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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: 33981

FusionGeneSummary for SKIV2L2_PCDHGC5

check button Fusion gene summary
Fusion gene informationFusion gene name: SKIV2L2_PCDHGC5
Fusion gene ID: 33981
HgeneTgene
Gene symbol

SKIV2L2

PCDHGC5

Gene ID

56097

Gene nameprotocadherin gamma subfamily C, 5
SynonymsPCDH-GAMMA-C5
Cytomap

5q31.3

Type of geneprotein-coding
Descriptionprotocadherin gamma-C5
Modification date20180523
UniProtAcc

Q9Y5F6

Ensembl transtripts involved in fusion geneENST00000230640, ENST00000545714, 
ENST00000504388, 
ENST00000252087, 
Fusion gene scores* DoF score22 X 8 X 8=14082 X 2 X 2=8
# samples 122
** MAII scorelog2(12/1408*10)=-3.55254102302878
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(2/8*10)=1.32192809488736
Context

PubMed: SKIV2L2 [Title/Abstract] AND PCDHGC5 [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
TCGALDCOADTCGA-CM-6163-01ASKIV2L2chr5

54624639

+PCDHGC5chr5

140874374

+
* 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-shiftENST00000230640ENST00000252087SKIV2L2chr5

54624639

+PCDHGC5chr5

140874374

+
Frame-shiftENST00000545714ENST00000252087SKIV2L2chr5

54624639

+PCDHGC5chr5

140874374

+
intron-3CDSENST00000504388ENST00000252087SKIV2L2chr5

54624639

+PCDHGC5chr5

140874374

+

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FusionProtFeatures for SKIV2L2_PCDHGC5


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SKIV2L2

PCDHGC5

Q9Y5F6

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}. Potential calcium-dependent cell-adhesion protein. Maybe involved in the establishment and maintenance of specificneuronal connections in the brain.

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 SKIV2L2_PCDHGC5


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 SKIV2L2_PCDHGC5


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
SKIV2L2MPP6, RNPS1, TAF10, TERF2, PPP2R1A, PPP2R2A, PPP2R2B, PPP2R2D, RAD21, SIRT7, ZCCHC8, CUL3, CUL1, COPS5, CAND1, GRK5, EXOSC4, DIS3, DIS3L, SNW1, NUDT21, CWC27, SNRPD2, SF3A1, SOX2, XRN1, EXOSC6, UPF2, CLK2, TARDBP, YWHAB, RPA1, RPA2, RPA3, DROSHA, OBSL1, EED, BMI1, BUB1B, RBM7, RBM11, EXOSC3, EXOSC7, EXOSC8, WHSC1, UNK, ANKMY2, CSE1L, DDX5, DHX38, EFTUD1, EIF3H, EIF4A3, EIF4G1, KIAA0020, KIF2C, LIG1, NLE1, NOP2, PABPC1, PABPC4, RRP12, RRS1, CAPN1, CAPN11, CTPS1, DBR1, DHX15, DOHH, EXOSC10, METTL13, SKP2, TRMT61A, TTC27, YBX1, YBX3, TRMT6, NTRK1, IFI16, XPO1, GBA, HSP90AA1, NCBP1, SNCA, NCBP2, KIAA1107, EXOSC5, ZFC3H1, BOD1L1, MZT1, EXOSC1, USP37, CDC5L, RNF126, ZNF746, C1D, NCL, FOXA1, FAM107A, MCM9PCDHGC5APP


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 SKIV2L2_PCDHGC5


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 SKIV2L2_PCDHGC5


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