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Center for Computational Systems Medicine
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Gene summary

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Gene structures and expression levels

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Exon skipping events with PSIs in TCGA

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Exon skipping events with PSIs in GTEx

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Open reading frame (ORF) annotation in the exon skipping event

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Exon skipping events in the canonical protein sequence

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SNVs in the skipped exons with depth of coverage

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Splicing Quantitative Trait Loci (sQTLs) in the skipped exons

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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon

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Related drugs with this gene

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Related diseases with this gene

Gene summary for NMT2

check button Gene summary
Gene informationGene symbol

NMT2

Gene ID

9397

Gene nameN-myristoyltransferase 2
Synonyms-
Cytomap

10p13

Type of geneprotein-coding
Descriptionglycylpeptide N-tetradecanoyltransferase 2NMT 2glycylpeptide N-tetradecanoyltransferase 2 variant 3glycylpeptide N-tetradecanoyltransferase 2 variant 4myristoyl-CoA:protein N-myristoyltransferase 2peptide N-myristoyltransferase 2type II N-myristoylt
Modification date20180523
UniProtAcc

O60551

ContextPubMed: NMT2 [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract]
- Title (PMID)

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
NMT2

GO:0018008

N-terminal peptidyl-glycine N-myristoylation

25255805


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Exon skipping events across known transcript of Ensembl for NMT2 from UCSC genome browser

check buttonSkipped 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.
all structure

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Gene isoform structures and expression levels for NMT2

check button Expression levels of gene isoforms across TCGA.
gencode gene structure

check button Expression levels of gene isoforms across GTEx.
gencode gene structure


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Exon skipping events with PSIs in TCGA for NMT2

check button Information of exkip skipping event in TCGA.
Exon skip IDchrExons involved in exon skippingSkipped exonENSGENSTs
exon_skip_479821015151097:15151214:15151700:15151838:15154794:1515496215151700:15151838ENSG00000152465.13ENST00000540259.1,ENST00000535341.1,ENST00000378150.1,ENST00000378165.4
exon_skip_479831015151700:15151838:15154794:15154962:15161341:1516138415154794:15154962ENSG00000152465.13ENST00000540259.1,ENST00000486786.1,ENST00000535341.1,ENST00000378150.1,ENST00000378165.4
exon_skip_479851015154794:15154962:15161341:15161512:15170348:1517045715161341:15161512ENSG00000152465.13ENST00000540259.1,ENST00000535341.1,ENST00000378150.1,ENST00000378165.4
exon_skip_479871015170348:15170457:15172140:15172311:15174815:1517493215172140:15172311ENSG00000152465.13ENST00000540259.1,ENST00000535341.1,ENST00000378150.1,ENST00000378165.4
exon_skip_479881015177272:15177417:15182985:15183028:15183420:1518355315182985:15183028ENSG00000152465.13ENST00000535341.1,ENST00000378150.1
exon_skip_479901015177272:15177417:15183420:15183556:15210501:1521062715183420:15183556ENSG00000152465.13ENST00000378165.4

check button PSI values of skipped exons in TCGA.
psi tcga

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Exon skipping events with PSIs in GTEx for NMT2

check button Information of exkip skipping event in GTEx
Exon skip IDchrExons involved in exon skippingSkipped exonENSGENSTs
exon_skip_479821015151097:15151214:15151700:15151838:15154794:1515496215151700:15151838ENSG00000152465.13ENST00000378165.4,ENST00000378150.1,ENST00000540259.1,ENST00000535341.1
exon_skip_479831015151700:15151838:15154794:15154962:15161341:1516138415154794:15154962ENSG00000152465.13ENST00000486786.1,ENST00000378165.4,ENST00000378150.1,ENST00000540259.1,ENST00000535341.1
exon_skip_479851015154794:15154962:15161341:15161512:15170348:1517045715161341:15161512ENSG00000152465.13ENST00000378165.4,ENST00000378150.1,ENST00000540259.1,ENST00000535341.1
exon_skip_479871015170348:15170457:15172140:15172311:15174815:1517493215172140:15172311ENSG00000152465.13ENST00000378165.4,ENST00000378150.1,ENST00000540259.1,ENST00000535341.1
exon_skip_479881015177272:15177417:15182985:15183028:15183420:1518355315182985:15183028ENSG00000152465.13ENST00000378150.1,ENST00000535341.1
exon_skip_479901015177272:15177417:15183420:15183556:15210501:1521062715183420:15183556ENSG00000152465.13ENST00000378165.4

check button PSI values of skipped exons in GTEx.
psi gtex

* Skipped exon sequences.

