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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: 18408

FusionGeneSummary for KDM2A_PGA3

check button Fusion gene summary
Fusion gene informationFusion gene name: KDM2A_PGA3
Fusion gene ID: 18408
HgeneTgene
Gene symbol

KDM2A

PGA3

Gene ID

22992

643834

Gene namelysine demethylase 2Apepsinogen 3, group I (pepsinogen A)
SynonymsCXXC8|FBL11|FBL7|FBXL11|JHDM1A|LILINA-
Cytomap

11q13.2

11q12.2

Type of geneprotein-codingprotein-coding
Descriptionlysine-specific demethylase 2ACXXC-type zinc finger protein 8F-box and leucine-rich repeat protein 11F-box/LRR-repeat protein 11[Histone-H3]-lysine-36 demethylase 1AjmjC domain-containing histone demethylation protein 1Ajumonji C domain-containing hpepsin A-3pepsinogen A3pepsinogen-3
Modification date2018051920180523
UniProtAcc

Q9Y2K7

P0DJD8

Ensembl transtripts involved in fusion geneENST00000398645, ENST00000529006, 
ENST00000526258, ENST00000308783, 
ENST00000530342, 
ENST00000325558, 
ENST00000543125, ENST00000538258, 
Fusion gene scores* DoF score24 X 12 X 14=40328 X 7 X 3=168
# samples 317
** MAII scorelog2(31/4032*10)=-3.70115551822568
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(7/168*10)=-1.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: KDM2A [Title/Abstract] AND PGA3 [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
TCGALDCESCTCGA-RA-A741-01AKDM2Achr11

67023760

+PGA3chr11

60975870

+
* 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-3CDSENST00000398645ENST00000325558KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000398645ENST00000543125KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000398645ENST00000538258KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-3CDSENST00000529006ENST00000325558KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000529006ENST00000543125KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000529006ENST00000538258KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-3CDSENST00000526258ENST00000325558KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000526258ENST00000543125KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000526258ENST00000538258KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-3CDSENST00000308783ENST00000325558KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000308783ENST00000543125KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000308783ENST00000538258KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-3CDSENST00000530342ENST00000325558KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000530342ENST00000543125KDM2Achr11

67023760

+PGA3chr11

60975870

+
3UTR-intronENST00000530342ENST00000538258KDM2Achr11

67023760

+PGA3chr11

60975870

+

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FusionProtFeatures for KDM2A_PGA3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
KDM2A

Q9Y2K7

PGA3

P0DJD8

Shows particularly broad specificity; although bondsinvolving phenylalanine and leucine are preferred, many others arealso cleaved to some extent.

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 KDM2A_PGA3


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 KDM2A_PGA3


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
KDM2ARELA, FOS, BCL6, ELAVL1, KIAA0368, HIST2H3C, SKP1, HIST3H3, SMAD7, SMAD3, ZNF512B, MPG, UBE2G2, RB1, E2F1, EED, ACTR1B, ARHGEF7, PSMB3, RANGAP1, PPP1R2, STAG2, KRAS, HIST1H2BG, RAB5C, REEP5, CBX4, KIF20B, RBPJ, ATM, CGB2, TRIM25, UHRF2PGA3


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 KDM2A_PGA3


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 KDM2A_PGA3


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