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Fusion gene ID: 41625 |
FusionGeneSummary for VPS53_F7 |
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Fusion gene information | Fusion gene name: VPS53_F7 | Fusion gene ID: 41625 | Hgene | Tgene | Gene symbol | VPS53 | F7 | Gene ID | 55275 | 2155 |
Gene name | VPS53, GARP complex subunit | coagulation factor VII | |
Synonyms | HCCS1|PCH2E|hVps53L|pp13624 | SPCA | |
Cytomap | 17p13.3 | 13q34 | |
Type of gene | protein-coding | protein-coding | |
Description | vacuolar protein sorting-associated protein 53 homolog | coagulation factor VIIFVII coagulation proteincoagulation factor VII (serum prothrombin conversion accelerator)eptacog alfaproconvertin | |
Modification date | 20180523 | 20180523 | |
UniProtAcc | Q5VIR6 | P08709 | |
Ensembl transtripts involved in fusion gene | ENST00000437048, ENST00000574029, ENST00000576149, ENST00000446250, ENST00000291074, ENST00000571805, ENST00000401468, | ENST00000541084, ENST00000346342, ENST00000375581, ENST00000473085, | |
Fusion gene scores | * DoF score | 10 X 5 X 10=500 | 4 X 3 X 4=48 |
# samples | 13 | 4 | |
** MAII score | log2(13/500*10)=-1.94341647163363 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(4/48*10)=-0.263034405833794 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Context | PubMed: VPS53 [Title/Abstract] AND F7 [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) |
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Partner | Gene | GO ID | GO term | PubMed ID |
Tgene | F7 | GO:0002690 | positive regulation of leukocyte chemotaxis | 17991872 |
Tgene | F7 | GO:0007596 | blood coagulation | 8632006|24998411 |
Tgene | F7 | GO:0010641 | positive regulation of platelet-derived growth factor receptor signaling pathway | 17991872 |
Tgene | F7 | GO:0016485 | protein processing | 24998411 |
Tgene | F7 | GO:0050927 | positive regulation of positive chemotaxis | 17991872 |
Tgene | F7 | GO:0051897 | positive regulation of protein kinase B signaling | 18612547 |
![]() (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 type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
TCGA | LD | THCA | TCGA-EL-A3CR-01A | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
* LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
![]() * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
5CDS-intron | ENST00000437048 | ENST00000541084 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000437048 | ENST00000346342 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000437048 | ENST00000375581 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-3UTR | ENST00000437048 | ENST00000473085 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
intron-intron | ENST00000574029 | ENST00000541084 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
intron-intron | ENST00000574029 | ENST00000346342 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
intron-intron | ENST00000574029 | ENST00000375581 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
intron-3UTR | ENST00000574029 | ENST00000473085 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
intron-intron | ENST00000576149 | ENST00000541084 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
intron-intron | ENST00000576149 | ENST00000346342 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
intron-intron | ENST00000576149 | ENST00000375581 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
intron-3UTR | ENST00000576149 | ENST00000473085 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5UTR-intron | ENST00000446250 | ENST00000541084 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5UTR-intron | ENST00000446250 | ENST00000346342 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5UTR-intron | ENST00000446250 | ENST00000375581 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5UTR-3UTR | ENST00000446250 | ENST00000473085 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000291074 | ENST00000541084 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000291074 | ENST00000346342 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000291074 | ENST00000375581 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-3UTR | ENST00000291074 | ENST00000473085 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000571805 | ENST00000541084 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000571805 | ENST00000346342 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000571805 | ENST00000375581 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-3UTR | ENST00000571805 | ENST00000473085 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000401468 | ENST00000541084 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000401468 | ENST00000346342 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-intron | ENST00000401468 | ENST00000375581 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
