A	1	Released	ENCODE3
TROVE2	503	HepG2	ENCSR993FMY	ENCSR619LRH	ENCAB703EAU	A303-692A	1	Released	ENCODE3

Antibody Validation

GeneName	Antibody_DCC_ID	Product_ID	Lot_ID	Phosphate	HepG2 Primary Validation	K562 Primary Validation	HepG2 Secondary Validation	K562 Secondary Validation
TROVE2	ENCAB703EAU	A303-692A	1		Released, ENCODE3	Released, ENCODE3	BGHLV16-61, Released, ENCODE3	BGKLV19-57, Released, ENCODE3

KD RNA-Seq

GeneName	Cell_Line	Method	Exp_ID	Control_ID	Sample_reps	Control_reps	KD%	Status	Project	Note
TROVE2	K562	shRNA	ENCSR060KRD	ENCSR092WKG	TROVE2_BGKLV19-57B_rpt,TROVE2_BGKLV19-58B_rpt	NT_BGKLV19-1B_repeat,NT_BGKLV19-2B_repeat	82.7,87.4	Released	ENCODE3
TROVE2	HepG2	shRNA	ENCSR946OFN	ENCSR689PHN	TROVE2_BGHLV16_61,TROVE2_BGHLV16_62	NT_BGHLV16_1,NT_BGHLV16_2	57.7,50.8	Released	ENCODE3

RNA Bind-n-Seqn

GeneName	gene_aliases	Status	Project	Note
TROVE2	TROVE2		Released	ENCODE4

Localization Image in HepG2

TROVE2: Click to RBP Image Database

Nuclei

Nucleoplasm

Cytoplasm

Cytosolic

Nuclear release mitosis

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela
TROVE2	Product_ID: A303-692A Lot_ID: 1 Source: Bethyl Labs Target Name: TROVE2-human

RNA Targets

TROVE2 protein binds to 412 RNA regions.

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The binding motifs of TROVE2

Proteins bound to RNA

TROVE2 RNA is bound by 18 proteins.

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TROVE2 protein has 412 RNA targets:

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RBP	Chr	Start	End	Strand	log2(fold change)	-log(p-value)	Cell Line	Matched Gene	Matched Area
TROVE2	chr12	42848574	42848628	+	7.63135	400.00000	K562	PPHLN1	intron-Distal
TROVE2	chr11	75111806	75111830	+	4.92133	400.00000	K562	RPS3	5'-UTR,CDS,intron-Distal,intron-Proximal
TROVE2	chr7	6214857	6214874	-	7.94659	400.00000	K562	CYTH3	intron-Distal
TROVE2	chr6	74227957	74227968	-	5.81754	400.00000	HepG2	EEF1A1	CDS,intron-Distal
TROVE2	chr13	49669586	49669634	+	6.00617	400.00000	K562	FNDC3A	intron-Distal
TROVE2	chr6	74227957	74227964	-	4.53140	400.00000	K562	EEF1A1	CDS,intron-Distal
TROVE2	chr9	19378896	19378903	-	4.88894	400.00000	K562	RPS6	3'-UTR,CDS,intron-Distal
TROVE2	chr6	74227968	74227984	-	6.21723	400.00000	HepG2	EEF1A1	CDS,intron-Distal,intron-Proximal
TROVE2	chr11	64063567	64063584	+	7.01662	400.00000	K562	RP11-783K16.10, KCNK4	intron-Distal
TROVE2	chr6	74228079	74228083	-	6.25021	400.00000	HepG2	EEF1A1	CDS,intron-Distal,intron-Proximal

Showing 1 to 10 of 100 entries

18 proteins are bound to TROVE2 RNA:

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Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr1	193055267	193055325	+	3'-UTR,intron-Distal	3.91503	31.62764	K562	PUM2
chr1	193056221	193056280	+	3'-UTR,intron-Distal	3.53279	30.35209	K562	PUM2
chr1	193055325	193055371	+	3'-UTR,intron-Distal	3.66963	26.76815	K562	PUM2
chr1	193057318	193057333	+	3'-UTR,intron-Distal	5.02227	24.75809	K562	FAM120A
chr1	193060608	193060761	+	intron-Distal,intron-Proximal	4.35329	24.42677	K562	QKI
chr1	193057333	193057368	+	3'-UTR,intron-Distal	3.64704	24.18716	K562	FAM120A
chr1	193054096	193054191	+	3'-UTR,CDS,intron-Distal,intron-Proximal	4.46087	23.93287	K562	PUM2
chr1	193028831	193028882	+	5'-UTR	4.33333	21.99127	K562	DDX3X
chr1	193055371	193055417	+	3'-UTR,intron-Distal	4.25408	17.34284	K562	PUM2
chr1	193056496	193056551	+	3'-UTR,intron-Distal	3.86287	15.89839	K562	PUM2
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 54 entries

No autoregularoty interactions between protein TROVE2 and its RNA.

