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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: 37354

FusionGeneSummary for TBC1D1_LIMCH1

check button Fusion gene summary
Fusion gene informationFusion gene name: TBC1D1_LIMCH1
Fusion gene ID: 37354
HgeneTgene
Gene symbol

TBC1D1

LIMCH1

Gene ID

23216

22998

Gene nameTBC1 domain family member 1LIM and calponin homology domains 1
SynonymsTBC|TBC1LIMCH1A|LMO7B
Cytomap

4p14

4p13

Type of geneprotein-codingprotein-coding
DescriptionTBC1 domain family member 1TBC1 (tre-2/USP6, BUB2, cdc16) domain family, member 1LIM and calponin homology domains-containing protein 1
Modification date2018052320180519
UniProtAcc

Q86TI0

Q9UPQ0

Ensembl transtripts involved in fusion geneENST00000508802, ENST00000261439, 
ENST00000402522, ENST00000407365, 
ENST00000513024, ENST00000509638, 
ENST00000508501, ENST00000512946, 
ENST00000313860, ENST00000512632, 
ENST00000512820, ENST00000503057, 
ENST00000511496, ENST00000514096, 
ENST00000509277, ENST00000396595, 
ENST00000381753, ENST00000509454, 
ENST00000515785, 
Fusion gene scores* DoF score7 X 6 X 5=21010 X 10 X 6=600
# samples 710
** MAII scorelog2(7/210*10)=-1.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(10/600*10)=-2.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TBC1D1 [Title/Abstract] AND LIMCH1 [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
TCGARVSKCMTCGA-FS-A1ZJ-06ATBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
* 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
5UTR-3CDSENST00000508802ENST00000513024TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000509638TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000508501TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000512946TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000313860TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000512632TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000512820TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000503057TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000511496TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000514096TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000509277TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000396595TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000381753TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000509454TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000508802ENST00000515785TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-3CDSENST00000261439ENST00000513024TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000509638TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000508501TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000512946TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000313860TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000512632TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000512820TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000503057TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000511496TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000514096TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000509277TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000396595TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000381753TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000509454TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000261439ENST00000515785TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-3CDSENST00000402522ENST00000513024TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000509638TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000508501TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000512946TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000313860TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000512632TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000512820TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000503057TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000511496TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000514096TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000509277TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000396595TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000381753TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000509454TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
5UTR-intronENST00000402522ENST00000515785TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-3CDSENST00000407365ENST00000513024TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000509638TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000508501TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000512946TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000313860TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000512632TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000512820TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000503057TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000511496TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000514096TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000509277TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000396595TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000381753TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000509454TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+
intron-intronENST00000407365ENST00000515785TBC1D1chr4

37892969

+LIMCH1chr4

41652410

+

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FusionProtFeatures for TBC1D1_LIMCH1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
TBC1D1

Q86TI0

LIMCH1

Q9UPQ0

May act as a GTPase-activating protein for Rab familyprotein(s). May play a role in the cell cycle and differentiationof various tissues. Involved in the trafficking and translocationof GLUT4-containing vesicles and insulin-stimulated glucose uptakeinto cells (By similarity). {ECO:0000250}.

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 TBC1D1_LIMCH1


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 TBC1D1_LIMCH1


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
TBC1D1YWHAG, MAP1LC3A, GABARAPL1, BARD1, ROR1, YWHAE, SMAD2, YWHAB, HSPB1, ZFC3H1, KCTD3, KIF13B, ZBTB21, KSR1, CGN, GIGYF1, CBY1LIMCH1ELAVL1, SH3KBP1, APP, HUWE1, CUTC, DIABLO, GABPA, KPNA1, NPM1, TRMT61A, RPA3, RPA2, RPA1, OTUD6B, KLHL15, RFC2, YES1, NAGK, GNB4, UNK, NTRK1, CEP120, ODF2, XPO1, CAPZA2, CDK2, MYH9, PPP1CB, IQGAP1, ANLN, MYO19, MYO18A, CDH1, TRIM25


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 TBC1D1_LIMCH1


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 TBC1D1_LIMCH1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneTBC1D1C0028754Obesity3CTD_human
TgeneLIMCH1C0236969Substance-Related Disorders1CTD_human
TgeneLIMCH1C0345967Malignant mesothelioma1CTD_human