5CDS-3UTR | ENST00000401468 | ENST00000473085 | VPS53 | chr17 | 600658 | - | F7 | chr13 | 113768066 | + |
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FusionProtFeatures for VPS53_F7 |
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Hgene | Tgene |
VPS53 | F7 |
Acts as component of the GARP complex that is involvedin retrograde transport from early and late endosomes to thetrans-Golgi network (TGN). The GARP complex is required for themaintenance of the cycling of mannose 6-phosphate receptorsbetween the TGN and endosomes, this cycling is necessary forproper lysosomal sorting of acid hydrolases such as CTSD(PubMed:15878329, PubMed:18367545). Acts as component of the EARPcomplex that is involved in endocytic recycling. The EARP complexassociates with Rab4-positive endosomes and promotes recycling ofinternalized transferrin receptor (TFRC) to the plasma membrane(PubMed:25799061). {ECO:0000269|PubMed:15878329,ECO:0000269|PubMed:18367545, ECO:0000269|PubMed:25799061}. | Initiates the extrinsic pathway of blood coagulation.Serine protease that circulates in the blood in a zymogen form.Factor VII is converted to factor VIIa by factor Xa, factor XIIa,factor IXa, or thrombin by minor proteolysis. In the presence oftissue factor and calcium ions, factor VIIa then converts factor Xto factor Xa by limited proteolysis. Factor VIIa will also convertfactor IX to factor IXa in the presence of tissue factor andcalcium. |
![]() * 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. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
- In-frame and not-retained protein feature among the 13 regional features. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for VPS53_F7 |
![]() (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 VPS53_F7 |
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Hgene | Hgene's interactors | Tgene | Tgene's interactors |
VPS53 | VPS52, VPS51, EXOC2, VPS53, VPS54, STX6, VAMP4, THOC2, THOC1, USP7, TXNDC9, VCP, SNAP29, BSG, PSMD7, CCDC132, DTNBP1, TSSC1, C10orf76, PTAR1, RAB1A, CCDC40, EXOC1, EXOC6, SYCE3, PRAF2, CEP170, PKN3, NCKAP5L, TFPT, CCHCR1, YEATS4, TUFT1, RABGAP1L, GOLGA5, CLOCK, PSMD9, DZIP3, GRIPAP1, RCOR1, HMG20A, CCDC93, OIP5, PHF21A, PTRF, PHLDB3, HAUS6, GIT2, RPRD1A, ARNTL, MAX, RABGEF1, NUF2, THAP11, KDM1A, RABEP1, TRIM25 | F7 | F3, F10, USP49, UIMC1, DMWD, ALB, RCHY1, CEP250, CEP76, VCP, FUS, USP7, C1QL1, NMU, CRELD2 |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for VPS53_F7 |
![]() (DrugBank Version 5.1.0 2018-04-02) |
Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Tgene | F7 | P08709 | DB00036 | Coagulation factor VIIa Recombinant Human | Coagulation factor VII | biotech | approved |
Tgene | F7 | P08709 | DB00100 | Coagulation Factor IX (Recombinant) | Coagulation factor VII | biotech | approved|investigational |
Tgene | F7 | P08709 | DB13151 | Anti-inhibitor coagulant complex | Coagulation factor VII | biotech | approved|investigational |
Tgene | F7 | P08709 | DB00170 | Menadione | Coagulation factor VII | small molecule | approved|nutraceutical |
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RelatedDiseases for VPS53_F7 |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Hgene | VPS53 | C4014488 | PONTOCEREBELLAR HYPOPLASIA, TYPE 2E | 1 | UNIPROT |
Tgene | F7 | C0015503 | Factor VII Deficiency | 16 | CTD_human;HPO;ORPHANET;UNIPROT |
Tgene | F7 | C0151699 | Intracranial Hemorrhages | 5 | CTD_human;HPO |
Tgene | F7 | C0019080 | Hemorrhage | 3 | CTD_human |
Tgene | F7 | C2937358 | Cerebral Hemorrhage | 2 | CTD_human |
Tgene | F7 | C0012739 | Disseminated Intravascular Coagulation | 1 | CTD_human |
Tgene | F7 | C0018965 | Hematuria | 1 | CTD_human |
Tgene | F7 | C0019087 | Hemorrhagic Disorders | 1 | CTD_human |
Tgene | F7 | C0032787 | Postoperative Complications | 1 | CTD_human |
Tgene | F7 | C0040038 | Thromboembolism | 1 | CTD_human |
Tgene | F7 | C0042487 | Venous Thrombosis | 1 | CTD_human |
Tgene | F7 | C0273058 | Traumatic intracranial hemorrhage | 1 | CTD_human |
Tgene | F7 | C0749098 | Hematoma, Subdural, Acute | 1 | CTD_human |