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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: MCTS1 (NCBI Gene ID:28985)

Gene Summary

Gene Summary

Gene Information	Gene Name: MCTS1
	Gene ID: 28985
	Gene Symbol	MCTS1
	Gene ID	28985
	Gene Name	MCTS1 re-initiation and release factor
	Synonyms	MCT-1\|MCT1
	Cytomap	Xq24
	Type of Gene	protein-coding
	Description	malignant T-cell-amplified sequence 1malignant T-cell amplified sequence 1multiple copies T-cell malignanciesmultiple copies in T-cell lymphoma-1
	Modification date	20200313
	UniProtAcc	Q9ULC4

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

GO ID	GO term
GO:0006417	Regulation of translation
GO:0008135	Translation factor activity, RNA binding
GO:0002181	Cytoplasmic translation
GO:0006413	Translational initiation
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
Hgene	MCTS1	GO:0001731	formation of translation preinitiation complex	20713520
Hgene	MCTS1	GO:0032790	ribosome disassembly	20713520
Hgene	MCTS1	GO:0075522	IRES-dependent viral translational initiation	20713520

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
MCTS1	>1119.25

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Translation Studies in PubMed

We searched PubMed using 'MCTS1[title] AND translation [title] AND human.'

Gene	Title	PMID
MCTS1	DENR-MCTS1 heterodimerization and tRNA recruitment are required for translation reinitiation	29889857

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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
ENST00000371317	119739261	119739414	In-frame
ENST00000371317	119742079	119742213	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)
ENST00000371317	119739261	119739414	1035	269	421	181	4	54

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.
Q9ULC4	4	54	1	181	Chain	ID=PRO_0000344786;Note=Malignant T-cell-amplified sequence 1
Q9ULC4	4	54	1	22	Alternative sequence	ID=VSP_034856;Note=In isoform 2. MFKKFDEKENVSNCIQLKTSVI->MENYSFLDKE;Ontology_term=ECO:0000303;evidence=ECO:0000303\|PubMed:15489334;Dbxref=PMID:15489334
Q9ULC4	4	54	1	4	Alternative sequence	ID=VSP_041352;Note=In isoform 3. MFKK->MGKGR;Ontology_term=ECO:0000303;evidence=ECO:0000303\|PubMed:14702039;Dbxref=PMID:14702039
Q9ULC4	4	54	25	25	Sequence conflict	Note=I->L;Ontology_term=ECO:0000305;evidence=ECO:0000305
Q9ULC4	4	54	7	10	Helix	Ontology_term=ECO:0000244;evidence=ECO:0000244\|PDB:3R90
Q9ULC4	4	54	11	16	Beta strand	Ontology_term=ECO:0000244;evidence=ECO:0000244\|PDB:3R90
Q9ULC4	4	54	19	32	Helix	Ontology_term=ECO:0000244;evidence=ECO:0000244\|PDB:3R90
Q9ULC4	4	54	34	39	Helix	Ontology_term=ECO:0000244;evidence=ECO:0000244\|PDB:3R90
Q9ULC4	4	54	40	43	Helix	Ontology_term=ECO:0000244;evidence=ECO:0000244\|PDB:3R90
Q9ULC4	4	54	50	55	Beta strand	Ontology_term=ECO:0000244;evidence=ECO:0000244\|PDB:3R90

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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
KICH	MCTS1	-2.5074280800957	2.98023223876953e-07
LUSC	MCTS1	-2.41801915956715	7.28442422628201e-06

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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
PAAD	MCTS1	1	2	0.0223804363058591	0.107775909090909	0.381172647058824	0.489400764728618	0.768155844942382
SARC	MCTS1	1	2	0.0123872364619119	0.126796621621622	0.338734710743802	0.544892681190493	0.271978285389843

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
CESC	MCTS1	1	2	0.0318806476796093	0.134447426470588	0.376171043165468	-0.296580563677751	0.054379338988252
CHOL	MCTS1	1	2	0.0457664737227647	0.0344952380952381	0.349598639455782	0.346099093184725	-0.187707454434124
LAML	MCTS1	1	2	0.00221943542422045	0.0272350458715596	0.390659764705882	-0.589774033726656	-0.897528798972438

Translation factor expression regulation through copy number variation of Translation factor

