Home

Download

Statistics

Examples

Help

Contact

	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: NGRN (NCBI Gene ID:51335)

Gene Summary

Gene Summary

Gene Information	Gene Name: NGRN
	Gene ID: 51335
	Gene Symbol	NGRN
	Gene ID	51335
	Gene Name	neugrin, neurite outgrowth associated
	Synonyms	DSC92
	Cytomap	15q26.1
	Type of Gene	protein-coding
	Description	neugrinmesenchymal stem cell protein DSC92neurite outgrowth associated proteinspinal cord-derived protein FI58G
	Modification date	20200313
	UniProtAcc	Q9NPE2

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

GO ID	GO term
GO:0006417	Regulation of translation
GO:0032543	Mitochondrial translation
GO:0045727	Positive regulation of 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
NGRN	(733 - 1119.25]

Top

Translation Studies in PubMed

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

Gene	Title	PMID
NGRN	.	.

Top

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.

Top

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
PRAD	NGRN	-1.95446330682921	3.16187259327918e-07

Top

Expression Regulation

Translation factor expression regulation through miRNA binding

Cancer type	Gene	miRNA	TargetScan binding score (Context++ score percentile)	Coefficient	Pvalue
LUAD	NGRN	hsa-miR-221-3p	98	0.31601706970128	0.00593935911111262
OV	NGRN	hsa-miR-221-3p	98	-0.333390250149407	0.0161224969880405
OV	NGRN	hsa-miR-222-3p	98	-0.301118415435841	0.0304646794172549

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
LUSC	NGRN	0.109477688	0.040996403

Top

Associated Genes

Strongly correlated genes belong to cellular important gene groups with NGRN (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

Top

Protein structure

Protein 3D structure
Visit iCn3D.

Top

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
KICH	NGRN	WBSCR16	1.5230976821616	0.000162303447723389
STAD	NGRN	WBSCR16	-1.13833861108984	0.000433447770774365
LIHC	NGRN	DDX28	-1.80556919949378	0.00268062725366399
KICH	NGRN	TRUB2	-2.06154942711577	0.00882232189178467
STAD	NGRN	RPUSD4	-1.77759628022672	0.0148032568395138
ESCA	NGRN	TRUB2	-1.63055491619549	0.0185546875
LIHC	NGRN	FASTKD2	-2.17426498508978	0.0264015241133303
CHOL	NGRN	TRUB2	-2.3070167517537	0.02734375
KIRP	NGRN	DDX28	1.78729156338422	0.0309218638576567
STAD	NGRN	DDX28	-1.74473313280693	0.0309218638576567
HNSC	NGRN	FASTKD2	-1.72219345188751	0.0410440647583528
KIRC	NGRN	RPUSD3	1.03010103400179	1.09375608261512e-08
HNSC	NGRN	RPUSD4	-3.64823171256213	1.42088565553422e-05
BRCA	NGRN	TRUB2	-2.53279756068983	1.7326162077773e-13
LUSC	NGRN	WBSCR16	-2.87043544276894	1.86041017272598e-07
LUSC	NGRN	TRUB2	-3.50473378801546	1.91629083762368e-08
LUAD	NGRN	WBSCR16	-2.84505915400831	3.09848396407815e-08
LUAD	NGRN	TRUB2	-1.92983802030623	3.47524877088934e-09
BRCA	NGRN	FASTKD2	-1.95659368089906	4.12639478109604e-08
KICH	NGRN	DDX28	2.68166675030171	4.54187393188476e-05
KIRC	NGRN	RPUSD4	-3.43456748913004	9.61177113723533e-08

