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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: ZCCHC13 (NCBI Gene ID:389874)

Gene Summary

Gene Summary

Gene Information	Gene Name: ZCCHC13
	Gene ID: 389874
	Gene Symbol	ZCCHC13
	Gene ID	389874
	Gene Name	zinc finger CCHC-type containing 13
	Synonyms	CNBP2\|ZNF9L
	Cytomap	Xq13.2
	Type of Gene	protein-coding
	Description	zinc finger CCHC domain-containing protein 13zinc finger, CCHC domain containing 13
	Modification date	20200313
	UniProtAcc	Q8WW36

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

GO ID	GO term
GO:0006417	Regulation of translation
GO:0045727	Positive regulation of translation
GO:0002181	Cytoplasmic translation
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 'ZCCHC13[title] AND translation [title] AND human.'

Gene	Title	PMID
ZCCHC13	.	.

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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

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

adj.pval

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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
UCEC	ZCCHC13	-0.335134975	0.004767798

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Associated Genes

Strongly correlated genes belong to cellular important gene groups with ZCCHC13 (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
DLBC	Cell metabolism gene	ZCCHC13	HS6ST3	0.802757457	6.77E-12
DLBC	TF	ZCCHC13	NKX2-8	0.804584742	5.58E-12
DLBC	TSG	ZCCHC13	NKX2-8	0.804584742	5.58E-12
ESCA	Cell metabolism gene	ZCCHC13	FSHB	0.821208913	3.75E-49
ESCA	IUPHAR	ZCCHC13	KCNG4	0.807633337	2.24E-46
ESCA	IUPHAR	ZCCHC13	NLRP8	0.811738543	3.42E-47
ESCA	IUPHAR	ZCCHC13	NLRP13	0.842970911	3.95E-54
ESCA	IUPHAR	ZCCHC13	BIRC8	0.854862506	3.50E-57
KICH	Cell metabolism gene	ZCCHC13	MUC17	0.83723567	4.69E-25
KICH	Cell metabolism gene	ZCCHC13	GCG	0.909146139	1.29E-35
KICH	Cell metabolism gene	ZCCHC13	GPX6	0.919670764	6.79E-38
KICH	Cell metabolism gene	ZCCHC13	TUBA3C	0.990067675	1.26E-77
KICH	CGC	ZCCHC13	SSX2	0.960653144	2.68E-51
KICH	CGC	ZCCHC13	SSX4	0.982937918	3.08E-67
KICH	CGC	ZCCHC13	SSX1	0.984383844	6.18E-69
KICH	Epifactor	ZCCHC13	H1FNT	0.810829734	2.04E-22
KICH	Epifactor	ZCCHC13	H2BFWT	0.824956785	8.98E-24
KICH	Epifactor	ZCCHC13	HIST1H2AB	0.871292586	2.96E-29
KICH	Epifactor	ZCCHC13	HIST1H3I	0.910846427	5.77E-36
KICH	Epifactor	ZCCHC13	HIST1H4L	0.950448363	6.15E-47
KICH	IUPHAR	ZCCHC13	PANX3	0.859736701	1.05E-27
KICH	IUPHAR	ZCCHC13	MMP27	0.882401617	6.86E-31
KICH	IUPHAR	ZCCHC13	SLCO6A1	0.941800206	6.54E-44
KICH	TF	ZCCHC13	ZNF679	0.809399245	2.76E-22
KICH	TF	ZCCHC13	FOXG1	0.812958943	1.30E-22
KICH	TF	ZCCHC13	ZIC4	0.813029374	1.28E-22
KICH	TF	ZCCHC13	DMRTB1	0.824803176	9.30E-24
KICH	TF	ZCCHC13	TBX5	0.83453818	9.15E-25
KICH	TF	ZCCHC13	BARX1	0.839492492	2.65E-25
KICH	TF	ZCCHC13	FOXR2	0.845027978	6.32E-26
KICH	TF	ZCCHC13	PROP1	0.865853326	1.65E-28
KICH	TF	ZCCHC13	MYT1L	0.871530646	2.75E-29
KICH	TF	ZCCHC13	DMBX1	0.916424635	3.68E-37
KICH	TF	ZCCHC13	SPZ1	0.922136854	1.79E-38
KICH	TF	ZCCHC13	LIN28B	0.935391246	5.94E-42
KICH	TF	ZCCHC13	FEZF2	0.948712331	2.74E-46
KICH	TSG	ZCCHC13	PAEP	0.804464524	7.67E-22
KICH	TSG	ZCCHC13	TBX5	0.83453818	9.15E-25
KICH	TSG	ZCCHC13	GKN2	0.875697587	6.96E-30
STAD	IUPHAR	ZCCHC13	NLRP8	0.813487428	1.63E-107