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Open reading frame (ORF) annotation in the exon skipping event for NMT2

check button Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST000003781651518342015183556Frame-shift
ENST000003781651515170015151838In-frame
ENST000003781651515479415154962In-frame
ENST000003781651516134115161512In-frame
ENST000003781651517214015172311In-frame

check button Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST000003781651518342015183556Frame-shift
ENST000003781651515170015151838In-frame
ENST000003781651515479415154962In-frame
ENST000003781651516134115161512In-frame
ENST000003781651517214015172311In-frame

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Infer the effects of exon skipping event on protein functional features for NMT2

check button Exon skipping at the protein sequence level and followed lost functional features.
* Click on the image to enlarge it in a new window.
prot feature distribution

check button Loci of skipped exons in TCGA across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST0000037816529244981517214015172311801971240296
ENST000003781652924498151613411516151210811251333390
ENST000003781652924498151547941515496212521419390446
ENST000003781652924498151517001515183814201557446492

check button Loci of skipped exons in GTEx across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST0000037816529244981517214015172311801971240296
ENST000003781652924498151613411516151210811251333390
ENST000003781652924498151547941515496212521419390446
ENST000003781652924498151517001515183814201557446492

check button Lost protein functional features of individual exon skipping events in TCGA.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature
O60551240296240252Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551240296281287Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551240296293303Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O605512402961498ChainID=PRO_0000064226;Note=Glycylpeptide N-tetradecanoyltransferase 2
O60551240296254256HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551240296262274HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551240296250252RegionNote=Myristoyl-CoA binding;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:25255805;Dbxref=PMID:25255805
O60551240296258262RegionNote=Myristoyl-CoA binding;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:25255805;Dbxref=PMID:25255805
O60551240296275277TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390340342Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390362366Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390384390Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O605513333901498ChainID=PRO_0000064226;Note=Glycylpeptide N-tetradecanoyltransferase 2
O60551333390345347HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390348358HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390359361HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390370377HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390381383TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446384390Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446392394Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446396404Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446407409Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446416418Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446420423Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446427431Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O605513904461498ChainID=PRO_0000064226;Note=Glycylpeptide N-tetradecanoyltransferase 2
O60551390446433445HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446446448TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492450456Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492470482Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O605514464921498ChainID=PRO_0000064226;Note=Glycylpeptide N-tetradecanoyltransferase 2
O60551446492460462HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492490492HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492446448TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492463468TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X


check button Lost protein functional features of individual exon skipping events in GTEx.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature
O60551240296240252Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551240296281287Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551240296293303Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O605512402961498ChainID=PRO_0000064226;Note=Glycylpeptide N-tetradecanoyltransferase 2
O60551240296254256HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551240296262274HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551240296250252RegionNote=Myristoyl-CoA binding;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:25255805;Dbxref=PMID:25255805
O60551240296258262RegionNote=Myristoyl-CoA binding;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:25255805;Dbxref=PMID:25255805
O60551240296275277TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390340342Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390362366Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390384390Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O605513333901498ChainID=PRO_0000064226;Note=Glycylpeptide N-tetradecanoyltransferase 2
O60551333390345347HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390348358HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390359361HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390370377HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551333390381383TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446384390Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446392394Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446396404Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446407409Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446416418Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446420423Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446427431Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O605513904461498ChainID=PRO_0000064226;Note=Glycylpeptide N-tetradecanoyltransferase 2
O60551390446433445HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551390446446448TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492450456Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492470482Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O605514464921498ChainID=PRO_0000064226;Note=Glycylpeptide N-tetradecanoyltransferase 2
O60551446492460462HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492490492HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492446448TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X
O60551446492463468TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4C2X


