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Center for Computational Systems Medicine
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Fusion Gene and Fusion Protein Summary

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Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)

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Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)

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Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)

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Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)

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Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)

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Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)

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Potential target of CAR-T therapy development

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Information on the samples that have these potential fusion neoantigens

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Fusion Protein Targeting Drugs - (Manual Curation)

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Fusion Protein Related diseases - (Manual Curation)

Fusion Protein:SF1-ITPR1

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: SF1-ITPR1
FusionPDB ID: 81012
FusionGDB2.0 ID: 81012
HgeneTgene
Gene symbol

SF1

ITPR1

Gene ID

7536

3708

Gene namesplicing factor 1inositol 1,4,5-trisphosphate receptor type 1
SynonymsBBP|D11S636|MBBP|ZCCHC25|ZFM1|ZNF162ACV|CLA4|INSP3R1|IP3R|IP3R1|PPP1R94|SCA15|SCA16|SCA29
Cytomap

11q13.1

3p26.1

Type of geneprotein-codingprotein-coding
Descriptionsplicing factor 1mammalian branch point-binding proteintranscription factor ZFM1zinc finger gene in MEN1 locuszinc finger protein 162inositol 1,4,5-trisphosphate receptor type 1IP3 receptorIP3R 1inositol 1,4,5-triphosphate receptor, type 1protein phosphatase 1, regulatory subunit 94type 1 InsP3 receptortype 1 inositol 1,4,5-trisphosphate receptor
Modification date2020031820200327
UniProtAcc.

Q14643

Main function of 5'-partner protein: FUNCTION: Intracellular channel that mediates calcium release from the endoplasmic reticulum following stimulation by inositol 1,4,5-trisphosphate (PubMed:27108797). Involved in the regulation of epithelial secretion of electrolytes and fluid through the interaction with AHCYL1 (By similarity). Plays a role in ER stress-induced apoptosis. Cytoplasmic calcium released from the ER triggers apoptosis by the activation of CaM kinase II, eventually leading to the activation of downstream apoptosis pathways (By similarity). {ECO:0000250|UniProtKB:P11881, ECO:0000269|PubMed:27108797}.
Ensembl transtripts involved in fusion geneENST idsENST00000227503, ENST00000334944, 
ENST00000377387, ENST00000377390, 
ENST00000377394, ENST00000433274, 
ENST00000422298, ENST00000489544, 
ENST00000463980, ENST00000302640, 
ENST00000354582, ENST00000357086, 
ENST00000423119, ENST00000443694, 
ENST00000456211, ENST00000544951, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score21 X 11 X 13=30039 X 13 X 8=936
# samples 2616
** MAII scorelog2(26/3003*10)=-3.52982094652869
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(16/936*10)=-2.54843662469604
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: SF1 [Title/Abstract] AND ITPR1 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: SF1 [Title/Abstract] AND ITPR1 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)SF1(64543970)-ITPR1(4669447), # samples:3
Anticipated loss of major functional domain due to fusion event.SF1-ITPR1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
SF1-ITPR1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
SF1-ITPR1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
SF1-ITPR1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
SF1-ITPR1 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
SF1-ITPR1 seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
* 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
TgeneITPR1

GO:0001666

response to hypoxia

19120137

TgeneITPR1

GO:0050849

negative regulation of calcium-mediated signaling

16793548



check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr11:64543970/chr3:4669447)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonRetention analysis results 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, are available here.

check buttonFusion gene breakpoints across SF1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across ITPR1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Amino Acid Sequences


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000377387SF1chr1164543970-ENST00000302640ITPR1chr34669447+102966127786802867
ENST00000377387SF1chr1164543970-ENST00000354582ITPR1chr34669447+102966127786802867
ENST00000377387SF1chr1164543970-ENST00000423119ITPR1chr34669447+101976127785812834
ENST00000377387SF1chr1164543970-ENST00000456211ITPR1chr34669447+99146127785362819
ENST00000377387SF1chr1164543970-ENST00000357086ITPR1chr34669447+99596127785812834
ENST00000377387SF1chr1164543970-ENST00000544951ITPR1chr34669447+3100612772614845
ENST00000377387SF1chr1164543970-ENST00000443694ITPR1chr34669447+98516127786802867
ENST00000377390SF1chr1164543970-ENST00000302640ITPR1chr34669447+1018249833885662742
ENST00000377390SF1chr1164543970-ENST00000354582ITPR1chr34669447+1018249833885662742
ENST00000377390SF1chr1164543970-ENST00000423119ITPR1chr34669447+1008349833884672709
ENST00000377390SF1chr1164543970-ENST00000456211ITPR1chr34669447+980049833884222694
ENST00000377390SF1chr1164543970-ENST00000357086ITPR1chr34669447+984549833884672709
ENST00000377390SF1chr1164543970-ENST00000544951ITPR1chr34669447+29864983382500720
ENST00000377390SF1chr1164543970-ENST00000443694ITPR1chr34669447+973749833885662742
ENST00000377394SF1chr1164543970-ENST00000302640ITPR1chr34669447+1019951535585832742
ENST00000377394SF1chr1164543970-ENST00000354582ITPR1chr34669447+1019951535585832742
ENST00000377394SF1chr1164543970-ENST00000423119ITPR1chr34669447+1010051535584842709
ENST00000377394SF1chr1164543970-ENST00000456211ITPR1chr34669447+981751535584392694
ENST00000377394SF1chr1164543970-ENST00000357086ITPR1chr34669447+986251535584842709
ENST00000377394SF1chr1164543970-ENST00000544951ITPR1chr34669447+30035153552517720
ENST00000377394SF1chr1164543970-ENST00000443694ITPR1chr34669447+975451535585832742
ENST00000227503SF1chr1164543970-ENST00000302640ITPR1chr34669447+1019951535585832742
ENST00000227503SF1chr1164543970-ENST00000354582ITPR1chr34669447+1019951535585832742
ENST00000227503SF1chr1164543970-ENST00000423119ITPR1chr34669447+1010051535584842709
ENST00000227503SF1chr1164543970-ENST00000456211ITPR1chr34669447+981751535584392694
ENST00000227503SF1chr1164543970-ENST00000357086ITPR1chr34669447+986251535584842709
ENST00000227503SF1chr1164543970-ENST00000544951ITPR1chr34669447+30035153552517720
ENST00000227503SF1chr1164543970-ENST00000443694ITPR1chr34669447+975451535585832742
ENST00000334944SF1chr1164543970-ENST00000302640ITPR1chr34669447+1023855439486222742
ENST00000334944SF1chr1164543970-ENST00000354582ITPR1chr34669447+1023855439486222742
ENST00000334944SF1chr1164543970-ENST00000423119ITPR1chr34669447+1013955439485232709
ENST00000334944SF1chr1164543970-ENST00000456211ITPR1chr34669447+985655439484782694
ENST00000334944SF1chr1164543970-ENST00000357086ITPR1chr34669447+990155439485232709
ENST00000334944SF1chr1164543970-ENST00000544951ITPR1chr34669447+30425543942556720
ENST00000334944SF1chr1164543970-ENST00000443694ITPR1chr34669447+979355439486222742
ENST00000377387SF1chr1164543969-ENST00000302640ITPR1chr34669446+102966127786802867
ENST00000377387SF1chr1164543969-ENST00000354582ITPR1chr34669446+102966127786802867
ENST00000377387SF1chr1164543969-ENST00000423119ITPR1chr34669446+101976127785812834
ENST00000377387SF1chr1164543969-ENST00000456211ITPR1chr34669446+99146127785362819
ENST00000377387SF1chr1164543969-ENST00000357086ITPR1chr34669446+99596127785812834
ENST00000377387SF1chr1164543969-ENST00000544951ITPR1chr34669446+3100612772614845
ENST00000377387SF1chr1164543969-ENST00000443694ITPR1chr34669446+98516127786802867
ENST00000377390SF1chr1164543969-ENST00000302640ITPR1chr34669446+1018249833885662742
ENST00000377390SF1chr1164543969-ENST00000354582ITPR1chr34669446+1018249833885662742
ENST00000377390SF1chr1164543969-ENST00000423119ITPR1chr34669446+1008349833884672709
ENST00000377390SF1chr1164543969-ENST00000456211ITPR1chr34669446+980049833884222694
ENST00000377390SF1chr1164543969-ENST00000357086ITPR1chr34669446+984549833884672709
ENST00000377390SF1chr1164543969-ENST00000544951ITPR1chr34669446+29864983382500720
ENST00000377390SF1chr1164543969-ENST00000443694ITPR1chr34669446+973749833885662742
ENST00000377394SF1chr1164543969-ENST00000302640ITPR1chr34669446+1019951535585832742
ENST00000377394SF1chr1164543969-ENST00000354582ITPR1chr34669446+1019951535585832742
ENST00000377394SF1chr1164543969-ENST00000423119ITPR1chr34669446+1010051535584842709
ENST00000377394SF1chr1164543969-ENST00000456211ITPR1chr34669446+981751535584392694
ENST00000377394SF1chr1164543969-ENST00000357086ITPR1chr34669446+986251535584842709
ENST00000377394SF1chr1164543969-ENST00000544951ITPR1chr34669446+30035153552517720
ENST00000377394SF1chr1164543969-ENST00000443694ITPR1chr34669446+975451535585832742
ENST00000227503SF1chr1164543969-ENST00000302640ITPR1chr34669446+1019951535585832742
ENST00000227503SF1chr1164543969-ENST00000354582ITPR1chr34669446+1019951535585832742
ENST00000227503SF1chr1164543969-ENST00000423119ITPR1chr34669446+1010051535584842709
ENST00000227503SF1chr1164543969-ENST00000456211ITPR1chr34669446+981751535584392694
ENST00000227503SF1chr1164543969-ENST00000357086ITPR1chr34669446+986251535584842709
ENST00000227503SF1chr1164543969-ENST00000544951ITPR1chr34669446+30035153552517720
ENST00000227503SF1chr1164543969-ENST00000443694ITPR1chr34669446+975451535585832742
ENST00000334944SF1chr1164543969-ENST00000302640ITPR1chr34669446+1023855439486222742
ENST00000334944SF1chr1164543969-ENST00000354582ITPR1chr34669446+1023855439486222742
ENST00000334944SF1chr1164543969-ENST00000423119ITPR1chr34669446+1013955439485232709
ENST00000334944SF1chr1164543969-ENST00000456211ITPR1chr34669446+985655439484782694
ENST00000334944SF1chr1164543969-ENST00000357086ITPR1chr34669446+990155439485232709
ENST00000334944SF1chr1164543969-ENST00000544951ITPR1chr34669446+30425543942556720
ENST00000334944SF1chr1164543969-ENST00000443694ITPR1chr34669446+979355439486222742

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000377387ENST00000302640SF1chr1164543970-ITPR1chr34669447+0.0008800960.99911994
ENST00000377387ENST00000354582SF1chr1164543970-ITPR1chr34669447+0.0008845270.9991154
ENST00000377387ENST00000423119SF1chr1164543970-ITPR1chr34669447+0.0008522860.99914765
ENST00000377387ENST00000456211SF1chr1164543970-ITPR1chr34669447+0.0009271540.9990728
ENST00000377387ENST00000357086SF1chr1164543970-ITPR1chr34669447+0.0009485760.9990514
ENST00000377387ENST00000544951SF1chr1164543970-ITPR1chr34669447+0.0015707870.99842924
ENST00000377387ENST00000443694SF1chr1164543970-ITPR1chr34669447+0.0011334890.99886656
ENST00000377390ENST00000302640SF1chr1164543970-ITPR1chr34669447+0.0011278310.9988721
ENST00000377390ENST00000354582SF1chr1164543970-ITPR1chr34669447+0.0011357830.9988643
ENST00000377390ENST00000423119SF1chr1164543970-ITPR1chr34669447+0.0010960250.998904
ENST00000377390ENST00000456211SF1chr1164543970-ITPR1chr34669447+0.0011999250.99880004
ENST00000377390ENST00000357086SF1chr1164543970-ITPR1chr34669447+0.0012277980.9987722
ENST00000377390ENST00000544951SF1chr1164543970-ITPR1chr34669447+0.0014801530.99851984
ENST00000377390ENST00000443694SF1chr1164543970-ITPR1chr34669447+0.0014412190.9985588
ENST00000377394ENST00000302640SF1chr1164543970-ITPR1chr34669447+0.0011357980.9988642
ENST00000377394ENST00000354582SF1chr1164543970-ITPR1chr34669447+0.0011419950.998858
ENST00000377394ENST00000423119SF1chr1164543970-ITPR1chr34669447+0.0011025790.99889743
ENST00000377394ENST00000456211SF1chr1164543970-ITPR1chr34669447+0.0012053740.99879456
ENST00000377394ENST00000357086SF1chr1164543970-ITPR1chr34669447+0.001233540.99876654
ENST00000377394ENST00000544951SF1chr1164543970-ITPR1chr34669447+0.0014626390.9985374
ENST00000377394ENST00000443694SF1chr1164543970-ITPR1chr34669447+0.0014496140.99855036
ENST00000227503ENST00000302640SF1chr1164543970-ITPR1chr34669447+0.0011357980.9988642
ENST00000227503ENST00000354582SF1chr1164543970-ITPR1chr34669447+0.0011419950.998858
ENST00000227503ENST00000423119SF1chr1164543970-ITPR1chr34669447+0.0011025790.99889743
ENST00000227503ENST00000456211SF1chr1164543970-ITPR1chr34669447+0.0012053740.99879456
ENST00000227503ENST00000357086SF1chr1164543970-ITPR1chr34669447+0.001233540.99876654
ENST00000227503ENST00000544951SF1chr1164543970-ITPR1chr34669447+0.0014626390.9985374
ENST00000227503ENST00000443694SF1chr1164543970-ITPR1chr34669447+0.0014496140.99855036
ENST00000334944ENST00000302640SF1chr1164543970-ITPR1chr34669447+0.0011821660.99881786
ENST00000334944ENST00000354582SF1chr1164543970-ITPR1chr34669447+0.0011884780.9988115
ENST00000334944ENST00000423119SF1chr1164543970-ITPR1chr34669447+0.0011480710.9988519
ENST00000334944ENST00000456211SF1chr1164543970-ITPR1chr34669447+0.0012563480.9987437
ENST00000334944ENST00000357086SF1chr1164543970-ITPR1chr34669447+0.0012836520.99871635
ENST00000334944ENST00000544951SF1chr1164543970-ITPR1chr34669447+0.0014926770.9985073
ENST00000334944ENST00000443694SF1chr1164543970-ITPR1chr34669447+0.0015115240.9984884