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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
COAD	ZCCHC13	RPL10	2.006642468675	0.000363647937774659
KIRP	ZCCHC13	RPL10	-1.37220416357567	0.000397900585085154
BRCA	ZCCHC13	MRTO4	-1.1206548149334	0.000570623901679921
KIRC	ZCCHC13	WBSCR27	1.44399497052011	0.000815807222164296
COAD	ZCCHC13	CECR5	1.11086905031014	0.00177955627441406
ESCA	ZCCHC13	MRTO4	-1.71658853440787	0.001953125
ESCA	ZCCHC13	WBSCR27	-2.337084059103	0.0048828125
STAD	ZCCHC13	CECR5	-1.05525781684033	0.0093395933508873
THCA	ZCCHC13	RPL10	1.10728945731078	0.0162154270723803
LUSC	ZCCHC13	RPL10L	-1.36690500854163	0.0210979717247784
STAD	ZCCHC13	RLIM	-2.17509128187061	0.0252704131416976
CHOL	ZCCHC13	RLIM	-1.47377508510375	0.02734375
UCEC	ZCCHC13	RPL10	-2.16361378541108	0.03125
KICH	ZCCHC13	RPL10	-2.34220425889432	0.0341737866401672
LUAD	ZCCHC13	CECR5	-1.35474048180521	1.61427770148041e-05
PRAD	ZCCHC13	MRTO4	-2.94194912263041	1.78303573859803e-06
KIRC	ZCCHC13	RLIM	-4.28576267772829	1.78820612744388e-08
PRAD	ZCCHC13	RLIM	1.52529014887364	1.82900102684565e-05
COAD	ZCCHC13	RPL10L	-1.78552000802138	2.08616256713867e-07
STAD	ZCCHC13	MRTO4	-2.65863510260604	2.98023223876953e-07
COAD	ZCCHC13	RLIM	-3.2570032025935	2.98023223876954e-08
BRCA	ZCCHC13	CHIC1	-2.74073035072028	3.76176190769597e-05
KIRP	ZCCHC13	WBSCR27	1.35557893651603	4.5965425670147e-06
LUAD	ZCCHC13	MRTO4	-6.33411065422197	4.60205959480617e-09
BRCA	ZCCHC13	RPL10	-3.68650055930356	5.03964579430268e-08
PRAD	ZCCHC13	CHIC1	-1.33989435459853	7.60368400697642e-06

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

PPI interactors with ZCCHC13

ATXN1, SIAH1, SNRPA, GUCD1, ZNF648, ZNF250,

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Mutations

Clinically associated variants from ClinVar.

