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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: 2663

FusionGeneSummary for ARID4A_NPAS3

check button Fusion gene summary
Fusion gene informationFusion gene name: ARID4A_NPAS3
Fusion gene ID: 2663
HgeneTgene
Gene symbol

ARID4A

NPAS3

Gene ID

5926

64067

Gene nameAT-rich interaction domain 4Aneuronal PAS domain protein 3
SynonymsRBBP-1|RBBP1|RBP-1|RBP1MOP6|PASD6|bHLHe12
Cytomap

14q23.1

14q13.1

Type of geneprotein-codingprotein-coding
DescriptionAT-rich interactive domain-containing protein 4AARID domain-containing protein 4AAT rich interactive domain 4A (RBP1-like)retinoblastoma-binding protein 1neuronal PAS domain-containing protein 3PAS domain-containing protein 6basic-helix-loop-helix-PAS protein MOP6class E basic helix-loop-helix protein 12member of PAS protein 6neuronal PAS3
Modification date2018052320180523
UniProtAcc

P29374

Q8IXF0

Ensembl transtripts involved in fusion geneENST00000355431, ENST00000348476, 
ENST00000395168, ENST00000431317, 
ENST00000553355, 
ENST00000551492, 
ENST00000346562, ENST00000341321, 
ENST00000548645, ENST00000356141, 
ENST00000357798, ENST00000547068, 
ENST00000551008, ENST00000550662, 
Fusion gene scores* DoF score6 X 6 X 5=1809 X 7 X 6=378
# samples 710
** MAII scorelog2(7/180*10)=-1.36257007938471
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(10/378*10)=-1.91838623444635
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ARID4A [Title/Abstract] AND NPAS3 [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
HgeneARID4A

GO:0045892

negative regulation of transcription, DNA-templated

12724404


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
TCGARVLUADTCGA-78-8660-01AARID4Achr14

58766578

+NPAS3chr14

33836392

+
* 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
Frame-shitENST00000355431ENST00000551492ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000355431ENST00000346562ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000355431ENST00000341321ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000355431ENST00000548645ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000355431ENST00000356141ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000355431ENST00000357798ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000355431ENST00000547068ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000355431ENST00000551008ARID4Achr14

58766578

+NPAS3chr14

33836392

+
5CDS-intronENST00000355431ENST00000550662ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000348476ENST00000551492ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000348476ENST00000346562ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000348476ENST00000341321ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000348476ENST00000548645ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000348476ENST00000356141ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000348476ENST00000357798ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000348476ENST00000547068ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000348476ENST00000551008ARID4Achr14

58766578

+NPAS3chr14

33836392

+
5CDS-intronENST00000348476ENST00000550662ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000395168ENST00000551492ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000395168ENST00000346562ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000395168ENST00000341321ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000395168ENST00000548645ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000395168ENST00000356141ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000395168ENST00000357798ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000395168ENST00000547068ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000395168ENST00000551008ARID4Achr14

58766578

+NPAS3chr14

33836392

+
5CDS-intronENST00000395168ENST00000550662ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000431317ENST00000551492ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000431317ENST00000346562ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000431317ENST00000341321ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000431317ENST00000548645ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000431317ENST00000356141ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000431317ENST00000357798ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000431317ENST00000547068ARID4Achr14

58766578

+NPAS3chr14

33836392

+
Frame-shitENST00000431317ENST00000551008ARID4Achr14

58766578

+NPAS3chr14

33836392

+
5CDS-intronENST00000431317ENST00000550662ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-3CDSENST00000553355ENST00000551492ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-3CDSENST00000553355ENST00000346562ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-3CDSENST00000553355ENST00000341321ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-3CDSENST00000553355ENST00000548645ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-3CDSENST00000553355ENST00000356141ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-3CDSENST00000553355ENST00000357798ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-3CDSENST00000553355ENST00000547068ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-3CDSENST00000553355ENST00000551008ARID4Achr14

58766578

+NPAS3chr14

33836392

+
intron-intronENST00000553355ENST00000550662ARID4Achr14

58766578

+NPAS3chr14

33836392

+

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FusionProtFeatures for ARID4A_NPAS3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
ARID4A

P29374

NPAS3

Q8IXF0

Interacts with the viral protein-binding domain of theretinoblastoma protein. May play a broad role in neurogenesis. May controlregulatory pathways relevant to schizophrenia and to psychoticillness (By similarity). {ECO:0000250}.

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 ARID4A_NPAS3


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 ARID4A_NPAS3


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
ARID4ARB1, RBL1, ING2, ARID4B, BRMS1, SAP30, SIN3A, SIN3B, HDAC1, RBBP7, RBBP4, CCND1, CDK4, CCNE1, CDK2, CCNA2, CDK1, CCNB1, HIST4H4, HIST2H3C, MXD1, HIST1H2BG, FOXK1, FOXK2, GATAD1, FAM60A, ZNF704NPAS3ARNT2, TP53


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


Top

RelatedDrugs for ARID4A_NPAS3


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 ARID4A_NPAS3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneNPAS3C0036341Schizophrenia4PSYGENET
TgeneNPAS3C0005586Bipolar Disorder3PSYGENET
TgeneNPAS3C0033975Psychotic Disorders1PSYGENET
TgeneNPAS3C0041696Unipolar Depression1PSYGENET
TgeneNPAS3C0349204Nonorganic psychosis1PSYGENET
TgeneNPAS3C1269683Major Depressive Disorder1PSYGENET