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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: 20771

FusionGeneSummary for MANBA_LIMCH1

check button Fusion gene summary
Fusion gene informationFusion gene name: MANBA_LIMCH1
Fusion gene ID: 20771
HgeneTgene
Gene symbol

MANBA

LIMCH1

Gene ID

4126

22998

Gene namemannosidase betaLIM and calponin homology domains 1
SynonymsMANB1LIMCH1A|LMO7B
Cytomap

4q24

4p13

Type of geneprotein-codingprotein-coding
Descriptionbeta-mannosidasebeta-mannosidase Alysosomal beta A mannosidasemannanasemannasemannosidase, beta A, lysosomalLIM and calponin homology domains-containing protein 1
Modification date2018052320180519
UniProtAcc

O00462

Q9UPQ0

Ensembl transtripts involved in fusion geneENST00000226578, ENST00000505239, 
ENST00000513024, ENST00000509638, 
ENST00000508501, ENST00000512946, 
ENST00000313860, ENST00000512632, 
ENST00000512820, ENST00000503057, 
ENST00000511496, ENST00000514096, 
ENST00000509277, ENST00000396595, 
ENST00000381753, ENST00000509454, 
ENST00000515785, 
Fusion gene scores* DoF score1 X 1 X 1=110 X 10 X 6=600
# samples 110
** MAII scorelog2(1/1*10)=3.32192809488736log2(10/600*10)=-2.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: MANBA [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
TCGARVLUSCTCGA-22-5481-01AMANBAchr4

103681875

-LIMCH1chr4

41600937

+
* 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
5CDS-5UTRENST00000226578ENST00000513024MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000226578ENST00000509638MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000226578ENST00000508501MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000226578ENST00000512946MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000226578ENST00000313860MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000226578ENST00000512632MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000226578ENST00000512820MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000226578ENST00000503057MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000226578ENST00000511496MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000226578ENST00000514096MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000226578ENST00000509277MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000226578ENST00000396595MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000226578ENST00000381753MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000226578ENST00000509454MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000226578ENST00000515785MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000513024MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000509638MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000508501MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000512946MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000313860MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000512632MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000512820MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000503057MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-5UTRENST00000505239ENST00000511496MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000505239ENST00000514096MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000505239ENST00000509277MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000505239ENST00000396595MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000505239ENST00000381753MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000505239ENST00000509454MANBAchr4

103681875

-LIMCH1chr4

41600937

+
5CDS-intronENST00000505239ENST00000515785MANBAchr4

103681875

-LIMCH1chr4

41600937

+

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FusionProtFeatures for MANBA_LIMCH1


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

O00462

LIMCH1

Q9UPQ0

Exoglycosidase that cleaves the single beta-linkedmannose residue from the non-reducing end of all N-linkedglycoprotein oligosaccharides.

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 MANBA_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 MANBA_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
MANBAFBXO6, KLK11, TAZ, KIRREL2, CLEC18A, DNASE2B, PTPRK, SIAE, LIPH, GPHA2, SCGB1D1, FAM19A3, DEFA1, C4orf26, PRSS37, ADAMTS4, LYZL2, LYZL1, TRIM25LIMCH1ELAVL1, 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 MANBA_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 MANBA_LIMCH1


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