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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: 23940

FusionGeneSummary for NECAB3_PXMP4

check button Fusion gene summary
Fusion gene informationFusion gene name: NECAB3_PXMP4
Fusion gene ID: 23940
HgeneTgene
Gene symbol

NECAB3

PXMP4

Gene ID

63941

11264

Gene nameN-terminal EF-hand calcium binding protein 3peroxisomal membrane protein 4
SynonymsAPBA2BP|EFCBP3|NIP1|STIP3|SYTIP2|XB51|dJ63M2.4|dJ63M2.5PMP24
Cytomap

20q11.22

20q11.22

Type of geneprotein-codingprotein-coding
DescriptionN-terminal EF-hand calcium-binding protein 3EF-hand calcium binding protein 3Nek2-interacting protein 1X11L-binding protein 51amyloid beta (A4) precursor protein-binding, family A, member 2 binding proteinamyloid beta A4 protein-binding family A membperoxisomal membrane protein 424 kDa peroxisomal intrinsic membrane proteinperoxisomal membrane protein 4, 24kDa
Modification date2018052320180519
UniProtAcc

Q96P71

Q9Y6I8

Ensembl transtripts involved in fusion geneENST00000246190, ENST00000375238, 
ENST00000606525, 
ENST00000409299, 
ENST00000344022, ENST00000217398, 
Fusion gene scores* DoF score3 X 2 X 3=185 X 1 X 4=20
# samples 35
** MAII scorelog2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(5/20*10)=1.32192809488736
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: NECAB3 [Title/Abstract] AND PXMP4 [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
HgeneNECAB3

GO:0019538

protein metabolic process

12780348

HgeneNECAB3

GO:0042984

regulation of amyloid precursor protein biosynthetic process

10833507


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
TCGARVLIHCTCGA-CC-5263-01ANECAB3chr20

32257181

-PXMP4chr20

32302542

-
* 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
Frame-shiftENST00000246190ENST00000409299NECAB3chr20

32257181

-PXMP4chr20

32302542

-
Frame-shiftENST00000246190ENST00000344022NECAB3chr20

32257181

-PXMP4chr20

32302542

-
Frame-shiftENST00000246190ENST00000217398NECAB3chr20

32257181

-PXMP4chr20

32302542

-
Frame-shiftENST00000375238ENST00000409299NECAB3chr20

32257181

-PXMP4chr20

32302542

-
Frame-shiftENST00000375238ENST00000344022NECAB3chr20

32257181

-PXMP4chr20

32302542

-
Frame-shiftENST00000375238ENST00000217398NECAB3chr20

32257181

-PXMP4chr20

32302542

-
intron-3CDSENST00000606525ENST00000409299NECAB3chr20

32257181

-PXMP4chr20

32302542

-
intron-3CDSENST00000606525ENST00000344022NECAB3chr20

32257181

-PXMP4chr20

32302542

-
intron-3CDSENST00000606525ENST00000217398NECAB3chr20

32257181

-PXMP4chr20

32302542

-

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FusionProtFeatures for NECAB3_PXMP4


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
NECAB3

Q96P71

PXMP4

Q9Y6I8


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 NECAB3_PXMP4


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 NECAB3_PXMP4


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
NECAB3APBA2, IKBKG, MYC, APP, NECAB1, APBA3, NECAB2PXMP4PEX19


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 NECAB3_PXMP4


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 NECAB3_PXMP4


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