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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: 32876

FusionGeneSummary for SCNM1_SSBP3

check button Fusion gene summary
Fusion gene informationFusion gene name: SCNM1_SSBP3
Fusion gene ID: 32876
HgeneTgene
Gene symbol

SCNM1

SSBP3

Gene ID

79005

23648

Gene namesodium channel modifier 1single stranded DNA binding protein 3
Synonyms-CSDP|SSDP|SSDP1
Cytomap

1q21.3

1p32.3

Type of geneprotein-codingprotein-coding
Descriptionsodium channel modifier 1single-stranded DNA-binding protein 3sequence-specific single-stranded-DNA-binding protein
Modification date2018052320180523
UniProtAcc

Q9BWG6

Q9BWW4

Ensembl transtripts involved in fusion geneENST00000461862, ENST00000368905, 
ENST00000326956, ENST00000417664, 
ENST00000371320, ENST00000371319, 
ENST00000357475, 
Fusion gene scores* DoF score1 X 1 X 1=111 X 8 X 6=528
# samples 110
** MAII scorelog2(1/1*10)=3.32192809488736log2(10/528*10)=-2.40053792958373
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SCNM1 [Title/Abstract] AND SSBP3 [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
TCGALDSKCMTCGA-GN-A8LL-06ASCNM1chr1

151138679

+SSBP3chr1

54717533

-
* 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
3UTR-5UTRENST00000461862ENST00000326956SCNM1chr1

151138679

+SSBP3chr1

54717533

-
3UTR-5UTRENST00000461862ENST00000417664SCNM1chr1

151138679

+SSBP3chr1

54717533

-
3UTR-5UTRENST00000461862ENST00000371320SCNM1chr1

151138679

+SSBP3chr1

54717533

-
3UTR-5UTRENST00000461862ENST00000371319SCNM1chr1

151138679

+SSBP3chr1

54717533

-
3UTR-5UTRENST00000461862ENST00000357475SCNM1chr1

151138679

+SSBP3chr1

54717533

-
5CDS-5UTRENST00000368905ENST00000326956SCNM1chr1

151138679

+SSBP3chr1

54717533

-
5CDS-5UTRENST00000368905ENST00000417664SCNM1chr1

151138679

+SSBP3chr1

54717533

-
5CDS-5UTRENST00000368905ENST00000371320SCNM1chr1

151138679

+SSBP3chr1

54717533

-
5CDS-5UTRENST00000368905ENST00000371319SCNM1chr1

151138679

+SSBP3chr1

54717533

-
5CDS-5UTRENST00000368905ENST00000357475SCNM1chr1

151138679

+SSBP3chr1

54717533

-

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FusionProtFeatures for SCNM1_SSBP3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SCNM1

Q9BWG6

SSBP3

Q9BWW4

Plays a role in RNA splicing, possibly contributing tothe recognition of non-consensus donor sites. {ECO:0000250}. May be involved in transcription regulation of the alpha2(I) collagen gene where it binds to the single-strandedpolypyrimidine sequences in the promoter region. {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 SCNM1_SSBP3


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 SCNM1_SSBP3


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
SCNM1MCM6, CCDC85B, PRNP, SIRT1, AES, CDR2, GOLGA2, KRT31, MEOX2, TRIM37, NAB2, PLSCR1, TRIM27, TRAF1, ZBTB14, MKRN3, BLZF1, KRT38, PNMA1, PDE4DIP, IKZF1, HMG20A, PNMA2, MID2, RPGRIP1, TRIM54, RINT1, CCDC33, CEP44, LZTS2, UBXN11, SYCE1, SSX2IP, MIPOL1, SPERT, TRIM42, KRTAP10-7, KRTAP10-9, KRTAP10-5, KRTAP10-8, KRTAP10-3, INCA1, NOTCH2NL, ZDHHC17, YBEY, PMVK, SNX3, FAM192A, TCEAL1, SPIN1, FHL5, RSAD2, DOHHSSBP3TAL1, HCLS1, LMX1B, RFC1, SUPT5H, ZNF226, ANKEF1, TRIM33, APP, EPAS1, ARNT2, LDB2, EWSR1, PIN1, YES1, LDB1, IL36RN, TBC1D23, NXT2, IDI2, SSBP2, SSBP4, DIS3, LHX1, ISL2, ISL1, LMO4, LHX9, LHX6, MDC1, CLK1, PCGF1, NANOG, LMO2


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 SCNM1_SSBP3


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 SCNM1_SSBP3


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