Cancer type	Gene	Coefficient	Pvalue
PAAD	MCTS1	0.175212135	0.030961418
READ	MCTS1	-0.049412376	0.047574989

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Associated Genes

Strongly correlated genes belong to cellular important gene groups with MCTS1 (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
COAD	IUPHAR	MCTS1	SLC25A14	0.807146626	7.76E-77
DLBC	Cell metabolism gene	MCTS1	NSDHL	0.801586598	7.65E-12
DLBC	Cell metabolism gene	MCTS1	GSTP1	0.806401337	4.60E-12
DLBC	Cell metabolism gene	MCTS1	SUCLG1	0.808190447	3.79E-12
DLBC	Cell metabolism gene	MCTS1	PSMB3	0.80928017	3.37E-12
DLBC	Cell metabolism gene	MCTS1	EBP	0.815726663	1.64E-12
DLBC	Cell metabolism gene	MCTS1	TIMM17B	0.827288719	4.23E-13
DLBC	Cell metabolism gene	MCTS1	ACOT8	0.830547845	2.83E-13
DLBC	Cell metabolism gene	MCTS1	HSD17B10	0.854260211	1.16E-14
DLBC	CGC	MCTS1	DDIT3	0.820449135	9.56E-13
DLBC	Epifactor	MCTS1	PPP4C	0.854984337	1.04E-14
DLBC	TF	MCTS1	DDIT3	0.820449135	9.56E-13
DLBC	TSG	MCTS1	GSTP1	0.806401337	4.60E-12
READ	Cell metabolism gene	MCTS1	TIMM8A	0.808856805	1.70E-25
THYM	Cell metabolism gene	MCTS1	TAZ	0.814977343	3.27E-30
THYM	Cell metabolism gene	MCTS1	GLA	0.832845992	1.30E-32
THYM	Cell metabolism gene	MCTS1	SEC61G	0.837467807	2.80E-33
THYM	CGC	MCTS1	COX6C	0.811394796	9.21E-30
UCS	Cell metabolism gene	MCTS1	TAZ	0.814977343	3.27E-30
UCS	Cell metabolism gene	MCTS1	GLA	0.832845992	1.30E-32
UCS	Cell metabolism gene	MCTS1	SEC61G	0.837467807	2.80E-33
UCS	CGC	MCTS1	COX6C	0.811394796	9.21E-30

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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
LIHC	MCTS1	RPSA	-2.66181804625988	0.00010013220697745
KIRC	MCTS1	PSMD8	-1.40288587415302	0.000104247926808154
KIRP	MCTS1	RPS16	-1.35957043617517	0.00019507110118866
COAD	MCTS1	RPS20	-3.55214827660447	0.0010443925857544
HNSC	MCTS1	DENR	1.63046611861477	0.00106627625814326
LUAD	MCTS1	RPS8	-2.73463137299833	0.00134906742748461
PRAD	MCTS1	RPS8	1.32957024497066	0.00418162555035067
KICH	MCTS1	RPS20	-2.30757233561727	0.00612920522689819
LUSC	MCTS1	RPS8	-1.95298795124964	0.00724217523600344
CHOL	MCTS1	RPSA	-1.88501253711962	0.0078125
THCA	MCTS1	RPS16	-6.16322798156577	0.0115764821363307
STAD	MCTS1	PSMA2	-5.02209086415669	0.0148032568395138
LUAD	MCTS1	RPS4X	-2.43594282676366	0.0163893452361939
ESCA	MCTS1	PSMD8	-1.60409382751223	0.0185546875
CHOL	MCTS1	CUL4B	-4.8194074063341	0.02734375
BLCA	MCTS1	RPS20	-3.2869410015055	0.0360679626464844
COAD	MCTS1	RPS9	1.18612014402235	0.0381683111190796
PRAD	MCTS1	RPSA	1.15183588990872	0.0476188245531179
KIRC	MCTS1	RPS8	-3.97243608476641	1.19932271980764e-10
KIRP	MCTS1	RPS20	-1.44580921357944	1.60322524607182e-05
KIRC	MCTS1	RPS4X	-1.64140073680063	1.72010286166321e-07
BRCA	MCTS1	RPS9	1.9331477546349	2.31299392089389e-07
THCA	MCTS1	PSMD8	-2.3172512191028	2.61931630121773e-06
KIRC	MCTS1	PSMA2	-1.56308623621678	2.87032992687011e-05
BRCA	MCTS1	RPS4X	-1.55343710903986	3.36588066248297e-09
BRCA	MCTS1	PSMA2	-3.59355711829034	3.49111239974773e-14
KIRC	MCTS1	RPS9	-1.32680816440987	6.53264115309597e-07
THCA	MCTS1	RPS4X	1.49777877118816	6.68348444344278e-07
KIRP	MCTS1	RPS8	-1.20432400687215	7.40401446819306e-05
KIRC	MCTS1	RPS16	-1.66149869889384	7.8509870430991e-09
KIRC	MCTS1	RPS20	-2.62380824779569	7.86590430905899e-10
LIHC	MCTS1	CUL4B	-2.02966986091207	8.53408418819579e-05