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

PPI interactors with NGRN

ICT1, PRKAG3, RBMS3, TRA2A, RPL6, HNRNPDL, ZC3H3, MRPL4, HNRNPA1, MRPL39, RBMX, DCTD, PRKD2, MRPL50, WBSCR16, RPUSD3, RPUSD4, TRUB2, FASTKD2, RNR2, TSC22D2, ZNF324B, RBM42, CIRBP, CDX1, DDX28, RBM3, RPL7, MRPL42, STRBP, ZC3HAV1, PRDM5, GLTSCR2, PPAN, FBXW11, TRIM25, TNIP2, MRM1, YOD1, GTF2H5, NPM1, ANLN, AUH, C12orf65, C1QBP, C6orf203, GFM1, GRSF1, LRPPRC, METTL17, MRPL11, MTERF3, ACOT1, ACOT2, AFG3L2, ATP5J2-PTCD1, ATPAF1, C17orf80, CLPX, DAP3, DHX30, DLAT, DLST, ECHS1, ECSIT, ELAC2, ETFA, ETFB, GADD45GIP1, GLS, GUF1, HNRNPA3, HNRNPAB, HNRNPL, HNRNPR, HNRNPUL1, IARS2, KIAA0391, LETM1, MIB1, MMAB, RNMTL1, MRPL1, MRPL10, MRPL12, MRPL13, MRPL14, MRPL15, MRPL16, MRPL17, MRPL18, MRPL19, MRPL2, MRPL20, MRPL21, MRPL22, MRPL23, MRPL24, MRPL27, MRPL28, MRPL3, MRPL30, MRPL32, MRPL37, MRPL38, MRPL40, MRPL41, MRPL43, MRPL44, MRPL45, MRPL46, MRPL47, MRPL48, MRPL49, MRPL51, MRPL52, MRPL53, MRPL57, MRPL9, MRPS10, MRPS14, MRPS16, MRPS17, MRPS18A, MRPS18B, MRPS18C, MRPS2, MRPS22, MRPS23, MRPS24, MRPS25, MRPS26, MRPS27, MRPS28, MRPS30, MRPS31, MRPS33, MRPS34, MRPS35, MRPS36, MRPS5, MRPS6, MRPS7, MRPS9, MTIF2, MYCBP2, NDUFA12, NDUFA2, NDUFA5, NDUFA6, NDUFA7, NDUFA9, NDUFAF3, NDUFAF4, NDUFS1, NDUFS2, NDUFS3, NDUFS4, NDUFS6, NDUFS7, NDUFS8, NDUFV1, NDUFV2, NDUFV3, NFS1, NIPSNAP1, NME4, OGDH, PDHA1, POLDIP2, PTCD3, PYCR1, PYCR2, RRP1, SHMT2, SLIRP, SRSF4, TACO1, TIMM44, TRA2B, TRMT10C, C10orf2, UQCC1, VARS2, VWA8, SSBP1, TBRG4, TSFM, AARS2, COX8A, CS, DNMT1, SHANK3, FAM120A, SRSF3, BANP, HNRNPU, HNRNPCL1, ZNF777, PRR3, PTCD1, RSL1D1, IGF2BP3, LIN28B, NUPL2, HNRNPC, ZBTB47, GLI4, MSI1, SPSB4, MAP7, ABT1, YBX2, RBMS2, HNRNPUL2, YBX1, RPL26, CBX6, RBM47, FBXO45, ZNF574, RPL31, NEIL1, ZNF346, SRSF6, MCAT, LIN28A, SRSF7, YARS2, RAP1B, Bbs5,

Top

Mutations

Clinically associated variants from ClinVar.