Gene	Chr	Position	RefSeq	VarSeq	RefSeeq	VarType	Pathogenic	Disease	VarInfo
ZCCHC13	chrX	73524146	G	A	single_nucleotide_variant	Benign	not_provided	SO:0001587\|nonsense	SO:0001587\|nonsense
ZCCHC13	chrX	73524204	G	A	single_nucleotide_variant	Benign	not_provided	SO:0001583\|missense_variant	SO:0001583\|missense_variant
ZCCHC13	chrX	73524557	A	G	single_nucleotide_variant	Benign	not_provided	SO:0001819\|synonymous_variant	SO:0001819\|synonymous_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
ZCCHC13	UCEC	chrX	73524329	73524329	C	T	Silent	p.I76	4
ZCCHC13	HNSC	chrX	73524270	73524270	G	T	Missense_Mutation	p.A57S	3
ZCCHC13	BRCA	chrX	73524431	73524431	G	A	Silent	p.Q110	3
ZCCHC13	LUAD	chrX	73524453	73524453	C	A	Missense_Mutation	p.L118I	3
ZCCHC13	HNSC	chrX	73524500	73524500	C	A	Nonsense_Mutation	p.C133*	2
ZCCHC13	UCEC	chrX	73524410	73524410	C	A	Missense_Mutation	p.D103E	2
ZCCHC13	LUAD	chrX	73524388	73524388	G	T	Missense_Mutation	p.R96I	2
ZCCHC13	SKCM	chrX	73524122	73524122	C	T	Silent	p.F7F	2
ZCCHC13	UCEC	chrX	73524565	73524565	G	A	Missense_Mutation	p.R155Q	2
ZCCHC13	SARC	chrX	73524388	73524388	G	C	Missense_Mutation		2
ZCCHC13	STAD	chrX	73524221	73524221	C	T	Silent	p.S40S	2
ZCCHC13	SARC	chrX	73524388	73524388	G	C	Missense_Mutation	p.R96T	2
ZCCHC13	STAD	chrX	73524418	73524418	G	A	Missense_Mutation	p.R106H	2
ZCCHC13	SKCM	chrX	73524113	73524113	G	A	Silent	p.K4K	2
ZCCHC13	STAD	chrX	73524363	73524363	C	T	Missense_Mutation	p.R88C	2
ZCCHC13	SKCM	chrX	73524285	73524285	C	T	Missense_Mutation	p.L62F	2
ZCCHC13	SKCM	chrX	73524277	73524277	A	G	Missense_Mutation	p.N59S	2
ZCCHC13	UCEC	chrX	73524122	73524122	C	T	Silent	p.F7	2
ZCCHC13	SKCM	chrX	73524206	73524206	T	C	Silent	p.G35G	2
ZCCHC13	LUAD	chrX	73524366	73524366	C	A	Missense_Mutation	p.Q89K	1
ZCCHC13	CESC	chrX	73524431	73524431	G	C	Missense_Mutation	p.Q110H	1
ZCCHC13	SKCM	chrX	73524129	73524129	G	A	Missense_Mutation	p.G10R	1
ZCCHC13	HNSC	chrX	73524174	73524174	G	C	Missense_Mutation	p.G25R	1
ZCCHC13	COAD	chrX	73524139	73524139	G	A	Missense_Mutation	p.G13D	1
ZCCHC13	LUAD	chrX	73524478	73524478	C	-	Frame_Shift_Del	p.A126fs	1
ZCCHC13	COAD	chrX	73524355	73524355	G	A	Missense_Mutation	p.R85Q	1
ZCCHC13	SKCM	chrX	73524524	73524524	C	T	Silent	p.I141I	1
ZCCHC13	KIRC	chrX	73524500	73524500	C	T	Silent	p.C133C	1
ZCCHC13	BLCA	chrX	73524406	73524406	G	A	Missense_Mutation		1
ZCCHC13	LUSC	chrX	73524598	73524598	A	T	Missense_Mutation	p.Q166L	1
ZCCHC13	COAD	chrX	73524329	73524329	C	T	Silent	p.I76I	1
ZCCHC13	SKCM	chrX	73524159	73524159	C	T	Missense_Mutation	p.P20S	1
ZCCHC13	LGG	chrX	73524566	73524566	G	A	Silent	p.R155R	1
ZCCHC13	BLCA	chrX	73524501	73524501	G	T	Missense_Mutation		1
ZCCHC13	LUSC	chrX	73524496	73524496	G	A	Missense_Mutation	p.R132Q	1
ZCCHC13	GBM	chrX	73524398	73524398	T	A	Missense_Mutation	p.H99Q	1
ZCCHC13	SKCM	chrX	73524565	73524565	G	C	Missense_Mutation	p.R155P	1
ZCCHC13	LGG	chrX	73524566	73524566	G	A	Silent		1
ZCCHC13	BLCA	chrX	73524385	73524385	G	C	Missense_Mutation		1
ZCCHC13	GBM	chrX	73524398	73524398	T	A	Missense_Mutation		1
ZCCHC13	LGG	chrX	73524403	73524403	C	A	Missense_Mutation		1
ZCCHC13	BLCA	chrX	73524406	73524406	G	A	Missense_Mutation	p.R102H	1
ZCCHC13	HNSC	chrX	73524174	73524174	G	C	Missense_Mutation		1
ZCCHC13	LUAD	chrX	73524209	73524209	T	C	Silent	p.S36S	1
ZCCHC13	BLCA	chrX	73524501	73524501	G	T	Missense_Mutation	p.G134C	1
ZCCHC13	HNSC	chrX	73524270	73524270	G	T	Missense_Mutation		1
ZCCHC13	LUAD	chrX	73524477	73524477	G	T	Missense_Mutation	p.A126S	1
ZCCHC13	BLCA	chrX	73524385	73524385	G	C	Missense_Mutation	p.G95A	1
ZCCHC13	STAD	chrX	73524180	73524180	C	T	Nonsense_Mutation	p.R27*	1
ZCCHC13	HNSC	chrX	73524386	73524386	C	T	Silent		1
ZCCHC13	LUAD	chrX	73524138	73524138	G	A	Missense_Mutation	p.G13S	1
ZCCHC13	HNSC	chrX	73524386	73524386	C	T	Silent	p.G95G	1
ZCCHC13	CESC	chrX	73524601	73524601	G	T	Nonstop_Mutation		1

Copy number variation (CNV) of ZCCHC13
* Click on the image to open the original image in a new window.

Fusion gene breakpoints (product of the structural variants (SVs)) across ZCCHC13
* 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	ZCCHC13	0.00103926378915181	0.023
SKCM	ZCCHC13	0.0130792721342567	0.27

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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

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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