CLN3

General Information

Gene Name : CLN3
Gene ID : ENSG00000188603.19
Essential Gene : No

Functions

Not Available

Localization

Not Available

Domains (AlphaFold: CLN3)

Not Available

Antibody Validation

Not Avaiable

Expression Level in Cell lines

Cell Line	Gene Name	Ensembl ID	Rep1 TPM	Rep2 TPM	Average TPM	Experiment ID
Gm12878	CLN3	ENSG00000188603.19	5.09	10.25	7.67	ENCSR000AEF
HepG2	CLN3	ENSG00000188603.19	36.12	17.66	26.89	ENCSR985KAT
K562	CLN3	ENSG00000188603.19	22.05	14.05	18.05	ENCSR000AEO

Assays

0 Released experiments are available on ENCORE database.

eCLIP

No eCLIP experiment available

Antibody Validation

No Antibody Primary Validation image or Secondary image available

KD RNA-Seq

No KD RNA-Seq experiment available

RNA Bind-n-Seqn

No RBNS experiment available

Localization Image in HepG2

No Localization Information available

RBP	Antibody Info	Primary-HepG2	Secondary-HepG2	Primary-K562	Secondary-K562	Primary-UBERON	Primary-Hela

Summary
Proteins Bound to RBP RNA

RNA Targets

eCLIP assay for CLN3 is not avaliable on ENCORE database.

Proteins bound to RNA

CLN3 RNA is bound by 7 proteins.

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eCLIP assay for CLN3 is not avaliable on ENCORE database.

7 proteins are bound to CLN3 RNA:

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Search:

Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name
chr16	28497732	28497808	-	CDS,intron-Distal,intron-Proximal	4.07135	10.12959	HepG2	SND1
chr16	28497746	28497870	-	CDS,intron-Distal,intron-Proximal	4.59038	8.11292	HepG2	EFTUD2
chr16	28498773	28498824	-	CDS,intron-Distal,intron-Proximal	3.79341	7.83545	HepG2	PPIG
chr16	28495326	28495365	-	3'-UTR,CDS,intron-Distal,intron-Proximal	3.56747	6.41974	HepG2	PPIG
chr16	28497946	28497971	-	CDS,intron-Distal	3.98523	6.39364	HepG2	PPIG
chr16	28489059	28489125	-	3'-UTR,CDS,intron-Distal	4.62270	4.94988	HepG2	SND1
chr16	28499869	28499922	-	CDS,intron-Distal,intron-Proximal	4.67206	4.86944	K562	AQR
chr16	28493950	28493994	-	3'-UTR,CDS,intron-Distal,intron-Proximal	3.37364	4.39623	HepG2	PPIG
chr16	28493556	28493674	-	3'-UTR,CDS,intron-Distal,intron-Proximal	4.16668	4.23351	K562	BUD13
chr16	28497665	28497732	-	CDS,intron-Distal,intron-Proximal	3.54404	4.22326	HepG2	SND1
Chr	Start	End	Strand	Matched Area	log2(fold change)	-log(p-value)	Cell Line	Binding Protein Name

Showing 1 to 10 of 14 entries

eCLIP assay for CLN3 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout assay for CLN3 is not available on ENCORE database.
72 RBPs can affect the levels of CLN3.

CanvasJS.com

The Knockdown/knockout RNA-Seq assay for CLN3 is not available on ENCORE database.

72 RBPs can affect the gene expression of CLN3 :

Show entries

Search:

Gene Name	Gene ID	KDMean	CNMean	log2(fold change) *	-log(pval) **	-log(padj) **	Cell Line	Affected by RBP	Bound by RBP
CLN3	ENSG00000188603.12	874.02530	324.44230	1.42960	23.81370	22.33300	HepG2	BOP1
CLN3	ENSG00000188603.12	482.88630	954.20750	-0.98260	22.01330	20.72890	HepG2	SRSF9
CLN3	ENSG00000188603.12	1237.77180	589.65330	1.06970	21.54650	20.39600	HepG2	TIAL1
CLN3	ENSG00000188603.12	2065.00350	984.36380	1.06880	18.65550	16.85480	HepG2	CIRBP
CLN3	ENSG00000188603.12	589.42070	305.22850	0.94930	12.85000	11.64340	K562	FXR1
CLN3	ENSG00000188603.12	499.99610	832.28060	-0.73520	12.65010	11.55190	HepG2	ACO1
CLN3	ENSG00000188603.12	689.92260	1168.83210	-0.76060	12.22750	11.05180	HepG2	QKI
CLN3	ENSG00000188603.12	653.12500	322.19170	1.01930	10.87990	9.73220	HepG2	HNRNPLL
CLN3	ENSG00000188603.12	1259.22590	847.73910	0.57070	10.70490	9.63000	HepG2	PUS1
CLN3	ENSG00000188603.12	647.04760	1054.29520	-0.70430	10.46970	9.49070	HepG2	TAF15
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 84 entries

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

The Knockdown/knockout RNA-Seq assay for CLN3 is not available on ENCORE database.

34 RBPs can affect the splicing of CLN3 :

Show entries

Search:

Event Type	Gene Name	Gene ID	chr	Strand	ExonStart	ExonEnd	2ndExonStart	2ndExonEnd	upstreamES	upstreamEE	downstreamES	downstreamEE	dPSI	FDR	is_included	Cell Line	Affected by RBP
SE	CLN3	ENSG00000188603.12	chr16	-	28502802	28502881			28500610	28500707	28503034	28503156	-0.27500	0.00000	excluded	HepG2	SRSF1
A3SS	CLN3	ENSG00000188603.12	chr16	-	28498976	28499174			28498976	28499062	28499911	28500121	0.08200	0.00003	longer	K562	AQR
A3SS	CLN3	ENSG00000188603.12	chr16	-	28497898	28498074			28497898	28497971	28498776	28498862	0.07500	0.00000	longer	K562	AQR
A3SS	CLN3	ENSG00000188603.12	chr16	-	28499911	28500121			28499911	28499983	28500610	28500707	0.10300	0.00000	longer	K562	AQR
A5SS	CLN3	ENSG00000188603.12	chr16	-	28502802	28503156			28503034	28503156	28500610	28500707	-0.41400	0.00000	shorter	HepG2	SRSF1
RI	CLN3	ENSG00000188603.12	chr16	-	28493425	28493703			28493425	28493519	28493647	28493703	0.15700	0.00008	included	K562	PRPF8
RI	CLN3	ENSG00000188603.12	chr16	-	28493647	28493993			28493647	28493866	28493946	28493993	0.19900	0.00000	included	K562	AQR
RI	CLN3	ENSG00000188603.12	chr16	-	28502802	28503156			28502802	28502881	28503034	28503156	0.25800	0.00000	included	K562	AQR
MXE	CLN3	ENSG00000261832.1	chr16	-	28499911	28499983	28500610	28500707	28498982	28499062	28503034	28503333	0.13800	0.00000	1included	HepG2	SRSF1
MXE	CLN3	ENSG00000188603.12	chr16	-	28500610	28500707	28502802	28502881	28498776	28498862	28503034	28503156	-0.33300	0.00000	2included	HepG2	SRSF1

Showing 1 to 10 of 83 entries

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

CLN3

General Information

Functions

Localization

Domains (AlphaFold: CLN3)

Antibody Validation

Expression Level in Cell lines

Assays

RNA Targets

Proteins bound to RNA

eCLIP assay for CLN3 is not avaliable on ENCORE database.

7 proteins are bound to CLN3 RNA:

eCLIP assay for CLN3 is not avaliable on ENCORE database.

Diffrential Expression

The Knockdown/knockout RNA-Seq assay for CLN3 is not available on ENCORE database.

72 RBPs can affect the gene expression of CLN3 :

The Knockdown/knockout RNA-Seq assay for CLN3 is not available on ENCORE database.

34 RBPs can affect the splicing of CLN3 :

The Knockdown/knockout RNA-Seq assay for CLN3 is not avaliable on ENCORE database.