Gene	Chr	Position	RefSeq	VarSeq	RefSeeq	VarType	Pathogenic	Disease	VarInfo
NGRN	chr15	90809628	A	C	single_nucleotide_variant	Benign	not_provided	SO:0001619\|non-coding_transcript_variant,SO:0001819\|synonymous_variant	SO:0001619\|non-coding_transcript_variant,SO:0001819\|synonymous_variant
NGRN	chr15	90814559	A	G	single_nucleotide_variant	Benign	not_provided	SO:0001583\|missense_variant,SO:0001619\|non-coding_transcript_variant	SO:0001583\|missense_variant,SO:0001619\|non-coding_transcript_variant
NGRN	chr15	90814944	A	G	single_nucleotide_variant	Benign	not_provided	SO:0001583\|missense_variant,SO:0001619\|non-coding_transcript_variant	SO:0001583\|missense_variant,SO:0001619\|non-coding_transcript_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
NGRN	UVM	chr15	90814997	90814997	G	A	Missense_Mutation	p.G285R	3
NGRN	PAAD	chr15	90809089	90809089	G	A	Missense_Mutation	p.E49K	3
NGRN	CESC	chr15	90814997	90814997	G	T	Missense_Mutation		3
NGRN	STAD	chr15	90809018	90809018	G	-	Frame_Shift_Del	p.R25fs	3
NGRN	SKCM	chr15	90814604	90814604	C	T	Missense_Mutation	p.R154W	3
NGRN	UCEC	chr15	90814781	90814781	G	T	Nonsense_Mutation	p.E213*	2
NGRN	KIRC	chr15	90815014	90815014	A	G	Silent	p.R290R	2
NGRN	PAAD	chr15	90814847	90814847	C	T	Nonsense_Mutation	p.Q235*	2
NGRN	LIHC	chr15	90814873	90814873	C	-	Frame_Shift_Del	p.S243fs	2
NGRN	SARC	chr15	90814896	90814896	C	T	Missense_Mutation	p.A251V	2
NGRN	ESCA	chr15	90814887	90814887	G	A	Missense_Mutation	p.G248D	2
NGRN	SKCM	chr15	90814640	90814640	G	A	Missense_Mutation	p.G166S	2
NGRN	UCEC	chr15	90809556	90809556	G	T	Missense_Mutation	p.Q67H	2
NGRN	LUAD	chr15	90808965	90808965	C	T	Silent	p.L7L	2
NGRN	BLCA	chr15	90808999	90808999	C	T	Missense_Mutation	p.R19C	2
NGRN	UCEC	chr15	90814700	90814700	A	T	Missense_Mutation	p.N186Y	2
NGRN	CESC	chr15	90814623	90814623	C	T	Missense_Mutation		1
NGRN	SKCM	chr15	90815008	90815008	G	C	Silent	p.L288L	1
NGRN	ESCA	chr15	90814633	90814633	C	A	Silent	p.L163L	1
NGRN	PAAD	chr15	90814847	90814847	C	T	Nonsense_Mutation	p.Q235X	1
NGRN	CESC	chr15	90814635	90814635	C	T	Missense_Mutation		1
NGRN	SKCM	chr15	90809060	90809060	C	T	Missense_Mutation	p.P39L	1
NGRN	ESCA	chr15	90814633	90814633	C	A	Silent		1
NGRN	CESC	chr15	90814647	90814647	C	T	Missense_Mutation		1
NGRN	SKCM	chr15	90814984	90814984	C	T	Silent	p.F280F	1
NGRN	SKCM	chr15	90814499	90814499	C	A	Silent	p.R119R	1
NGRN	KIRC	chr15	90815002	90815005	CTTC	-	Frame_Shift_Del	p.286_287del	1
NGRN	PAAD	chr15	90809089	90809089	G	A	Missense_Mutation		1
NGRN	CESC	chr15	90814635	90814635	C	T	Missense_Mutation	p.P164L	1
NGRN	STAD	chr15	90809018	90809018	G	-	Frame_Shift_Del		1
NGRN	KIRC	chr15	90815002	90815005	CTTC	-	Frame_Shift_Del	p.NF286fs	1
NGRN	READ	chr15	90814775	90814775	A	C	Missense_Mutation	p.N211H	1
NGRN	CESC	chr15	90814647	90814647	C	T	Missense_Mutation	p.S168F	1
NGRN	LIHC	chr15	90808975	90808984	GGGCGCGTTT	-	Frame_Shift_Del	p.10_13del	1
NGRN	READ	chr15	90814984	90814984	C	A	Missense_Mutation	p.F280L	1
NGRN	STAD	chr15	90808954	90808954	A	G	Missense_Mutation	p.T4A	1
NGRN	COAD	chr15	90809628	90809628	A	C	Silent	p.I91I	1
NGRN	SARC	chr15	90814896	90814896	C	T	Missense_Mutation		1
NGRN	COAD	chr15	90815011	90815011	C	T	Silent	p.Y289Y	1
NGRN	TGCT	chr15	90814664	90814664	C	T	Missense_Mutation		1
NGRN	LIHC	chr15	90814971	90814971	G	-	Frame_Shift_Del	p.R276fs	1
NGRN	THCA	chr15	90814516	90814516	C	A	Missense_Mutation	p.S124R	1
NGRN	LIHC	chr15	90814831	90814831	T	-	Frame_Shift_Del	p.G229fs	1
NGRN	BLCA	chr15	90808999	90808999	C	T	Missense_Mutation		1
NGRN	ESCA	chr15	90814633	90814633	C	A	Silent	p.L163	1
NGRN	ESCA	chr15	90814887	90814887	G	A	Missense_Mutation		1
NGRN	LUSC	chr15	90814723	90814723	G	T	Silent	p.V193V	1

