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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: 3828

FusionGeneSummary for BANP_SF3A3

check button Fusion gene summary
Fusion gene informationFusion gene name: BANP_SF3A3
Fusion gene ID: 3828
HgeneTgene
Gene symbol

BANP

SF3A3

Gene ID

54971

10946

Gene nameBTG3 associated nuclear proteinsplicing factor 3a subunit 3
SynonymsBEND1|SMAR1|SMARBP1PRP9|PRPF9|SAP61|SF3a60
Cytomap

16q24.2

1p34.3

Type of geneprotein-codingprotein-coding
Descriptionprotein BANPBEN domain-containing protein 1scaffold/matrix-associated region-1-binding proteinsplicing factor 3A subunit 3SAP 61pre-mRNA splicing factor SF3a (60kD)spliceosome associated protein 61splicing factor 3a, subunit 3, 60kDsplicing factor 3a, subunit 3, 60kDa
Modification date2018052020180523
UniProtAcc

Q8N9N5

Q12874

Ensembl transtripts involved in fusion geneENST00000286122, ENST00000355163, 
ENST00000479780, ENST00000393208, 
ENST00000355022, ENST00000538234, 
ENST00000393207, ENST00000481948, 
ENST00000373019, ENST00000448721, 
ENST00000489537, 
Fusion gene scores* DoF score4 X 4 X 3=488 X 9 X 5=360
# samples 410
** MAII scorelog2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(10/360*10)=-1.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: BANP [Title/Abstract] AND SF3A3 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotationTumor suppressor gene involved fusion gene, retained protein feature but frameshift.
DDR (DNA damage repair) gene involved fusion gene, in-frame but not retained their domain.
* 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
TCGALDPRADTCGA-HC-A8CY-01ABANPchr16

88061256

+SF3A3chr1

38450451

-
* 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-shitENST00000286122ENST00000373019BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000286122ENST00000448721BANPchr16

88061256

+SF3A3chr1

38450451

-
5CDS-5UTRENST00000286122ENST00000489537BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000355163ENST00000373019BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000355163ENST00000448721BANPchr16

88061256

+SF3A3chr1

38450451

-
5CDS-5UTRENST00000355163ENST00000489537BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000479780ENST00000373019BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000479780ENST00000448721BANPchr16

88061256

+SF3A3chr1

38450451

-
5CDS-5UTRENST00000479780ENST00000489537BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000393208ENST00000373019BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000393208ENST00000448721BANPchr16

88061256

+SF3A3chr1

38450451

-
5CDS-5UTRENST00000393208ENST00000489537BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000355022ENST00000373019BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000355022ENST00000448721BANPchr16

88061256

+SF3A3chr1

38450451

-
5CDS-5UTRENST00000355022ENST00000489537BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000538234ENST00000373019BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000538234ENST00000448721BANPchr16

88061256

+SF3A3chr1

38450451

-
5CDS-5UTRENST00000538234ENST00000489537BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000393207ENST00000373019BANPchr16

88061256

+SF3A3chr1

38450451

-
Frame-shitENST00000393207ENST00000448721BANPchr16

88061256

+SF3A3chr1

38450451

-
5CDS-5UTRENST00000393207ENST00000489537BANPchr16

88061256

+SF3A3chr1

38450451

-
intron-3CDSENST00000481948ENST00000373019BANPchr16

88061256

+SF3A3chr1

38450451

-
intron-3CDSENST00000481948ENST00000448721BANPchr16

88061256

+SF3A3chr1

38450451

-
intron-5UTRENST00000481948ENST00000489537BANPchr16

88061256

+SF3A3chr1

38450451

-

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FusionProtFeatures for BANP_SF3A3


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

Q8N9N5

SF3A3

Q12874

Controls V(D)J recombination during T-cell developmentby repressing T-cell receptor (TCR) beta enhancer function. Bindsto scaffold/matrix attachment region beta (S/MARbeta), an ATC-richDNA sequence located upstream of the TCR beta enhancer. Repressescyclin D1 transcription by recruiting HDAC1 to its promoter,thereby diminishing H3K9ac, H3S10ph and H4K8ac levels. PromotesTP53 'Ser-15' phosphorylation and nuclear accumulation, whichcauses cell cycle arrest (By similarity). {ECO:0000250,ECO:0000269|PubMed:16166625}. Subunit of the splicing factor SF3A required for 'A'complex assembly formed by the stable binding of U2 snRNP to thebranchpoint sequence (BPS) in pre-mRNA. Sequence independentbinding of SF3A/SF3B complex upstream of the branch site isessential, it may anchor U2 snRNP to the pre-mRNA. May also beinvolved in the assembly of the 'E' complex.

