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	Gene Summary
	Translation studies in PubMed
	Exon Skipping Events
	Expression
	Expression Regulation
	Associated Genes
	Protein 3D Structure
	Protein-Protein Interaction
	Mutations
	Prognostic Analysis
	Gender Association
	Age Association
	Related Drugs
	Related Diseases

Translation Factor: RPL3L (NCBI Gene ID:6123)

Gene Summary

Gene Summary

Gene Information	Gene Name: RPL3L
	Gene ID: 6123
	Gene Symbol	RPL3L
	Gene ID	6123
	Gene Name	ribosomal protein L3 like
	Synonyms	-
	Cytomap	16p13.3
	Type of Gene	protein-coding
	Description	60S ribosomal protein L3-likelarge ribosomal subunit protein uL3-like
	Modification date	20200313
	UniProtAcc	Q92901

Child GO biological process term(s) under GO:0006412

GO ID	GO term
GO:0005840	Ribosome
GO:0006412	Translation

Gene ontology of translaction factor with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner

Gene

GO ID

GO term

PubMed ID

Inferred gene age of translation factor.

Gene

Inferred gene age group among (0 - 67.6], (67.6 - 355.7], (355.7 - 733], (733 - 1119.25], >1119.25

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Translation Studies in PubMed

We searched PubMed using 'RPL3L[title] AND translation [title] AND human.'

Gene	Title	PMID
RPL3L	.	.

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Exon Skipping Events

Skipped exons in TCGA and GTEx based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
For more annotations, please visit our ExonSkipDB.

Open reading frame (ORF) analsis of exon skipping events based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.

ENST	Exon skip start (DNA)	Exon Skip end (DNA)	ORF
ENST00000268661	2000844	2000980	Frame-shift

Exon skipping position in the amino acid sequence.

ENST

Exon skip start (DNA)

Exon Skip end (DNA)

Len(transcript seq)

Exon skip start (mRNA)

Exon Skip end (mRNA)

Len(amino acid seq)

Exon skip start (AA)

Exon Skip end (AA)

Potentially (partially) lost protein functional features of UniProt.

UniProtAcc

Exon skip start (AA)

Exon Skip end (AA)

Function feature start (AA)

Function feature end (AA)

Functional feature type

Functional feature desc.

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Expression

Gene expression level across TCGA pancancer

Gene expression level across GTEx pantissue

Expression level of gene isoforms across TCGA pancancer

Expression level of gene isoforms across GTEx pantissue

Cancer(tissue) type-specific expression level of Translation factor using z-score distriution

Differential expression between tumor and matched normal (in the cancer types with more than 10 matched samples)

Cancer type	Translation factor	FC	adj.pval
BRCA	RPL3L	1.95308365529425	0.000744223203019604

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Expression Regulation

Translation factor expression regulation through miRNA binding

Cancer type

Gene

miRNA

TargetScan binding score (Context++ score percentile)

Coefficient

Pvalue

Translation factor expression regulation through methylation in the promoter of Translation factor

Cancer type

Gene

methyl group b

methyl group a

DEG pval

avg methyl in b

avg methyl in a

avg exp in b

avg exp in a

Translation factor expression regulation through methylation in the gene body of Translation factor (positive regulation)

Cancer type

Gene

methyl group b

methyl group a

DEG pval

avg methyl in b

avg methyl in a

avg exp in b

avg exp in a

Translation factor expression regulation through copy number variation of Translation factor

Cancer type	Gene	Coefficient	Pvalue
LAML	RPL3L	-0.008828878	0.016217362
READ	RPL3L	0.108992417	0.04317017

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Associated Genes

Strongly correlated genes belong to cellular important gene groups with RPL3L (coefficient>0.8, pval<0.05, node color based on FC between tumor and matched normal). Significantly associated important genes in the individual cancer types. * Cell metabolism gene: cell metabolism genes from REACTOME (black edge), IUPHAR: drug target genes from IUPHAR (blue edge), Kinase: human kinase genes (brown edge), CGC: cancer gene census genes (orange edge), TSG: tumor suppresor genes (purple edge), Epifactor: epigenetic factors (light blue edge), TF: transcription factors (green)

Cancer type	Gene group	Translation factor	Correlated gene	Coefficient	Pvalue
MESO	Cell metabolism gene	RPL3L	FBP2	0.842449166	1.51E-24
MESO	Cell metabolism gene	RPL3L	CKM	0.842580037	1.46E-24
MESO	Epifactor	RPL3L	SMYD1	0.874534194	1.90E-28
MESO	IUPHAR	RPL3L	CACNA1S	0.856212617	4.18E-26
PRAD	CGC	RPL3L	MYOD1	0.898507943	4.23E-198
PRAD	Epifactor	RPL3L	APOBEC2	0.815531433	2.82E-132
PRAD	Epifactor	RPL3L	PRKAG3	0.837192351	9.69E-146
PRAD	Epifactor	RPL3L	SMYD1	0.910084286	8.56E-212
PRAD	IUPHAR	RPL3L	PRKAG3	0.837192351	9.69E-146
PRAD	IUPHAR	RPL3L	CHRND	0.882239776	2.00E-181
PRAD	TF	RPL3L	MYF5	0.839776601	1.77E-147
PRAD	TF	RPL3L	MYOD1	0.898507943	4.23E-198
PRAD	TF	RPL3L	MYOG	0.901297781	3.04E-201
PRAD	TF	RPL3L	MYF6	0.913268549	6.90E-216
THCA	Epifactor	RPL3L	SMYD1	0.948161466	5.83E-286
THCA	IUPHAR	RPL3L	CACNA1S	0.844722946	7.12E-157
THCA	TF	RPL3L	MYOG	0.803074768	2.87E-130

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Protein structure

Protein 3D structure
Visit iCn3D.

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Protein-Protein Interaction

Protein-protein interaction networks
* Overlap between up-regulated DEGs (log2FC<-1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))

Overlap between down-regulated DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))

* Edge colors based on TCGA cancer types.

* Overlap between DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network per cancer (center: Translation factor, node: DEGs, node color: log2FC, edges: weighted by -log2(adj.P))

Cancer type	Translation factor	Interacting protein coding gene	FC	adj.pval
HNSC	RPL3L	RPL6	2.22149016292113	0.000172794781747143
STAD	RPL3L	RPS23	1.85076760664576	0.000364991836249828
LUAD	RPL3L	RPL37A	-1.65819510661681	0.00176054927351573
KICH	RPL3L	RPL19	1.36901182894089	0.00250792503356934
PRAD	RPL3L	RPL14	1.1487848232634	0.00321821289681976
ESCA	RPL3L	RPL15	1.76629417535644	0.0048828125
LUAD	RPL3L	RPL19	-1.31398026615725	0.00993159558412698
LUAD	RPL3L	RPS26	-1.30179981165725	0.0163893452361939
LUSC	RPL3L	RPS23	1.46751169891047	0.0174932185880974
COAD	RPL3L	RPS9	1.18612014402235	0.0381683111190796
LUSC	RPL3L	RPL19	-2.14669889516666	0.044366810398747
UCEC	RPL3L	RPS23	-2.03658159814007	0.046875
KIRC	RPL3L	RPL19	-2.73485271276676	1.33980982873695e-10
LUAD	RPL3L	RPL30	-1.98579595284099	1.50488235365288e-05
THCA	RPL3L	RPS2	-2.9749691422722	1.8399565126656e-05
KIRC	RPL3L	RPS2	-3.31623058345719	2.17100738110179e-12
BRCA	RPL3L	RPS9	1.9331477546349	2.31299392089389e-07
KIRC	RPL3L	RPL37A	-1.68948520020686	2.40126365595523e-09
KIRP	RPL3L	RPL37A	-1.08756830326799	4.39747236669064e-05
KIRP	RPL3L	RPS2	-2.72788021566791	5.12227416038514e-08
COAD	RPL3L	RPL14	2.38206887570306	6.03199005126954e-05
BRCA	RPL3L	RPL14	-2.51759496082785	6.20044644295049e-06
LUAD	RPL3L	RPS2	-2.88992098496468	6.51132046672323e-08
KIRC	RPL3L	RPS9	-1.32680816440987	6.53264115309597e-07
KIRP	RPL3L	RPL6	-1.52645217188093	7.40401446819306e-05
KICH	RPL3L	RPS2	-4.73426315307469	8.34465026855468e-07
LUSC	RPL3L	RPL30	-2.27386662283158	9.09971457907932e-05
KIRC	RPL3L	RPL30	-1.65763742142219	9.40007073737459e-12