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

Fusion gene breakpoints (product of the structural variants (SVs)) across NGRN
* 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
91141	ESCA	TCGA-R6-A6XQ	ATP6V0A1	chr17	40666478	+	NGRN	chr15	90814419	+
91141	N/A	BI492330	ETV6	chr12	11887453	-	NGRN	chr15	90815440	-
91141	ESCA	TCGA-JY-A6FH	IQGAP1	chr15	90934105	+	NGRN	chr15	90814419	+
91141	ESCA	TCGA-JY-A6FH	IQGAP1	chr15	90934105	+	NGRN	chr15	90814420	+
99621	N/A	BI056768	NGRN	chr15	90815194	-	ANK3	chr10	61788458	-
59066	Non-Cancer	TCGA-K1-A3PO-11A	NGRN	chr15	90809630	+	C15orf38	chr15	90454051	-
99140	BRCA	TCGA-E9-A1NF-01A	NGRN	chr15	90809522	+	IQGAP1	chr15	90969497	-
91141	N/A	AA603397	NGRN	chr15	90814938	+	NGRN	chr15	90814787	-
96570	N/A	BQ027803	NGRN	chr15	90815292	-	PID1	chr2	229889683	+
98644	N/A	BI036020	NGRN	chr15	90815442	+	RAB1B	chr11	66044329	+
102790	UCEC	TCGA-AJ-A3EJ-01A	NGRN	chr15	90809630	+	ZNF710	chr15	90622892	+
59066	STAD	TCGA-BR-A4QI	NGRN	chr15	90809630	+	ZNF774	chr15	90897873	+
91141	N/A	EC093886	PRKY	chrY	7195226	-	NGRN	chr15	90815443	-
91141	N/A	AY516255	SSX5	chrX	48051072	+	NGRN	chr15	90810093	-
91148	N/A	BI056676	TLK1	chr2	172087784	+	NGRN	chr15	90814884	+

Top

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

Top

Translation factor and Gender

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

Cancer type	Translation factor	pval	adj.p
HNSC	NGRN	0.00378121070744141	0.11

Top

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
LUAD	NGRN	0.0308652460876556	0.9
THCA	NGRN	0.0106953617683453	0.32
KIRC	NGRN	0.00108934490810086	0.035
KIRP	NGRN	0.00205978095239513	0.064
PRAD	NGRN	1.18949806169448e-05	0.00039
THYM	NGRN	0.0366914854177624	1

Top

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

Top

Related Diseases

Diseases associated with this translation factor.
(DisGeNet 4.0)

Disease ID

Disease Name

# PubMeds

Disease source