ENST00000377387ENST00000302640SF1chr1164543969-ITPR1chr34669446+0.0008800960.99911994
ENST00000377387ENST00000354582SF1chr1164543969-ITPR1chr34669446+0.0008845270.9991154
ENST00000377387ENST00000423119SF1chr1164543969-ITPR1chr34669446+0.0008522860.99914765
ENST00000377387ENST00000456211SF1chr1164543969-ITPR1chr34669446+0.0009271540.9990728
ENST00000377387ENST00000357086SF1chr1164543969-ITPR1chr34669446+0.0009485760.9990514
ENST00000377387ENST00000544951SF1chr1164543969-ITPR1chr34669446+0.0015707870.99842924
ENST00000377387ENST00000443694SF1chr1164543969-ITPR1chr34669446+0.0011334890.99886656
ENST00000377390ENST00000302640SF1chr1164543969-ITPR1chr34669446+0.0011278310.9988721
ENST00000377390ENST00000354582SF1chr1164543969-ITPR1chr34669446+0.0011357830.9988643
ENST00000377390ENST00000423119SF1chr1164543969-ITPR1chr34669446+0.0010960250.998904
ENST00000377390ENST00000456211SF1chr1164543969-ITPR1chr34669446+0.0011999250.99880004
ENST00000377390ENST00000357086SF1chr1164543969-ITPR1chr34669446+0.0012277980.9987722
ENST00000377390ENST00000544951SF1chr1164543969-ITPR1chr34669446+0.0014801530.99851984
ENST00000377390ENST00000443694SF1chr1164543969-ITPR1chr34669446+0.0014412190.9985588
ENST00000377394ENST00000302640SF1chr1164543969-ITPR1chr34669446+0.0011357980.9988642
ENST00000377394ENST00000354582SF1chr1164543969-ITPR1chr34669446+0.0011419950.998858
ENST00000377394ENST00000423119SF1chr1164543969-ITPR1chr34669446+0.0011025790.99889743
ENST00000377394ENST00000456211SF1chr1164543969-ITPR1chr34669446+0.0012053740.99879456
ENST00000377394ENST00000357086SF1chr1164543969-ITPR1chr34669446+0.001233540.99876654
ENST00000377394ENST00000544951SF1chr1164543969-ITPR1chr34669446+0.0014626390.9985374
ENST00000377394ENST00000443694SF1chr1164543969-ITPR1chr34669446+0.0014496140.99855036
ENST00000227503ENST00000302640SF1chr1164543969-ITPR1chr34669446+0.0011357980.9988642
ENST00000227503ENST00000354582SF1chr1164543969-ITPR1chr34669446+0.0011419950.998858
ENST00000227503ENST00000423119SF1chr1164543969-ITPR1chr34669446+0.0011025790.99889743
ENST00000227503ENST00000456211SF1chr1164543969-ITPR1chr34669446+0.0012053740.99879456
ENST00000227503ENST00000357086SF1chr1164543969-ITPR1chr34669446+0.001233540.99876654
ENST00000227503ENST00000544951SF1chr1164543969-ITPR1chr34669446+0.0014626390.9985374
ENST00000227503ENST00000443694SF1chr1164543969-ITPR1chr34669446+0.0014496140.99855036
ENST00000334944ENST00000302640SF1chr1164543969-ITPR1chr34669446+0.0011821660.99881786
ENST00000334944ENST00000354582SF1chr1164543969-ITPR1chr34669446+0.0011884780.9988115
ENST00000334944ENST00000423119SF1chr1164543969-ITPR1chr34669446+0.0011480710.9988519
ENST00000334944ENST00000456211SF1chr1164543969-ITPR1chr34669446+0.0012563480.9987437
ENST00000334944ENST00000357086SF1chr1164543969-ITPR1chr34669446+0.0012836520.99871635
ENST00000334944ENST00000544951SF1chr1164543969-ITPR1chr34669446+0.0014926770.9985073
ENST00000334944ENST00000443694SF1chr1164543969-ITPR1chr34669446+0.0015115240.9984884

