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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: 30088

FusionGeneSummary for RAB8A_TPM4

check button Fusion gene summary
Fusion gene informationFusion gene name: RAB8A_TPM4
Fusion gene ID: 30088
HgeneTgene
Gene symbol

RAB8A

TPM4

Gene ID

4218

7171

Gene nameRAB8A, member RAS oncogene familytropomyosin 4
SynonymsMEL|RAB8HEL-S-108
Cytomap

19p13.11

19p13.12-p13.11

Type of geneprotein-codingprotein-coding
Descriptionras-related protein Rab-8Amel transforming oncogene (RAB8 homolog)mel transforming oncogene (derived from cell line NK14)mel transforming oncogene (derived from cell line NK14)- RAB8 homologoncogene c-melras-associated protein RAB8tropomyosin alpha-4 chainTM30p1epididymis secretory protein Li 108
Modification date2018052320180523
UniProtAcc

P61006

P67936

Ensembl transtripts involved in fusion geneENST00000300935, ENST00000588105, 
ENST00000586682, 
ENST00000344824, 
ENST00000538887, ENST00000300933, 
ENST00000591645, 
Fusion gene scores* DoF score3 X 3 X 3=275 X 5 X 3=75
# samples 35
** MAII scorelog2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(5/75*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: RAB8A [Title/Abstract] AND TPM4 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotationOncogene involved fusion gene, in-frame and retained their domain.
* 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
HgeneRAB8A

GO:0006904

vesicle docking involved in exocytosis

17574030

HgeneRAB8A

GO:0048210

Golgi vesicle fusion to target membrane

17574030

HgeneRAB8A

GO:0060271

cilium assembly

17574030


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
TCGALDOVTCGA-25-1326-01ARAB8Achr19

16240414

+TPM4chr19

16212074

+
* 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
In-frameENST00000300935ENST00000344824RAB8Achr19

16240414

+TPM4chr19

16212074

+
In-frameENST00000300935ENST00000538887RAB8Achr19

16240414

+TPM4chr19

16212074

+
Frame-shitENST00000300935ENST00000300933RAB8Achr19

16240414

+TPM4chr19

16212074

+
5CDS-3UTRENST00000300935ENST00000591645RAB8Achr19

16240414

+TPM4chr19

16212074

+
intron-3CDSENST00000588105ENST00000344824RAB8Achr19

16240414

+TPM4chr19

16212074

+
intron-3CDSENST00000588105ENST00000538887RAB8Achr19

16240414

+TPM4chr19

16212074

+
intron-3CDSENST00000588105ENST00000300933RAB8Achr19

16240414

+TPM4chr19

16212074

+
intron-3UTRENST00000588105ENST00000591645RAB8Achr19

16240414

+TPM4chr19

16212074

+
Frame-shitENST00000586682ENST00000344824RAB8Achr19

16240414

+TPM4chr19

16212074

+
Frame-shitENST00000586682ENST00000538887RAB8Achr19

16240414

+TPM4chr19

16212074

+
In-frameENST00000586682ENST00000300933RAB8Achr19

16240414

+TPM4chr19

16212074

+
5CDS-3UTRENST00000586682ENST00000591645RAB8Achr19

16240414

+TPM4chr19

16212074

+

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FusionProtFeatures for RAB8A_TPM4


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
RAB8A

P61006

TPM4

P67936

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. That Rab is involved in polarized vesiculartrafficking and neurotransmitter release. Together with RAB11A,RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBPpromotes transcytosis of PODXL to the apical membrane initiationsites (AMIS), apical surface formation and lumenogenesis(PubMed:20890297). Together with MYO5B and RAB11A participates inepithelial cell polarization (PubMed:21282656). Plays an importantrole in ciliogenesis (PubMed:21844891). Together with MICALL2, mayalso regulate adherens junction assembly (By similarity). May playa role in insulin-induced transport to the plasma membrane of theglucose transporter GLUT4 and therefore play a role in glucosehomeostasis (By similarity). Involved in autophagy(PubMed:27103069). {ECO:0000250|UniProtKB:P35280,ECO:0000250|UniProtKB:P55258, ECO:0000269|PubMed:20890297,ECO:0000269|PubMed:21282656, ECO:0000269|PubMed:21844891,ECO:0000269|PubMed:27103069}.