Diffrential Expression

2,115 differentially expressed genes after Knockdown/Knockout TROVE2 protein.

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94 RBPs can affect the levels of TROVE2.

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2,115 differentially expressed genes after Knockdown/Knockout TROVE2 protein :

Only display 100 entries as example. Please click "View All" button to see all 2,115 entries.

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Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
TNS1	ENSG00000079308.12	650.32650	2814.94170	-2.11390	52.49890	48.15890	HepG2	TROVE2
NDRG1	ENSG00000104419.10	2536.60520	6662.51660	-1.39320	27.51770	23.87660	HepG2	TROVE2
KIAA1199	ENSG00000103888.11	340.46350	961.18000	-1.49730	21.88920	18.48700	HepG2	TROVE2
HAL	ENSG00000084110.6	188.87020	582.35970	-1.62450	20.51710	17.25620	HepG2	TROVE2
ASNS	ENSG00000070669.12	713.32620	207.86970	1.77880	20.04950	16.82350	HepG2	TROVE2
MAGT1	ENSG00000102158.15	326.77810	812.72810	-1.31450	16.64090	13.60190	HepG2	TROVE2
RNF24	ENSG00000101236.12	275.69790	697.96190	-1.34010	16.07550	13.05770	HepG2	TROVE2
MTHFD2	ENSG00000065911.7	2065.57540	1056.91570	0.96660	12.23440	9.35670	HepG2	TROVE2
TUBB1	ENSG00000101162.3	538.46440	1240.80160	-1.20430	11.53270	8.72420	HepG2	TROVE2
SLC2A3	ENSG00000059804.11	5832.89700	10094.59220	-0.79130	9.88450	7.24340	HepG2	TROVE2
Gene Name	Gene ID	KDMean	CNMean	log2(fold change)	-log(pval)	-log(padj)	Cell Line	Affected by RBP	Bound by RBP

Showing 1 to 10 of 100 entries

*: "Inf" was shown as "99999.99999" and "-Inf" was shown as "-99999.99999".
**: "-log(0)" was displayed as "99999.99999".

94 RBPs can affect the gene expression of TROVE2 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
TROVE2	ENSG00000116747.8	864.06110	2153.73360	-1.31760	56.25840	52.16360	K562	TROVE2
TROVE2	ENSG00000116747.8	282.29530	700.93930	-1.31210	23.63910	22.44590	HepG2	TIAL1
TROVE2	ENSG00000116747.8	1917.56840	1151.68460	0.73540	20.33780	19.30610	HepG2	SRFBP1
TROVE2	ENSG00000116747.8	341.30040	714.03710	-1.06500	19.38370	17.52880	HepG2	PARN
TROVE2	ENSG00000116747.8	390.74840	721.37970	-0.88450	15.02140	13.70040	HepG2	HNRNPU
TROVE2	ENSG00000116747.8	1684.22390	1019.68680	0.72390	14.61640	13.61540	HepG2	RBM22
TROVE2	ENSG00000116747.8	439.02560	736.86480	-0.74710	13.03290	11.57220	HepG2	ILF2
TROVE2	ENSG00000116747.8	1365.40470	2354.21950	-0.78590	13.06690	11.08420	K562	FIP1L1
TROVE2	ENSG00000116747.8	1588.93730	2672.41770	-0.75010	11.83560	9.78510	K562	PPIG
TROVE2	ENSG00000116747.8	1965.60050	3191.90660	-0.69940	11.23580	9.65870	K562	HSPD1
Gene Name	Gene ID	KDMean	CNMean	log2(fold change)	-log(pval)	-log(padj)	Cell Line	Affected by RBP	Bound by RBP

Showing 1 to 10 of 104 entries

*: "Inf" was shown as "99999.99999" and "-Inf" was shown as "-99999.99999".
**: "-log(0)" was displayed as "99999.99999".

