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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: 19722

FusionGeneSummary for LIMCH1_C11orf58

check button Fusion gene summary
Fusion gene informationFusion gene name: LIMCH1_C11orf58
Fusion gene ID: 19722
HgeneTgene
Gene symbol

LIMCH1

C11orf58

Gene ID

22998

10944

Gene nameLIM and calponin homology domains 1chromosome 11 open reading frame 58
SynonymsLIMCH1A|LMO7BIMAGE145052|SMAP
Cytomap

4p13

11p15.2

Type of geneprotein-codingprotein-coding
DescriptionLIM and calponin homology domains-containing protein 1small acidic protein
Modification date2018051920180519
UniProtAcc

Q9UPQ0

Ensembl transtripts involved in fusion geneENST00000513024, ENST00000509638, 
ENST00000508501, ENST00000512946, 
ENST00000313860, ENST00000512632, 
ENST00000512820, ENST00000503057, 
ENST00000511496, ENST00000514096, 
ENST00000509277, ENST00000396595, 
ENST00000381753, ENST00000509454, 
ENST00000515785, 		ENST00000228136, 
ENST00000422258, ENST00000527893, 
ENST00000525684, 
Fusion gene scores* DoF score10 X 8 X 6=4803 X 3 X 2=18
# samples 133
** MAII scorelog2(13/480*10)=-1.88452278258006
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: LIMCH1 [Title/Abstract] AND C11orf58 [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
ChiTaRS3.1BF929909LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
* 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-intronENST00000513024ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000513024ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000513024ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000513024ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509638ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509638ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509638ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509638ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000508501ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000508501ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000508501ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000508501ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512946ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512946ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512946ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512946ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000313860ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000313860ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000313860ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000313860ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512632ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512632ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512632ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512632ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512820ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512820ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512820ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000512820ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000503057ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000503057ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000503057ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000503057ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000511496ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000511496ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000511496ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000511496ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000514096ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000514096ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000514096ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000514096ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509277ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509277ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509277ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509277ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000396595ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000396595ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000396595ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000396595ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000381753ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000381753ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000381753ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
3UTR-intronENST00000381753ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509454ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509454ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509454ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000509454ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000515785ENST00000228136LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000515785ENST00000422258LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000515785ENST00000527893LIMCH1chr4

41700588

-C11orf58chr11

16774200

+
intron-intronENST00000515785ENST00000525684LIMCH1chr4

41700588

-C11orf58chr11

16774200

+

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FusionProtFeatures for LIMCH1_C11orf58


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LIMCH1

Q9UPQ0

C11orf58

Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}.

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 LIMCH1_C11orf58


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 LIMCH1_C11orf58


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


Top

RelatedDrugs for LIMCH1_C11orf58


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 LIMCH1_C11orf58


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLIMCH1C0236969Substance-Related Disorders1CTD_human
HgeneLIMCH1C0345967Malignant mesothelioma1CTD_human