Protein-protein interactors with this translation factor (BIOGRID-3.4.160)

PPI interactors with RPL3L

G3BP2, APP, RPL6, RPL13, RPL14, RPL15, RPL18, RPL23A, RPL27A, RPL30, RPL37A, RPL39, PABPC4, RPL11, RPL18A, RPL19, RPL21, RPL23, RPL24, RPL27, RPL36, RPL4, RPL5, RPL7, RPL7A, RPL8, RPS16, RPS18, RPS2, RPS25, RPS6, RPL9, RPS20, RPS23, LOC101929876, RPS26, RPS8, RPS9, MTMR2, PTP4A1, PTPN2, vIRF-1, FBXO7, LARP7, C1orf106, PRKD2, PLEKHA4, CIT, ANLN, AURKB, CHMP4C, ECT2, KIF14, KIF20A, PRC1, RBM39, ZBTB47, ZXDB, TERT, ILF2, CCNF,

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Mutations

Clinically associated variants from ClinVar.

Gene	Chr	Position	RefSeq	VarSeq	RefSeeq	VarType	Pathogenic	Disease	VarInfo
RPL3L	chr16	1995586	CCACGG	C	Deletion	Uncertain_significance	Cardiomyopathy,_dilated,_2D	SO:0001589\|frameshift_variant	SO:0001589\|frameshift_variant
RPL3L	chr16	1995589	C	T	single_nucleotide_variant	Likely_benign	not_provided	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	1995856	G	A	single_nucleotide_variant	Pathogenic	Cardiomyopathy,_dilated,_2D	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	1996654	T	A	single_nucleotide_variant	Pathogenic	Cardiomyopathy,_dilated,_2D	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	1996655	C	T	single_nucleotide_variant	Pathogenic	Cardiomyopathy,_dilated,_2D	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	1997064	G	A	single_nucleotide_variant	Benign	not_provided	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	1997284	C	T	single_nucleotide_variant	Benign	not_provided	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	1997317	G	A	single_nucleotide_variant	Pathogenic	Cardiomyopathy,_dilated,_2D	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	2000865	G	A	single_nucleotide_variant	Pathogenic	Cardiomyopathy,_dilated,_2D	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	2002893	C	T	single_nucleotide_variant	Pathogenic	Cardiomyopathy,_dilated,_2D	SO:0001583\|missense_variant	SO:0001583\|missense_variant
RPL3L	chr16	2004073	C	T	single_nucleotide_variant	Likely_pathogenic	Cardiomyopathy,_dilated,_2D	SO:0001583\|missense_variant	SO:0001583\|missense_variant

nsSNVs with sample frequency (size of circle) from TCGA 33 cancers.