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SNVs in the skipped exons for NMT2

check button - Lollipop plot for presenting exon skipping associated SNVs.
* Click on the image to enlarge it in a new window.
lollipop

check button - Differential PSIs between mutated versus non-mutated samples.

check button - Non-synonymous mutations located in the skipped exons in TCGA.
Cancer typeSampleESIDSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange
KIRCTCGA-A3-3378-01exon_skip_47982
15151701151518381515177915151779Frame_Shift_DelT-p.K466fs
STADTCGA-CG-5723-01exon_skip_47985
15161342151615121516137415161374Frame_Shift_DelG-p.R380fs
LIHCTCGA-DD-A3A0-01exon_skip_47985
15161342151615121516138915161389Frame_Shift_DelG-p.H375fs
STADTCGA-BR-4368-01exon_skip_47990
15183421151835561518350015183500Frame_Shift_DelT-p.K56fs
COADTCGA-AA-3713-01exon_skip_47990
15183421151835561518349915183500Frame_Shift_Ins-Tp.K56fs
BRCATCGA-A2-A0YM-01exon_skip_47982
15151701151518381515173415151734Nonsense_MutationGTp.Y481*
LUADTCGA-78-7542-01exon_skip_47982
15151701151518381515183815151838Nonsense_MutationTAp.K447*
BLCATCGA-G2-A3VY-01exon_skip_47983
15154795151549621515486515154865Nonsense_MutationGCp.S423*
PAADTCGA-IB-7651-01exon_skip_47985
15161342151615121516145815161458Nonsense_MutationGAp.R352*
PAADTCGA-IB-7651-01exon_skip_47985
15161342151615121516145815161458Nonsense_MutationGAp.R352X
UCECTCGA-B5-A0JY-01exon_skip_47985
15161342151615121516145815161458Nonsense_MutationGAp.R352*
SKCMTCGA-EE-A29E-06exon_skip_47983
15154795151549621515496315154963Splice_SiteCT.

check button - Depth of coverage in the three exons composing exon skipping event
Depth of coverage in three exonsMutation description

check button - Non-synonymous mutations located in the skipped exons in CCLE.
SampleSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange
JHUEM7_ENDOMETRIUM15161342151615121516145215161452Missense_MutationACp.L354V
BICR18_UPPER_AERODIGESTIVE_TRACT15161342151615121516146415161464Missense_MutationACp.S350A
GP5D_LARGE_INTESTINE15172141151723111517214815172148Missense_MutationTCp.T295A
HT115_LARGE_INTESTINE15172141151723111517215115172151Missense_MutationCTp.A294T
NB13_AUTONOMIC_GANGLIA15183421151835561518346715183467Missense_MutationTAp.D67V
DG75_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE15183421151835561518347715183477Missense_MutationTCp.T64A
SNU407_LARGE_INTESTINE15183421151835561518352515183525Missense_MutationTCp.K48E
NCIH1838_LUNG15183421151835561518352615183526Missense_MutationCGp.K47N
SNUC2A_LARGE_INTESTINE15172141151723111517223215172232Nonsense_MutationGAp.R267*
HCT15_LARGE_INTESTINE15172141151723111517223215172232Nonsense_MutationGAp.R267*
SNUC2B_LARGE_INTESTINE15172141151723111517223215172232Nonsense_MutationGAp.R267*
CW2_LARGE_INTESTINE15151701151518381515170115151702Splice_Site-Tp.K492fs
NCIH2172_LUNG15154795151549621515479515154795Splice_SiteCTp.S446S

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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for NMT2

check button sQTL information located at the skipped exons.
Exon skip IDChromosomeThree exonsSkippped exonENSTCancer typeSNP idLocationDNA change (ref/var)P-value

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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for NMT2


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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for NMT2


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RelatedDrugs for NMT2

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.0 2018-04-02)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for NMT2

check button Diseases associated with this gene.
(DisGeNet 4.0)
GeneDisease IDDisease name# pubmedsSource
NMT2C0029927Ovarian Cysts1CTD_human