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

PPI interactors with MCTS1

DENR, ASB6, ATIC, HDGF, HMGB3, IPO5, IPO9, ISOC1, DHX15, STK26, MYO1E, NAE1, OGFOD1, PDCD6IP, PTMA, TUBB4B, TWF1, TWF2, UBXN1, PROSC, UBA1, USP5, YWHAE, FSD1, CYP1A1, CORO1C, OTUD6B, SPICE1, CEP135, XPO1, GPX7, FGB, GTF2E2, USP47, NFKBIA, SNRNP27, LRRFIP1, FOXA1, UBE2M, LARP7, AGR2, RECQL4, ATG16L1, ORF7b, HSCB, ARHGAP11B, ARHGAP35, ARHGAP26, LGALS9, BKRF1, HTRA4, MTPN, ZMAT2, RLN2, NAP1L2, TNFRSF1B, NIPA2, C16orf13, GSX1, RPL35A, PAGE1, HOXC5, CENPM, BBS1, CCDC53, PCBP3, C2orf73, MILR1, ZBTB2, VAMP3, SYT6, SUPV3L1, CCR1, SMAD4, SYT1, NTNG1,

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Mutations

Clinically associated variants from ClinVar.

Gene	Chr	Position	RefSeq	VarSeq	RefSeeq	VarType	Pathogenic	Disease	VarInfo
MCTS1	chrX	119739984	G	A	single_nucleotide_variant	Benign	not_provided	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
MCTS1	BRCA	chrX	119738713	119738713	G	A	Missense_Mutation	p.G2D	4
MCTS1	HNSC	chrX	119738100	119738100	G	C	Missense_Mutation	p.K3N	3
MCTS1	LIHC	chrX	119739977	119739977	T	-	Frame_Shift_Del	p.F72fs	3
MCTS1	KIRP	chrX	119739292	119739293	-	AT	Frame_Shift_Ins	p.C15fs	2
MCTS1	UCEC	chrX	119742212	119742212	T	C	Missense_Mutation	p.V133A	2
MCTS1	SKCM	chrX	119739363	119739363	C	T	Missense_Mutation	p.P39L	2
MCTS1	LGG	chrX	119739938	119739938	G	A	Missense_Mutation	p.E58K	2
MCTS1	UCEC	chrX	119738719	119738719	G	A	Missense_Mutation	p.G4E	2
MCTS1	LIHC	chrX	119742127	119742127	T	-	Frame_Shift_Del	p.F105fs	2
MCTS1	UCEC	chrX	119739328	119739328	G	T	Missense_Mutation	p.K27N	2
MCTS1	KIRP	chrX	119739295	119739295	C	A	Silent	p.I16I	2
MCTS1	UCEC	chrX	119742118	119742118	G	A	Missense_Mutation	p.A102T	2
MCTS1	KIRP	chrX	119739296	119739296	C	T	Nonsense_Mutation	p.Q17X	2
MCTS1	UCEC	chrX	119742128	119742128	T	C	Missense_Mutation	p.F105S	2
MCTS1	LIHC	chrX	119740000	119740000	T	-	Frame_Shift_Del	p.P78fs	1
MCTS1	BLCA	chrX	119739341	119739341	G	A	Missense_Mutation	p.E31K	1
MCTS1	KIRP	chrX	119739292	119739293	-	AT	Frame_Shift_Ins	p.CP15fs	1
MCTS1	LUAD	chrX	119739399	119739399	T	C	Missense_Mutation	p.V51A	1
MCTS1	SKCM	chrX	119739392	119739392	G	A	Missense_Mutation	p.D49N	1
MCTS1	KIRP	chrX	119739295	119739296	CC	-	Frame_Shift_Del	p.16_16del	1
MCTS1	LUAD	chrX	119746108	119746108	A	C	Missense_Mutation	p.T180P	1
MCTS1	CESC	chrX	119738004	119738004	C	T	Missense_Mutation		1
MCTS1	STAD	chrX	119742168	119742168	T	G	Silent	p.T118T	1
MCTS1	KIRP	chrX	119739292	119739293	-	AT	Frame_Shift_Ins	p.C14fs	1
MCTS1	LUAD	chrX	119739990	119739990	G	A	Missense_Mutation	p.R75K	1