SNVs and Indels

Gene	Cancer type	Chromosome	Start	End	RefSeeq	MutSeq	Mutation type	AAchange	# samples
RPL3L	LUAD	chr16	2002992	2002992	G	T	Missense_Mutation	p.P83H	5
RPL3L	PAAD	chr16	1997042	1997042	C	T	Missense_Mutation	p.R249H	4
RPL3L	BLCA	chr16	1994846	1994846	C	A	Missense_Mutation	p.D406Y	4
RPL3L	PAAD	chr16	1995840	1995840	C	A	Missense_Mutation	p.R348I	3
RPL3L	UCEC	chr16	1996980	1996980	C	T	Missense_Mutation	p.G270R	3
RPL3L	BRCA	chr16	2002953	2002953	G	A	Missense_Mutation	p.P96L	3
RPL3L	ESCA	chr16	1994875	1994875	A	G	Missense_Mutation	p.L396P	3
RPL3L	KIRC	chr16	1994859	1994859	C	T	Silent	p.P401P	3
RPL3L	KIRP	chr16	1995884	1995884	C	T	Silent	p.L333L	3
RPL3L	KIRP	chr16	1995508	1995508	C	A	Missense_Mutation	p.A387S	3
RPL3L	UCS	chr16	1995899	1995899	G	A	Silent	p.N328N	3
RPL3L	HNSC	chr16	1996986	1996986	G	A	Missense_Mutation	p.R268W	2
RPL3L	STAD	chr16	1994856	1994856	C	A	Missense_Mutation	p.E402D	2
RPL3L	BLCA	chr16	1996698	1996698	C	T	Missense_Mutation	p.M293I	2
RPL3L	STAD	chr16	2004000	2004000	C	T	Silent	p.A51A	2
RPL3L	SKCM	chr16	2000917	2000917	T	A	Missense_Mutation	p.K143N	2
RPL3L	HNSC	chr16	1996719	1996719	G	C	Silent	p.R286R	2
RPL3L	UCEC	chr16	1995860	1995860	C	A	Missense_Mutation	p.K341N	2
RPL3L	LIHC	chr16	2004098	2004098	G	-	Frame_Shift_Del	p.H19fs	2
RPL3L	SARC	chr16	2003015	2003015	C	T	Silent		2
RPL3L	UCEC	chr16	1997325	1997325	G	A	Silent	p.N186	2
RPL3L	CESC	chr16	1996629	1996629	C	T	Silent		2
RPL3L	UCEC	chr16	1997346	1997346	G	A	Silent	p.H179	2
RPL3L	UCEC	chr16	2002931	2002931	C	A	Missense_Mutation	p.K103N	2
RPL3L	MESO	chr16	2000893	2000893	G	T	Silent		2
RPL3L	LUAD	chr16	1995919	1995919	G	T	Missense_Mutation	p.H322N	2
RPL3L	PAAD	chr16	1995840	1995840	C	A	Missense_Mutation		2
RPL3L	SKCM	chr16	1996725	1996725	G	A	Silent	p.I284I	2
RPL3L	BLCA	chr16	2004138	2004138	C	G	Missense_Mutation	p.K5N	2
RPL3L	SKCM	chr16	2004098	2004098	G	A	Missense_Mutation	p.H19Y	2
RPL3L	LUAD	chr16	1995903	1995903	T	A	Missense_Mutation	p.N327I	2
RPL3L	STAD	chr16	1995925	1995925	A	C	Missense_Mutation	p.F320V	2
RPL3L	SKCM	chr16	1996690	1996690	C	T	Missense_Mutation	p.G296E	2
RPL3L	UCEC	chr16	1994862	1994862	C	T	Silent	p.T400T	1
RPL3L	LIHC	chr16	1997361	1997361	C	A	Silent	p.R174R	1
RPL3L	SKCM	chr16	1997207	1997207	G	A	Nonsense_Mutation	p.R226X	1
RPL3L	DLBC	chr16	1996720	1996720	C	T	Missense_Mutation	p.R286H	1
RPL3L	LUAD	chr16	1995911	1995911	C	T	Silent	p.G324G	1
RPL3L	HNSC	chr16	1995860	1995860	C	T	Silent	p.K341K	1
RPL3L	PRAD	chr16	1996981	1996981	G	A	Silent	p.A269A	1
RPL3L	BLCA	chr16	1995614	1995614	G	C	Silent	p.L351L	1
RPL3L	LIHC	chr16	2000901	2000901	C	-	Frame_Shift_Del	p.D149fs	1
RPL3L	DLBC	chr16	2002960	2002960	C	T	Missense_Mutation	p.A94T	1
RPL3L	LUAD	chr16	1995913	1995913	C	T	Missense_Mutation	p.G324R	1
RPL3L	STAD	chr16	1996656	1996656	G	A	Silent	p.Y307Y	1
RPL3L	READ	chr16	1995893	1995893	G	A	Silent	p.F330F	1
RPL3L	LUAD	chr16	1994858	1994858	C	T	Missense_Mutation	p.E402K	1
RPL3L	SKCM	chr16	1997298	1997298	G	A	Silent	p.A195A	1
RPL3L	STAD	chr16	2004022	2004022	G	A	Missense_Mutation	p.T44M	1
