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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: 14236

FusionGeneSummary for GABRA3_SARNP

check button Fusion gene summary
Fusion gene informationFusion gene name: GABRA3_SARNP
Fusion gene ID: 14236
HgeneTgene
Gene symbol

GABRA3

SARNP

Gene ID

2556

84324

Gene namegamma-aminobutyric acid type A receptor alpha3 subunitSAP domain containing ribonucleoprotein
Synonyms-CIP29|HCC1|HSPC316|THO1
Cytomap

Xq28

12q13.2

Type of geneprotein-codingprotein-coding
Descriptiongamma-aminobutyric acid receptor subunit alpha-3GABA(A) receptor subunit alpha-3GABA(A) receptor, alpha 3gamma-aminobutyric acid (GABA) A receptor, alpha 3gamma-animobutyric acid (GABA) A receptor, alpha 3SAP domain-containing ribonucleoproteincytokine induced protein 29 kDacytokine-induced protein of 29 kDahepatocellular carcinoma 1nuclear protein Hcc-1proliferation associated cytokine-inducible protein CIP29
Modification date2018052320180522
UniProtAcc

P34903

P82979

Ensembl transtripts involved in fusion geneENST00000370314, ENST00000535043, 
ENST00000497894, 
ENST00000444631, 
ENST00000336133, ENST00000552080, 
Fusion gene scores* DoF score2 X 2 X 2=811 X 5 X 6=330
# samples 29
** MAII scorelog2(2/8*10)=1.32192809488736log2(9/330*10)=-1.87446911791614
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GABRA3 [Title/Abstract] AND SARNP [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
TgeneSARNP

GO:0006406

mRNA export from nucleus

20844015


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
TCGARVSKCMTCGA-GN-A26D-06AGABRA3chrX

151393235

-SARNPchr12

56146624

-
* 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-3UTRENST00000370314ENST00000444631GABRA3chrX

151393235

-SARNPchr12

56146624

-
5CDS-intronENST00000370314ENST00000336133GABRA3chrX

151393235

-SARNPchr12

56146624

-
5CDS-intronENST00000370314ENST00000552080GABRA3chrX

151393235

-SARNPchr12

56146624

-
5CDS-3UTRENST00000535043ENST00000444631GABRA3chrX

151393235

-SARNPchr12

56146624

-
5CDS-intronENST00000535043ENST00000336133GABRA3chrX

151393235

-SARNPchr12

56146624

-
5CDS-intronENST00000535043ENST00000552080GABRA3chrX

151393235

-SARNPchr12

56146624

-
intron-3UTRENST00000497894ENST00000444631GABRA3chrX

151393235

-SARNPchr12

56146624

-
intron-intronENST00000497894ENST00000336133GABRA3chrX

151393235

-SARNPchr12

56146624

-
intron-intronENST00000497894ENST00000552080GABRA3chrX

151393235

-SARNPchr12

56146624

-

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FusionProtFeatures for GABRA3_SARNP


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
GABRA3

P34903

SARNP

P82979

GABA, the major inhibitory neurotransmitter in thevertebrate brain, mediates neuronal inhibition by binding to theGABA/benzodiazepine receptor and opening an integral chloridechannel. Binds both single-stranded and double-stranded DNA withhigher affinity for the single-stranded form. Specifically bindsto scaffold/matrix attachment region DNA. Also binds single-stranded RNA. Enhances RNA unwinding activity of DDX39A. Mayparticipate in important transcriptional or translational controlof cell growth, metabolism and carcinogenesis. Component of theTREX complex which is thought to couple mRNA transcription,processing and nuclear export, and specifically associates withspliced mRNA and not with unspliced pre-mRNA. TREX is recruited tospliced mRNAs by a transcription-independent mechanism, binds tomRNA upstream of the exon-junction complex (EJC) and is recruitedin a splicing- and cap-dependent manner to a region near the 5'end of the mRNA where it functions in mRNA export to the cytoplasmvia the TAP/NFX1 pathway. The TREX complex is essential for theexport of Kaposi's sarcoma-associated herpesvirus (KSHV)intronless mRNAs and infectious virus production.{ECO:0000269|PubMed:15338056, ECO:0000269|PubMed:17196963,ECO:0000269|PubMed:20844015}.

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 GABRA3_SARNP


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 GABRA3_SARNP


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
GABRA3UBQLN1, UGT2B7, SDCBP2, EGFR, GABRA5, ABCA7, SEC11C, TMEM131, GLRB, TUSC3, AMIGO1, TMEM59L, TTC17, EDA, POMT1, SPCS1, WLS, ALG9, SLC47A1, HLA-C, GPAA1SARNPDDX39A, FUS, CSNK2B, CDK2, VHL, MRPL14, MRRF, VDAC3, NABP2, SRCAP, TIMM44, TAGLN, ZC3H11A, UBL4A, SBDS, MPLKIP, TBL2, MRPS31, STX7, SRPRB, THY1, SRRM2, RBMS1, SNRPC, TPX2, ACAA1, UBE2I, UBE4B, TIAL1, HSPD1, FN1, PLCG1, RIC8A, CSTB, DPP7, YARS, WDR61, ESR1, DNAJC14, EWSR1, THOC1, MPP1, PFKFB2, THOC2, THOC7, LIMK1, U2AF2, CCDC9, ZC3H14, FYTTD1, KBTBD7, ACIN1, CHTOP, C17orf85, RNPS1, PPIG, POLDIP3, MAGOH, PPP2R2D, PNN, CRIP2, THOC5, CPVL, EIF4A3, WDR45B, COPZ1, SUB1, CHORDC1, DIS3, SEPT7, PRCC, CDK5, SH3GLB1, DRG1, SCYL2, PDHA1


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 GABRA3_SARNP


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneGABRA3P34903DB00425ZolpidemGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB00546AdinazolamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB00842OxazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB00849MethylphenobarbitalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB00898EthanolGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB01198ZopicloneGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB01354HeptabarbitalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB01355HexobarbitalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB01594CinolazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB01595NitrazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB09166EtizolamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB13872LormetazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved
HgeneGABRA3P34903DB00306TalbutalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB00371MeprobamateGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB00683MidazolamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01215EstazolamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01351AmobarbitalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01352AprobarbitalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01353ButethalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01544FlunitrazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01559ClotiazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01567FludiazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01588PrazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB01589QuazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit
HgeneGABRA3P34903DB00690FlurazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit|investigational
HgeneGABRA3P34903DB01558BromazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit|investigational
HgeneGABRA3P34903DB00829DiazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit|investigational|vet_approved
HgeneGABRA3P34903DB00801HalazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|illicit|withdrawn
HgeneGABRA3P34903DB00231TemazepamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|investigational
HgeneGABRA3P34903DB00402EszopicloneGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|investigational
HgeneGABRA3P34903DB00897TriazolamGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|investigational
HgeneGABRA3P34903DB00312PentobarbitalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|investigational|vet_approved
HgeneGABRA3P34903DB00418SecobarbitalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|vet_approved
HgeneGABRA3P34903DB00599ThiopentalGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|vet_approved
HgeneGABRA3P34903DB00794PrimidoneGamma-aminobutyric acid receptor subunit alpha-3small moleculeapproved|vet_approved

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RelatedDiseases for GABRA3_SARNP


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneGABRA3C0005586Bipolar Disorder5PSYGENET
HgeneGABRA3C0004352Autistic Disorder1CTD_human
HgeneGABRA3C0011570Mental Depression1PSYGENET
HgeneGABRA3C0011581Depressive disorder1PSYGENET