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
HgeneRAB8Achr19:16240414chr19:16212074ENST00000300935+7837_45177208MotifEffector region
HgeneRAB8Achr19:16240414chr19:16212074ENST00000300935+78121_124177208Nucleotide bindingGTP
HgeneRAB8Achr19:16240414chr19:16212074ENST00000300935+78152_154177208Nucleotide bindingGTP
HgeneRAB8Achr19:16240414chr19:16212074ENST00000300935+7817_22177208Nucleotide bindingGTP
HgeneRAB8Achr19:16240414chr19:16212074ENST00000300935+7834_40177208Nucleotide bindingGTP
HgeneRAB8Achr19:16240414chr19:16212074ENST00000300935+7863_67177208Nucleotide bindingGTP

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneTPM4chr19:16240414chr19:16212074ENST00000300933+682_248221249Coiled coilOntology_term=ECO:0000250
TgeneTPM4chr19:16240414chr19:16212074ENST00000344824+792_248257285Coiled coilOntology_term=ECO:0000250
TgeneTPM4chr19:16240414chr19:16212074ENST00000538887+7102_248257270Coiled coilOntology_term=ECO:0000250


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FusionGeneSequence for RAB8A_TPM4


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 RAB8A_TPM4


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
RAB8ARAB10, SYTL4, BAG6, GDI2, MAP4K2, OPTN, ELAVL1, TFRC, SNCA, RAB1B, RAB7A, RAB11B, NDUFA7, SCP2, RAB31, COX5A, IDH3G, RRBP1, UBL4A, MYO5B, MYO5C, EHD1, EHD3, STK4, RPA1, RPA2, RPA3, STAU1, SYTL1, TBC1D17, SHMT2, ODF2, OCRL, SRPRB, RAB3IL1, ANXA4, GDI1, HSD17B10, RAB5A, RAB5B, RAB5C, RAP1A, RAP1B, SDHB, MDM2, CEP97, CEP135, CNTRL, DCTN1, POC5, GOLT1B, EXOC6, RAB3B, STX3, VAMP3, DCDC5, CDC73, MTMR4, RAB8B, RAB1A, RPH3A, SLC1A1, NDUFA10, SAMM50, NDUFA5, CHCHD3, RAB3IP, RMND5B, STOM, EXOC5, MKLN1, RMND5A, ARMC8, RANBP10, WDR26, MAEA, YPEL5, RANBP9, GID8, EXOC8, BBS1, EHBP1L1, BIN1TPM4TCERG1, TRIP6, PACSIN1, ARRB1, SP1, CDK2, AKT1, TPM3, TPM2, TPM1, SRXN1, HNRNPK, DBN1, ZYX, PCMT1, G3BP1, PSMD2, PSMA6, CDH2, SULT1A1, SERPINH1, ILF3, ILF2, TELO2, MYH9, PSMD1, SNRNP70, TXN2, SRSF2, PRKCDBP, CORO1C, TPM3P4, DCTN2, PSMC2, ATF2, PAN2, HDAC8, PARK2, CAP1, FASN, KIAA1598, SIRT1, TP53, LNX1, PYCARD, EGFR, ACTN1, ACTN2, COX5A, OSTF1, ACTN4, ATP1A1, ATP5F1, CENPE, CKB, COX4I1, MYH7B, NDUFB10, PSMA1, TBCD, NTRK1, ADD1, CAPZA2, FLNA, PPP1CB, PPP1CC, IQGAP1, SLC33A1, PDLIM7, MAPRE1, ANLN, MYO19, MYO18A, CFAP97, MCM2, SMURF1, ZNF131, DLST, UBE2A


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 RAB8A_TPM4


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 RAB8A_TPM4


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneRAB8AC0003873Rheumatoid Arthritis1CTD_human
TgeneTPM4C0003949Asbestosis1CTD_human
TgeneTPM4C0014859Esophageal Neoplasms1CTD_human
TgeneTPM4C0023893Liver Cirrhosis, Experimental1CTD_human
TgeneTPM4C0027627Neoplasm Metastasis1CTD_human
TgeneTPM4C0029456Osteoporosis1CTD_human
TgeneTPM4C0032927Precancerous Conditions1CTD_human
TgeneTPM4C0043094Weight Gain1CTD_human
TgeneTPM4C0948089Acute Coronary Syndrome1CTD_human