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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: 19428

FusionGeneSummary for LAMTOR4_SHC4

check button Fusion gene summary
Fusion gene informationFusion gene name: LAMTOR4_SHC4
Fusion gene ID: 19428
HgeneTgene
Gene symbol

LAMTOR4

SHC4

Gene ID

389541

399694

Gene namelate endosomal/lysosomal adaptor, MAPK and MTOR activator 4SHC adaptor protein 4
SynonymsC7orf59RaLP|SHCD
Cytomap

7q22.1

15q21.1

Type of geneprotein-codingprotein-coding
Descriptionragulator complex protein LAMTOR4UPF0539 protein C7orf59late endosomal/lysosomal adaptor and MAPK and MTOR activator 4SHC-transforming protein 4SH2 domain protein C4SHC (Src homology 2 domain containing) family, member 4SHC-transforming protein DhShcDrai-like proteinsrc homology 2 domain-containing-transforming protein C4
Modification date2018052320180523
UniProtAcc

Q0VGL1

Q6S5L8

Ensembl transtripts involved in fusion geneENST00000341942, ENST00000441173, 
ENST00000468582, 
ENST00000332408, 
ENST00000396535, ENST00000537958, 
Fusion gene scores* DoF score5 X 6 X 2=603 X 3 X 2=18
# samples 63
** MAII scorelog2(6/60*10)=0log2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: LAMTOR4 [Title/Abstract] AND SHC4 [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
ChiTaRS3.1BU928399LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
* 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-intronENST00000341942ENST00000332408LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
3UTR-intronENST00000341942ENST00000396535LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
3UTR-intronENST00000341942ENST00000537958LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
3UTR-intronENST00000441173ENST00000332408LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
3UTR-intronENST00000441173ENST00000396535LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
3UTR-intronENST00000441173ENST00000537958LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
3UTR-intronENST00000468582ENST00000332408LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
3UTR-intronENST00000468582ENST00000396535LAMTOR4chr7

99751600

+SHC4chr15

49170715

+
3UTR-intronENST00000468582ENST00000537958LAMTOR4chr7

99751600

+SHC4chr15

49170715

+

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FusionProtFeatures for LAMTOR4_SHC4


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LAMTOR4

Q0VGL1

SHC4

Q6S5L8

As part of the Ragulator complex it is involved in aminoacid sensing and activation of mTORC1, a signaling complexpromoting cell growth in response to growth factors, energylevels, and amino acids. Activated by amino acids through amechanism involving the lysosomal V-ATPase, the Ragulatorfunctions as a guanine nucleotide exchange factor activating thesmall GTPases Rag. Activated Ragulator and Rag GTPases function asa scaffold recruiting mTORC1 to lysosomes where it is in turnactivated. {ECO:0000269|PubMed:22980980}. Activates both Ras-dependent and Ras-independentmigratory pathways in melanomas. Contributes to the early phasesof agrin-induced tyrosine phosphorylation of CHRNB1.{ECO:0000269|PubMed:17409413}.

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 LAMTOR4_SHC4


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 LAMTOR4_SHC4


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 LAMTOR4_SHC4


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 LAMTOR4_SHC4


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource