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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 35604

FusionGeneSummary for SPCS1_NTM

check button Fusion gene summary
Fusion gene informationFusion gene name: SPCS1_NTM
Fusion gene ID: 35604
HgeneTgene
Gene symbol

SPCS1

NTM

Gene ID

28972

50863

Gene namesignal peptidase complex subunit 1neurotrimin
SynonymsHSPC033|SPC1|SPC12|YJR010C-ACEPU-1|HNT|IGLON2|NTRI
Cytomap

3p21.1

11q25

Type of geneprotein-codingprotein-coding
Descriptionsignal peptidase complex subunit 1SPase 12 kDa subunitmicrosomal signal peptidase 12 kDa subunitsignal peptidase 12kDasignal peptidase complex 12 kDa subunitsignal peptidase complex subunit 1 homologneurotriminIgLON family member 2
Modification date2018052320180522
UniProtAcc

Q9Y6A9

Q9P121

Ensembl transtripts involved in fusion geneENST00000423431, ENST00000233025, 
ENST00000602728, 		ENST00000374791, 
ENST00000539799, ENST00000427481, 
ENST00000374786, ENST00000425719, 
ENST00000374784, ENST00000474900, 
Fusion gene scores* DoF score3 X 3 X 1=92 X 3 X 2=12
# samples 32
** MAII scorelog2(3/9*10)=1.73696559416621
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(2/12*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: SPCS1 [Title/Abstract] AND NTM [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID

check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChiTaRS3.1AI221915SPCS1chr3

52742065

-NTMchr11

131404621

+
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

check button Open reading frame (ORF) analsis of fusion genes 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
3UTR-intronENST00000423431ENST00000374791SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000423431ENST00000539799SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000423431ENST00000427481SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000423431ENST00000374786SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000423431ENST00000425719SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000423431ENST00000374784SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000423431ENST00000474900SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000233025ENST00000374791SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000233025ENST00000539799SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000233025ENST00000427481SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000233025ENST00000374786SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000233025ENST00000425719SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000233025ENST00000374784SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000233025ENST00000474900SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000602728ENST00000374791SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000602728ENST00000539799SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000602728ENST00000427481SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000602728ENST00000374786SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000602728ENST00000425719SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000602728ENST00000374784SPCS1chr3

52742065

-NTMchr11

131404621

+
3UTR-intronENST00000602728ENST00000474900SPCS1chr3

52742065

-NTMchr11

131404621

+

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FusionProtFeatures for SPCS1_NTM


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SPCS1

Q9Y6A9

NTM

Q9P121

Component of the microsomal signal peptidase complexwhich removes signal peptides from nascent proteins as they aretranslocated into the lumen of the endoplasmic reticulum.{ECO:0000250}. Neural cell adhesion molecule.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

.

* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for SPCS1_NTM


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for SPCS1_NTM


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page

.

check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for SPCS1_NTM


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for SPCS1_NTM


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneNTMC0041696Unipolar Depression1PSYGENET
TgeneNTMC1269683Major Depressive Disorder1PSYGENET