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 BANP_SF3A3


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 BANP_SF3A3


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
BANPTRAF2, TP53, MDM2, HIF1A, RELA, NFKB1, HDAC1, PML, TERF2IP, TERF2, NPM1, FOXM1, MVP, PRKAB2, RIMS3, PARP1, EP300, ALAS2, CAMK2D, COL10A1, FHL2, LMO2, MAX, NEDD9, PIM1, POLR2L, PPIB, PPIC, PRKCH, MAP2K1, PSMD9, SNRPB, SP2, TNXB, LMO4, ADAM15, SLC16A3, XAGE1E, BAG5, RBM39, TRAF4, TOX4, TROAP, PPIF, MRPL28, RBPMS, POGZ, ISCU, PHF21A, ZNF581, FAM120C, BANP, PRPF39, PID1, FAM90A1, DNAJA4, LMO3, LGALS14, ZNF471, LSM2, LENG1, ZC2HC1C, CEP76, ZMIZ2, NRIP2, POLDIP3, GFM2, L3MBTL3, LINC01547, C1orf94, LINC00152, RAB3IP, ZNF488, HMGB3P1, C22orf39, CCDC26, SPACA6P, DCDC2B, FAM117B, SH3RF2, C6orf165, FAM71C, LACE1, FOXR1, EPHA10, MIR4435-1HG, CCDC101, PDHB, TMEM25, VMAC, CPSF4L, MAPK1, KHDRBS1, HDAC6, MRRF, XRCC6, H2AFX, ATM, JUN, GATAD1, CCDC53, HEXIM2, AHCYL2, FLCN, TRIM11, GDF10, PFDN4, BFSP2, OLFM2, TRIM25, CDC20, MAPK8SF3A3CCDC85B, TCERG1, PUF60, SMNDC1, SF3A1, SF3A2, RAE1, PSMA3, SREK1, VAV2, TCF3, COPS5, CAND1, APP, SF3B1, SF3B3, SF3B4, SNRPA, SNRNP70, SRSF9, SNRPA1, SNRPB2, HNRNPR, DDX23, GTF2F1, PRPF3, PRPF31, PRPF19, SART1, DDX46, SRPK1, TRPM8, HNRNPH3, FLNC, VASP, EIF4G1, TOX4, EEF1D, RAD21, TSKS, TTC4, FN1, PRMT5, PRPF40A, WBP4, APBB1, HGS, ACTN1, ACTN4, CDAN1, SNRPB, STAM2, WWOX, HUWE1, FUS, TADA2A, ZNF212, TRIM69, ZDHHC17, CUL7, OBSL1, SUZ12, EED, RNF2, SPIN1, RBM7, QPRT, ZRSR2, HSPB1, ACTR1A, COPS3, DCTN1, ISY1-RAB43, ISY1, PLRG1, PRPF4, PRPF40B, PSME3, ABI1, DDB1, DHX15, EPB41, LSM4, MATR3, MCM4, MCM5, POP1, PRPF6, SNRNP200, SNRPC, SNRPD1, SNRPD2, SNRPD3, WDHD1, ZNF638, XAB2, ZNF830, NTRK1, HIST1H3E, EMC2, RNPS1, FOXB1, FBXW7, FOXQ1, SNW1, CDC5L, CRBN, CCDC97, SNRPE, SNRPG, SNRPN, RBM17, HSPA8, SNRPF, ANXA4, BAG4, C11orf57, HSPBP1, TRMT2A, USP47, SRP68, PA2G4, TRAP1, SND1, ANXA5, UBE2N, MTNR1B, CD2BP2, BRCA1


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 BANP_SF3A3


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 BANP_SF3A3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneSF3A3C0019693HIV Infections1CTD_human