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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: 41366

FusionGeneSummary for VAT1_HNRNPA1

check button Fusion gene summary
Fusion gene informationFusion gene name: VAT1_HNRNPA1
Fusion gene ID: 41366
HgeneTgene
Gene symbol

VAT1

HNRNPA1

Gene ID

10493

3178

Gene namevesicle amine transport 1heterogeneous nuclear ribonucleoprotein A1
SynonymsVATIALS19|ALS20|HNRPA1|HNRPA1L3|IBMPFD3|UP 1|hnRNP A1|hnRNP-A1
Cytomap

17q21.31

12q13.13

Type of geneprotein-codingprotein-coding
Descriptionsynaptic vesicle membrane protein VAT-1 homologmembrane protein of cholinergic synaptic vesiclesvesicle amine transport protein 1 homolog (T. californica)heterogeneous nuclear ribonucleoprotein A1helix-destabilizing proteinheterogeneous nuclear ribonucleoprotein A1B proteinheterogeneous nuclear ribonucleoprotein B2 proteinheterogeneous nuclear ribonucleoprotein core protein A1hnRNP core protein A1-lik
Modification date2018051920180523
UniProtAcc

Q99536

P09651

Ensembl transtripts involved in fusion geneENST00000355653, ENST00000587173, 
ENST00000420567, 
ENST00000546500, 
ENST00000340913, ENST00000330752, 
ENST00000547276, ENST00000551803, 
Fusion gene scores* DoF score8 X 6 X 2=965 X 5 X 4=100
# samples 95
** MAII scorelog2(9/96*10)=-0.0931094043914815
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(5/100*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: VAT1 [Title/Abstract] AND HNRNPA1 [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
TgeneHNRNPA1

GO:0032212

positive regulation of telomere maintenance via telomerase

23935072

TgeneHNRNPA1

GO:0051168

nuclear export

8521471

TgeneHNRNPA1

GO:0051170

import into nucleus

8521471

TgeneHNRNPA1

GO:1903936

cellular response to sodium arsenite

27694260


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
ChiTaRS3.1AI339411VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
* 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-intronENST00000355653ENST00000546500VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000355653ENST00000340913VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000355653ENST00000330752VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000355653ENST00000547276VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000355653ENST00000551803VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000587173ENST00000546500VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000587173ENST00000340913VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000587173ENST00000330752VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000587173ENST00000547276VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000587173ENST00000551803VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000420567ENST00000546500VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000420567ENST00000340913VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000420567ENST00000330752VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000420567ENST00000547276VAT1chr17

41166905

+HNRNPA1chr12

54676659

-
intron-intronENST00000420567ENST00000551803VAT1chr17

41166905

+HNRNPA1chr12

54676659

-

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FusionProtFeatures for VAT1_HNRNPA1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
VAT1

Q99536

HNRNPA1

P09651

Possesses ATPase activity (By similarity). Plays a partin calcium-regulated keratinocyte activation in epidermal repairmechanisms. Has no effect on cell proliferation. Negativelyregulates mitochondrial fusion in cooperation with mitofusinproteins (MFN1-2). {ECO:0000250, ECO:0000269|PubMed:12898150,ECO:0000269|PubMed:17105775, ECO:0000269|PubMed:19508442}. Involved in the packaging of pre-mRNA into hnRNPparticles, transport of poly(A) mRNA from the nucleus to thecytoplasm and may modulate splice site selection(PubMed:17371836). May bind to specific miRNA hairpins(PubMed:28431233). {ECO:0000269|PubMed:17371836,ECO:0000269|PubMed:28431233}. (Microbial infection) May play a role in HCV RNAreplication. {ECO:0000269|PubMed:17229681}.

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 VAT1_HNRNPA1


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 VAT1_HNRNPA1


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 VAT1_HNRNPA1


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 VAT1_HNRNPA1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneHNRNPA1C3715156AMYOTROPHIC LATERAL SCLEROSIS 202UNIPROT
TgeneHNRNPA1C3809469INCLUSION BODY MYOPATHY WITH EARLY-ONSET PAGET DISEASE WITH OR WITHOUT FRONTOTEMPORAL DEMENTIA 32UNIPROT
TgeneHNRNPA1C0024667Animal Mammary Neoplasms1CTD_human
TgeneHNRNPA1C0024668Mammary Neoplasms, Experimental1CTD_human