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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: 5458

FusionGeneSummary for CAPN2_LAPTM4A

check button Fusion gene summary
Fusion gene informationFusion gene name: CAPN2_LAPTM4A
Fusion gene ID: 5458
HgeneTgene
Gene symbol

CAPN2

LAPTM4A

Gene ID

824

9741

Gene namecalpain 2lysosomal protein transmembrane 4 alpha
SynonymsCANP2|CANPL2|CANPml|mCANPHUMORF13|LAPTM4|MBNT|Mtrp
Cytomap

1q41

2p24.1

Type of geneprotein-codingprotein-coding
Descriptioncalpain-2 catalytic subunitCANP 2M-calpaincalcium-activated neutral proteinase 2calpain 2, (m/II) large subunitcalpain 2, large [catalytic] subunitcalpain 2, large subunitcalpain M-typecalpain, large polypeptide L2millimolar-calpainlysosomal-associated transmembrane protein 4Agolgi 4-transmembrane-spanning transporter MTPlysosomal-associated protein transmembrane 4 alphamembrane nucleoside transporter
Modification date2018052320180523
UniProtAcc

P17655

Q15012

Ensembl transtripts involved in fusion geneENST00000433674, ENST00000295006, 
ENST00000474026, 
ENST00000175091, 
Fusion gene scores* DoF score6 X 6 X 4=1443 X 3 X 1=9
# samples 63
** MAII scorelog2(6/144*10)=-1.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(3/9*10)=1.73696559416621
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: CAPN2 [Title/Abstract] AND LAPTM4A [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
HgeneCAPN2

GO:0051603

proteolysis involved in cellular protein catabolic process

12150984


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
ChiTaRS3.1BQ308066CAPN2chr1

223940501

-LAPTM4Achr2

20240665

+
* 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
intron-3CDSENST00000433674ENST00000175091CAPN2chr1

223940501

-LAPTM4Achr2

20240665

+
intron-3CDSENST00000295006ENST00000175091CAPN2chr1

223940501

-LAPTM4Achr2

20240665

+
intron-3CDSENST00000474026ENST00000175091CAPN2chr1

223940501

-LAPTM4Achr2

20240665

+

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FusionProtFeatures for CAPN2_LAPTM4A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CAPN2

P17655

LAPTM4A

Q15012

Calcium-regulated non-lysosomal thiol-protease whichcatalyzes limited proteolysis of substrates involved incytoskeletal remodeling and signal transduction. Proteolyticallycleaves MYOC at 'Arg-226' (PubMed:17650508). Proteolyticallycleaves CPEB3 following neuronal stimulation which abolishes CPEB3translational repressor activity, leading to translation of CPEB3target mRNAs (By similarity). {ECO:0000250|UniProtKB:O08529,ECO:0000269|PubMed:17650508}. May function in the transport of nucleosides and/ornucleoside derivatives between the cytosol and the lumen of anintracellular membrane-bound compartment. {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 CAPN2_LAPTM4A


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 CAPN2_LAPTM4A


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 CAPN2_LAPTM4A


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 CAPN2_LAPTM4A


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCAPN2C0023467Leukemia, Myelocytic, Acute1CTD_human