RPL3L	LIHC	chr16	1997097	1997097	C	-	Frame_Shift_Del	p.V231fs	1
RPL3L	ESCA	chr16	1994875	1994875	A	G	Missense_Mutation		1
RPL3L	LUSC	chr16	2000847	2000847	G	A	Nonsense_Mutation	p.Q167*	1
RPL3L	SKCM	chr16	1997363	1997363	G	T	Silent	p.R174R	1
RPL3L	BLCA	chr16	2004138	2004138	C	G	Missense_Mutation		1
RPL3L	KIRC	chr16	1995916	1995916	A	G	Missense_Mutation	p.Y323H	1
RPL3L	THYM	chr16	1995611	1995611	C	A	Silent		1
RPL3L	SARC	chr16	1996685	1996685	G	T	Missense_Mutation		1
RPL3L	COAD	chr16	1995609	1995609	A	G	Missense_Mutation	p.V353A	1
RPL3L	LUAD	chr16	2002894	2002894	G	A	Missense_Mutation	p.R116C	1
RPL3L	GBM	chr16	2002950	2002950	C	T	Missense_Mutation	p.R97Q	1
RPL3L	LUSC	chr16	1997365	1997365	A	G	Missense_Mutation	p.F173S	1
RPL3L	SKCM	chr16	1995566	1995566	G	A	Silent	p.F367F	1
RPL3L	BLCA	chr16	1994846	1994846	C	A	Missense_Mutation		1
RPL3L	THYM	chr16	1996980	1996980	C	A	Missense_Mutation	p.G270W	1
RPL3L	SARC	chr16	2003015	2003015	C	T	Silent	p.A75A	1
RPL3L	COAD	chr16	1995853	1995853	C	A	Missense_Mutation	p.V344F	1
RPL3L	GBM	chr16	1997348	1997348	G	T	Missense_Mutation		1
RPL3L	SKCM	chr16	1996982	1996982	G	A	Missense_Mutation	p.A269V	1
RPL3L	THYM	chr16	1995611	1995611	C	A	Silent	p.L352L	1
RPL3L	BLCA	chr16	1996698	1996698	C	T	Missense_Mutation		1
RPL3L	SARC	chr16	1996685	1996685	G	T	Missense_Mutation	p.L298M	1
RPL3L	UCS	chr16	1995899	1995899	G	A	Silent		1
RPL3L	COAD	chr16	1997047	1997047	G	A	Silent	p.G247G	1
RPL3L	HNSC	chr16	1996707	1996707	G	C	Silent		1
RPL3L	OV	chr16	1942995	1942995	C	T	Silent	p.P82	1
RPL3L	SKCM	chr16	1995507	1995507	G	A	Missense_Mutation	p.A387V	1
RPL3L	THYM	chr16	1995517	1995517	C	A	Nonsense_Mutation	p.E384X	1
RPL3L	BLCA	chr16	1997004	1997004	C	T	Missense_Mutation		1
RPL3L	KIRP	chr16	1995508	1995508	C	A	Missense_Mutation		1
RPL3L	SARC	chr16	2003015	2003015	C	T	Silent	p.A75	1
RPL3L	COAD	chr16	1997323	1997323	C	T	Missense_Mutation	p.G187D	1
RPL3L	LUAD	chr16	1996683	1996683	C	T	Silent	p.L298L	1
RPL3L	HNSC	chr16	1996986	1996986	G	A	Missense_Mutation		1
RPL3L	SKCM	chr16	1996721	1996721	G	A	Missense_Mutation	p.R286C	1
RPL3L	UCEC	chr16	1996644	1996644	G	T	Silent	p.A311A	1
RPL3L	BLCA	chr16	1995614	1995614	G	C	Silent		1
RPL3L	KIRP	chr16	2003991	2003991	G	T	Silent		1
RPL3L	COAD	chr16	2003016	2003016	G	A	Missense_Mutation	p.A75V	1
RPL3L	LUAD	chr16	1997014	1997014	G	T	Missense_Mutation	p.H258Q	1
RPL3L	HNSC	chr16	1996719	1996719	G	C	Silent		1
RPL3L	PAAD	chr16	1997042	1997042	C	T	Missense_Mutation		1
RPL3L	SKCM	chr16	1997207	1997207	G	A	Nonsense_Mutation	p.R226*	1
RPL3L	UCEC	chr16	1997325	1997325	G	A	Silent	p.N186N	1
RPL3L	LIHC	chr16	1997322	1997322	A	G	Silent		1
RPL3L	COAD	chr16	2004054	2004054	C	T	Silent	p.P33P	1
RPL3L	HNSC	chr16	1995860	1995860	C	T	Silent		1
RPL3L	PAAD	chr16	1995545	1995545	G	T	Missense_Mutation		1
RPL3L	UCEC	chr16	1997346	1997346	G	A	Silent	p.H179H	1
RPL3L	LIHC	chr16	2000979	2000979	G	T	Missense_Mutation		1
RPL3L	COAD	chr16	2004061	2004061	G	A	Missense_Mutation	p.T31M	1
RPL3L	LUAD	chr16	2004081	2004081	C	A	Silent	p.R24R	1