159 alternative splicing events after Knockdown/Knockout TROVE2 protein :

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Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	FDR	is_included	Cell Line	Affected by RBP
SE	HIRA	ENSG00000100084.10	chr22	-	19386602	19386715	19385514	19385610	19393308	19393403	0.13700	0.00420	included	K562	TROVE2
SE	U2SURP	ENSG00000163714.13	chr3	+	142742816	142742860	142741694	142741906	142745990	142746095	0.08100	0.00801	included	K562	TROVE2
SE	UBP1	ENSG00000153560.7	chr3	-	33450181	33450289	33444292	33444396	33450727	33450838	0.16400	0.00390	included	K562	TROVE2
SE	SGMS1	ENSG00000198964.9	chr10	-	52100146	52100224	52086990	52087082	52103251	52104006	0.09800	0.00505	included	K562	TROVE2
SE	ZNF207	ENSG00000010244.12	chr17	+	30693683	30693776	30692348	30692506	30694790	30695033	0.14400	0.00097	included	K562	TROVE2
SE	CREBZF	ENSG00000137504.9	chr11	-	85374222	85374337	85372996	85373501	85374567	85374645	0.12100	0.00137	included	K562	TROVE2
SE	OTUD6B	ENSG00000155100.6	chr8	+	92088819	92088959	92086058	92086139	92090583	92090896	0.08800	0.00502	included	K562	TROVE2
SE	XPO1	ENSG00000082898.12	chr2	-	61752404	61752468	61749745	61749818	61752626	61753656	0.73500	0.00035	included	K562	TROVE2
SE	ZMYND8	ENSG00000101040.15	chr20	-	45841286	45841370	45839405	45839542	45848908	45848975	0.14700	0.00701	included	K562	TROVE2
SE	RPL17	ENSG00000265681.2	chr18	-	47018189	47018203	47017901	47017954	47018644	47018769	0.06700	0.00281	included	K562	TROVE2

Showing 1 to 10 of 100 entries

15 RBPs can affect the splicing of TROVE2 :

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Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	2ndExonStart	2ndExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	p-value	FDR	is_included	Cell Line	Affected by RBP
SE	TROVE2	ENSG00000116747.8	chr1	+	193029003	193029352			193028788	193028906	193038163	193038309	0.42600	0.00000	0.00650	included	K562	TAF15
SE	TROVE2	ENSG00000116747.8	chr1	+	193029003	193029352			193028788	193028906	193038163	193038764	0.27800	0.00000	0.00002	included	K562	AKAP8L
SE	TROVE2	ENSG00000116747.8	chr1	+	193029003	193029352			193028788	193028906	193038163	193038764	0.41500	0.00000	0.00000	included	K562	PUS1
SE	TROVE2	ENSG00000116747.8	chr1	+	193029003	193029352			193028788	193028906	193038163	193038764	0.35800	0.00000	0.00000	included	K562	AGGF1
SE	TROVE2	ENSG00000116747.8	chr1	+	193038163	193038764			193028551	193028906	193044949	193045170	-0.34600	0.00000	0.00088	excluded	K562	SAFB
SE	TROVE2	ENSG00000116747.8	chr1	+	193029003	193029352			193028788	193028906	193038163	193038764	0.23300	0.00004	0.00200	included	K562	RBM15
SE	TROVE2	ENSG00000116747.8	chr1	+	193038163	193038764			193028551	193028906	193044949	193045170	-0.21700	0.00007	0.09744	excluded	K562	EWSR1
MXE	TROVE2	ENSG00000116747.8	chr1	+	193038163	193038764	193044949	193045170	193029163	193029352	193045630	193045777	0.15600	0.00025	0.00675	1included	K562	U2AF1
SE	TROVE2	ENSG00000116747.8	chr1	+	193029003	193029352			193028788	193028906	193038163	193038764	0.22300	0.00062	0.09876	included	K562	SBDS
SE	TROVE2	ENSG00000116747.8	chr1	+	193029003	193029352			193028788	193028906	193044949	193045170	0.42800	0.00175	0.05640	included	K562	PRPF8

Showing 1 to 10 of 17 entries

*: "Inf" was shown as "99999.99999" and "-Inf" was shown as "-99999.99999".
**: "-log(0)" was displayed as "99999.99999".

TROVE2

General Information

Functions

Localization(RBPImage: TROVE2)

Domains (AlphaFold: TROVE2)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

TROVE2 protein has 412 RNA targets:

18 proteins are bound to TROVE2 RNA:

No autoregularoty interactions between protein TROVE2 and its RNA.

Diffrential Expression

2,115 differentially expressed genes after Knockdown/Knockout TROVE2 protein :

94 RBPs can affect the gene expression of TROVE2 :

159 alternative splicing events after Knockdown/Knockout TROVE2 protein :

15 RBPs can affect the splicing of TROVE2 :

No autoregularoty alternative splicing events between protein TROVE2 and its RNA.