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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: 18232

FusionGeneSummary for KCMF1_RAB1A

check button Fusion gene summary
Fusion gene informationFusion gene name: KCMF1_RAB1A
Fusion gene ID: 18232
HgeneTgene
Gene symbol

KCMF1

RAB1A

Gene ID

56888

5861

Gene namepotassium channel modulatory factor 1RAB1A, member RAS oncogene family
SynonymsDEBT91|FIGC|PCMF|ZZZ1RAB1|YPT1
Cytomap

2p11.2

2p14

Type of geneprotein-codingprotein-coding
DescriptionE3 ubiquitin-protein ligase KCMF1FGF-induced in gastric cancerFGF-induced ubiquitin-protein ligase in gastric cancersRING-type E3 ubiquitin transferase KCMF1ZZ-type zinc finger-containing protein 1differentially expressed in branching tubulogenesis 9ras-related protein Rab-1AGTP binding protein Rab1aRAB1, member RAS oncogene familyRab GTPase YPT1 homologYPT1-related protein
Modification date2018051920180523
UniProtAcc

Q9P0J7

P62820

Ensembl transtripts involved in fusion geneENST00000409785, ENST00000494188, 
ENST00000409892, ENST00000409784, 
ENST00000398529, ENST00000409751, 
ENST00000260638, ENST00000356214, 
Fusion gene scores* DoF score6 X 6 X 5=1806 X 4 X 6=144
# samples 87
** MAII scorelog2(8/180*10)=-1.16992500144231
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(7/144*10)=-1.04064198449735
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: KCMF1 [Title/Abstract] AND RAB1A [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
TCGALDACCTCGA-OR-A5K5-01AKCMF1chr2

85198590

+RAB1Achr2

65325200

-
* 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-intronENST00000409785ENST00000494188KCMF1chr2

85198590

+RAB1Achr2

65325200

-
5CDS-intronENST00000409785ENST00000409892KCMF1chr2

85198590

+RAB1Achr2

65325200

-
5CDS-intronENST00000409785ENST00000409784KCMF1chr2

85198590

+RAB1Achr2

65325200

-
5CDS-intronENST00000409785ENST00000398529KCMF1chr2

85198590

+RAB1Achr2

65325200

-
5CDS-intronENST00000409785ENST00000409751KCMF1chr2

85198590

+RAB1Achr2

65325200

-
5CDS-intronENST00000409785ENST00000260638KCMF1chr2

85198590

+RAB1Achr2

65325200

-
5CDS-intronENST00000409785ENST00000356214KCMF1chr2

85198590

+RAB1Achr2

65325200

-

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FusionProtFeatures for KCMF1_RAB1A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
KCMF1

Q9P0J7

RAB1A

P62820

Has intrinsic E3 ubiquitin ligase activity and promotesubiquitination. {ECO:0000269|PubMed:15581609}. The small GTPases Rab are key regulators ofintracellular membrane trafficking, from the formation oftransport vesicles to their fusion with membranes. Rabs cyclebetween an inactive GDP-bound form and an active GTP-bound formthat is able to recruit to membranes different sets of downstreameffectors directly responsible for vesicle formation, movement,tethering and fusion. RAB1A regulates vesicular protein transportfrom the endoplasmic reticulum (ER) to the Golgi compartment andon to the cell surface, and plays a role in IL-8 and growthhormone secretion. Regulates the level of CASR present at the cellmembrane. Plays a role in cell adhesion and cell migration, viaits role in protein trafficking. Plays a role in autophagosomeassembly and cellular defense reactions against pathogenicbacteria. Plays a role in microtubule-dependent protein transportby early endosomes and in anterograde melanosome transport.{ECO:0000269|PubMed:20639577, ECO:0000269|PubMed:20861236,ECO:0000269|PubMed:21303926, ECO:0000269|PubMed:22939626}.

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 KCMF1_RAB1A


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 KCMF1_RAB1A


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
KCMF1GRK5, VCP, SOX2, BYSL, EIF3L, FLNC, HDLBP, HERC1, IKBKG, PNO1, PSMC1, PSMC5, PSMD11, PSMD12, PSMD13, PSMD3, PSMD7, PSMD8, RPS13, TJP2, TXNL1, UBR4, UCHL5, WDR26, WIBG, KCMF1, UBE2D2, UBC, FIGF, TFDP3, ABHD10, SARS2, IDH2, CEP85, NIPSNAP3A, MRS2, TESPA1, POGLUT1, EDA, CHIA, CD96, CST9, RASSF9, RASSF10, UBE2A, UBE2B, NIPSNAP1, SSBP1, ACOT9, NUP188, OGT, NUP93, NUP214, PRCP, QARS, HSPB1, KRAS, MED20, XPO1, POU5F1, A1BG, FSTL4, C15orf27, VWA5A, TRIM25RAB1ARABAC1, GOLGA2, MICAL1, RABIF, GOLGA5, CAPNS1, CREB1, FSCN1, HIVEP1, SLC16A8, TBC1D17, CDKN1A, RFK, CHML, USO1, CHM, RABEP1, ELAVL1, ARRB1, RAB11B, RAB7A, GDI1, GDI2, RAB11A, RAB31, HNRNPA1L2, RAP1A, PTBP1, HNRNPA3, IQCB1, UBL4A, BAG3, ATP4A, ATP6V1A, MTPN, PCYT2, PDIA3, ENO2, GMPS, MTAP, PNP, TUBB4B, RPA1, RPA2, RPA3, ASB5, ASB9, SART3, RUSC2, CUL7, CCDC8, OCRL, ULK1, RAB1B, UNK, ATP1A1, ATP1A2, ATP1A3, ATP1B1, ATP5H, BCAP31, CCDC47, CYC1, DNAJA3, ETFA, HNRNPA1, HSD17B12, IPO9, KDSR, LDHA, LDHAL6B, LDHB, LDHC, LRPPRC, NDUFB8, NDUFB9, PHB, PHPT1, AHSA1, ARF1, ATP1B3, CANX, CDC42, CLGN, DUT, FUBP1, ILVBL, MTCH2, NDUFS8, PLIN3, PRRC1, RAB5A, RAB5B, RAB5C, RANBP1, RAP2C, SLC25A3, SSRP1, STMN1, TECR, TM9SF4, TOMM70A, TXN, RAB2A, RAB6A, RAB6B, RDH13, RER1, RPN1, RPN2, STOML2, STX12, STX7, TMCO1, TMED2, UBE2K, UQCRC2, UQCRQ, VAPA, VDAC2, TCTN2, TCTN3, CAPZA2, DBN1, ATL3, LIMA1, GTSE1, MTOR, RPTOR, CSNK1D, TRAPPC2L, VPS51, TMED10, TSSC1, PTAR1, SEC23IP, COG5, RAB18, VPS52, TRAPPC12, JTB, COG8, RIC1, COG3, COG7, VPS53, TRAPPC13, VPS54, CDC73, CDH1, EGFR, RAB8A, VPS13C, EEF1A2, RABGGTA, RAB2B, DLD, DLST, PARK7, PDHA1, G3BP1, HEY1


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 KCMF1_RAB1A


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 KCMF1_RAB1A


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