Copy number variation (CNV) of RPL3L
* Click on the image to open the original image in a new window.

Fusion gene breakpoints (product of the structural variants (SVs)) across RPL3L
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion genes with this translation factor from FusionGDB2.0.

FusionGDB2 ID

Disease

Sample

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

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Prognostic Analysis

Kaplan-Meier plots with logrank tests of overall survival (OS)

Cancer type

Translation factor

Coefficent

Hazard ratio

Wald test pval

Likelihool ratio pval

Logrank test pval

# samples

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Translation factor and Gender

Differential gene expression between female and male. (Wilcoxon test, pval<0.05)

Cancer type	Translation factor	pval	adj.p
TGCT	RPL3L	0.00195650017990638	0.055
LUSC	RPL3L	0.0106540809747079	0.29
PCPG	RPL3L	0.0475328387194827	1

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Translation factor and Age

Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05)

Cancer type	Translation factor	pval	adj.p
BRCA	RPL3L	0.00167339220893266	0.054
CESC	RPL3L	0.000713508717067074	0.024
ESCA	RPL3L	0.00208115036775434	0.065

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Related Drugs

Drugs targeting genes involved in this translation factor.
(DrugBank Version 5.1.8 2021-05-08)

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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Related Diseases

Diseases associated with this translation factor.
(DisGeNet 4.0)

Disease ID	Disease Name	# PubMeds	Disease source
C0004238	Atrial Fibrillation	1	CTD_human
C0235480	Paroxysmal atrial fibrillation	1	CTD_human