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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: 16109

FusionGeneSummary for HERC3_RASGEF1B

check button Fusion gene summary
Fusion gene informationFusion gene name: HERC3_RASGEF1B
Fusion gene ID: 16109
HgeneTgene
Gene symbol

HERC3

RASGEF1B

Gene ID

8916

153020

Gene nameHECT and RLD domain containing E3 ubiquitin protein ligase 3RasGEF domain family member 1B
Synonyms-GPIG4
Cytomap

4q22.1

4q21.21

Type of geneprotein-codingprotein-coding
Descriptionprobable E3 ubiquitin-protein ligase HERC3HECT domain and RCC1-like domain-containing protein 3HECT-type E3 ubiquitin transferase HERC3hect domain and RLD 3ras-GEF domain-containing family member 1BGPI gamma-4
Modification date2018052220180519
UniProtAcc

Q15034

Q0VAM2

Ensembl transtripts involved in fusion geneENST00000402738, ENST00000407637, 
ENST00000601319, ENST00000264345, 
ENST00000543130, 		ENST00000509081, 
ENST00000264400, ENST00000335927, 
ENST00000436139, ENST00000514889, 
Fusion gene scores* DoF score4 X 4 X 2=326 X 4 X 5=120
# samples 46
** MAII scorelog2(4/32*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(6/120*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: HERC3 [Title/Abstract] AND RASGEF1B [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
TCGALDLUADTCGA-55-7995-01AHERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
* 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-intronENST00000402738ENST00000509081HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000402738ENST00000264400HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000402738ENST00000335927HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000402738ENST00000436139HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000402738ENST00000514889HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000407637ENST00000509081HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000407637ENST00000264400HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000407637ENST00000335927HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000407637ENST00000436139HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000407637ENST00000514889HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000601319ENST00000509081HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000601319ENST00000264400HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000601319ENST00000335927HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000601319ENST00000436139HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000601319ENST00000514889HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000264345ENST00000509081HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000264345ENST00000264400HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000264345ENST00000335927HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000264345ENST00000436139HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
5CDS-intronENST00000264345ENST00000514889HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000543130ENST00000509081HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000543130ENST00000264400HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000543130ENST00000335927HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000543130ENST00000436139HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-
intron-intronENST00000543130ENST00000514889HERC3chr4

89527200

+RASGEF1Bchr4

82524076

-

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FusionProtFeatures for HERC3_RASGEF1B


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
HERC3

Q15034

RASGEF1B

Q0VAM2

E3 ubiquitin-protein ligase which accepts ubiquitin froman E2 ubiquitin-conjugating enzyme in the form of a thioester andthen directly transfers the ubiquitin to targeted substrates.{ECO:0000250}. Guanine nucleotide exchange factor (GEF) withspecificity for RAP2A, it doesn't seems to activate other Rasfamily proteins (in vitro). {ECO:0000269|PubMed:19645719,ECO:0000269|PubMed:23894443}.

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 HERC3_RASGEF1B


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 HERC3_RASGEF1B


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
HERC3HERC6, UBQLN2, NME2, UBQLN1, UBC, TK1, UBE2D1, UBE2L3, CCL22, CD33, SHMT2, MOV10, NXF1, FAM189B, MOGAT2, RDH5, RCBTB1, HERC2, FAM189A2, KCNA6, TMTC4, RHBDL1, TMEM62, HSD17B3, ARHGAP25, FBXW11, SRPK2, RELA, PSMA4, PSMC2, PSMC4, PSMC5, PSMD2, PSMD4, NUDCD2, HIST2H3PS2, POTEC, ACOX3, CYP8B1, KCNC4, CYP39A1, TTLL2, SLC25A2, IL17RC, GDARASGEF1BEGFR, COL1A1, GAPDHS


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 HERC3_RASGEF1B


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 HERC3_RASGEF1B


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneHERC3C0023903Liver neoplasms1CTD_human
TgeneRASGEF1BC3495559Juvenile arthritis1CTD_human