MCTS1	COAD	chrX	119739274	119739274	A	C	Missense_Mutation	p.K9N	1
MCTS1	STAD	chrX	119742205	119742205	A	G	Missense_Mutation	p.T130A	1
MCTS1	LUAD	chrX	119739399	119739399	T	C	Missense_Mutation	p.V50A	1
MCTS1	COAD	chrX	119742158	119742158	C	T	Missense_Mutation	p.P115L	1
MCTS1	STAD	chrX	119742168	119742168	T	G	Silent	p.T117T	1
MCTS1	LGG	chrX	119739938	119739938	G	A	Missense_Mutation		1
MCTS1	BLCA	chrX	119742109	119742109	G	C	Missense_Mutation		1
MCTS1	LUAD	chrX	119739377	119739377	A	G	Missense_Mutation	p.I43V	1
MCTS1	HNSC	chrX	119738100	119738100	G	C	Missense_Mutation		1
MCTS1	UCEC	chrX	119739370	119739370	T	C	Silent	p.L40L	1
MCTS1	LIHC	chrX	119739358	119739358	T	C	Silent	p.I37I	1
MCTS1	BLCA	chrX	119739341	119739341	G	A	Missense_Mutation		1
MCTS1	LUAD	chrX	119746095	119746095	G	A	Silent	p.L174L	1
MCTS1	BLCA	chrX	119742109	119742109	G	C	Missense_Mutation	p.D99H	1
MCTS1	LUSC	chrX	119742191	119742191	C	T	Missense_Mutation	p.P125L	1
MCTS1	KIRC	chrX	119744919	119744919	G	A	Missense_Mutation	p.M151I	1
MCTS1	BLCA	chrX	119739341	119739341	G	A	Missense_Mutation	p.E32K	1
MCTS1	OV	chrX	119630111	119630111	A	T	Missense_Mutation	p.L170F	1
MCTS1	LIHC	chrX	119742112	119742112	A	-	Frame_Shift_Del	p.K100fs	1
MCTS1	BLCA	chrX	119742150	119742150	C	G	Missense_Mutation	p.I112M	1
MCTS1	PAAD	chrX	119738234	119738234	A	G	Missense_Mutation		1
MCTS1	LIHC	chrX	119739302	119739302	A	-	Frame_Shift_Del	p.K19fs	1
MCTS1	BLCA	chrX	119742109	119742109	G	C	Missense_Mutation	p.D98H	1
MCTS1	READ	chrX	119739411	119739411	G	A	Missense_Mutation	p.R55Q	1

Copy number variation (CNV) of MCTS1
* Click on the image to open the original image in a new window.

Fusion gene breakpoints (product of the structural variants (SVs)) across MCTS1
* 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
64697	N/A	EC556167	KANK1	chr9	517470	-	MCTS1	chrX	119742094	+
94325	N/A	DN914676	MCTS1	chrX	119747029	-	PHACTR4	chr1	28826160	-
64706	N/A	DN914677	PHACTR4	chr1	28826160	+	MCTS1	chrX	119747048	+

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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
SKCM	MCTS1	0.00587087121220177	0.16
KIRC	MCTS1	0.0328780065325294	0.89
LAML	MCTS1	0.0329458545405179	0.89
LIHC	MCTS1	0.0354932203028526	0.89

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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
LUSC	MCTS1	0.0375221564916757	1
BRCA	MCTS1	0.000201798260116135	0.0067
THYM	MCTS1	0.00212938381384567	0.068

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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