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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: 6921

FusionGeneSummary for CGA_RAB1A

check button Fusion gene summary
Fusion gene informationFusion gene name: CGA_RAB1A
Fusion gene ID: 6921
HgeneTgene
Gene symbol

CGA

RAB1A

Gene ID

1113

5861

Gene namechromogranin ARAB1A, member RAS oncogene family
SynonymsCGARAB1|YPT1
Cytomap

14q32.12

2p14

Type of geneprotein-codingprotein-coding
Descriptionchromogranin-ASP-Ibetagranin (N-terminal fragment of chromogranin A)catestatinchromofunginparathyroid secretory protein 1pituitary secretory protein Iras-related protein Rab-1AGTP binding protein Rab1aRAB1, member RAS oncogene familyRab GTPase YPT1 homologYPT1-related protein
Modification date2018052320180523
UniProtAcc

P01215

P62820

Ensembl transtripts involved in fusion geneENST00000369582, ENST00000494188, 
ENST00000409892, ENST00000409784, 
ENST00000398529, ENST00000409751, 
ENST00000260638, ENST00000356214, 
Fusion gene scores* DoF score8 X 8 X 1=646 X 4 X 6=144
# samples 97
** MAII scorelog2(9/64*10)=0.491853096329675
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
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: CGA [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
HgeneCGA

GO:0002551

mast cell chemotaxis

21214543

HgeneCGA

GO:0032762

mast cell cytokine production

21214543

HgeneCGA

GO:0033604

negative regulation of catecholamine secretion

15326220

HgeneCGA

GO:0043303

mast cell degranulation

21214543

HgeneCGA

GO:0045576

mast cell activation

21214543

HgeneCGA

GO:0050829

defense response to Gram-negative bacterium

15723172

HgeneCGA

GO:0050830

defense response to Gram-positive bacterium

15723172


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
ChiTaRS3.1C19023CGAchr6

87795292

+RAB1Achr2

65357175

-
* 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
intron-5UTRENST00000369582ENST00000494188CGAchr6

87795292

+RAB1Achr2

65357175

-
intron-5UTRENST00000369582ENST00000409892CGAchr6

87795292

+RAB1Achr2

65357175

-
intron-5UTRENST00000369582ENST00000409784CGAchr6

87795292

+RAB1Achr2

65357175

-
intron-5UTRENST00000369582ENST00000398529CGAchr6

87795292

+RAB1Achr2

65357175

-
intron-5UTRENST00000369582ENST00000409751CGAchr6

87795292

+RAB1Achr2

65357175

-
intron-intronENST00000369582ENST00000260638CGAchr6

87795292

+RAB1Achr2

65357175

-
intron-5UTRENST00000369582ENST00000356214CGAchr6

87795292

+RAB1Achr2

65357175

-

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FusionProtFeatures for CGA_RAB1A


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

P01215

RAB1A

P62820

Shared alpha chain of the active heterodimericglycoprotein hormones thyrotropin/thyroid stimulating hormone/TSH,lutropin/luteinizing hormone/LH, follitropin/follicle stimulatinghormone/FSH and choriogonadotropin/CG. These hormones bindspecific receptors on target cells that in turn activatedownstream signaling pathways. {ECO:0000269|PubMed:24692546,ECO:0000269|PubMed:2494176}. 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 CGA_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 CGA_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


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 CGA_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 CGA_RAB1A


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCGAC0001621Adrenal Gland Diseases1CTD_human
HgeneCGAC0018991Hemiplegia1CTD_human
HgeneCGAC0028960Oligospermia1CTD_human
HgeneCGAC0029928Ovarian Diseases1CTD_human
HgeneCGAC0042131Uterine Diseases1CTD_human
HgeneCGAC2931367Thyroid cancer, follicular1CTD_human