check button Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones.

Get the fusion protein sequences from here.

Fusion protein sequence information is available in the fasta format.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

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Fusion Protein Breakpoint Sequences for SF1-ITPR1

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
SF1chr1164543969ITPR1chr3466944649853PPGLTREQERAYIDCLFKLCPMNRYS
SF1chr1164543969ITPR1chr3466944651553PPGLTREQERAYIDCLFKLCPMNRYS
SF1chr1164543969ITPR1chr3466944655453PPGLTREQERAYIDCLFKLCPMNRYS
SF1chr1164543969ITPR1chr34669446612178PPGLTREQERAYIDCLFKLCPMNRYS
SF1chr1164543970ITPR1chr3466944749853PPGLTREQERAYIDCLFKLCPMNRYS
SF1chr1164543970ITPR1chr3466944751553PPGLTREQERAYIDCLFKLCPMNRYS
SF1chr1164543970ITPR1chr3466944755453PPGLTREQERAYIDCLFKLCPMNRYS
SF1chr1164543970ITPR1chr34669447612178PPGLTREQERAYIDCLFKLCPMNRYS

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Potential FusionNeoAntigen Information of SF1-ITPR1 in HLA I

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.
SF1-ITPR1_64543969_4669446.msa

check button Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)
Fusion geneHchrHbpTgeneTchrTbpHLA IFusionNeoAntigen peptideBinding scoreImmunogenic scoreNeoantigen start (at BP 13)Neoantigen end (at BP 13)
SF1-ITPR1chr1164543969chr34669446515HLA-B15:18ERAYIDCLF0.37280.5466817
SF1-ITPR1chr1164543969chr34669446515HLA-C04:14AYIDCLFKL0.55890.68661019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:80AYIDCLFKL0.53650.93711019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:67AYIDCLFKL0.53650.93711019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:10AYIDCLFKL0.5130.95771019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:29AYIDCLFKL0.50520.93121019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:19AYIDCLFKL0.48580.691019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:05AYIDCLFKL0.47640.9661019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:46AYIDCLFKL0.45830.85631019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:13AYIDCLFKL0.45350.88771019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:27AYIDCLFKL0.39410.95611019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:95AYIDCLFKL0.3890.73631019
SF1-ITPR1chr1164543969chr34669446515HLA-C04:03YIDCLFKL10.74931119
SF1-ITPR1chr1164543969chr34669446515HLA-A30:01RAYIDCLFK0.99490.7719918
SF1-ITPR1chr1164543969chr34669446515HLA-B40:04QERAYIDCL0.98620.6776716
SF1-ITPR1chr1164543969chr34669446515HLA-C04:04AYIDCLFKL0.64180.81231019
SF1-ITPR1chr1164543969chr34669446515HLA-B41:03QERAYIDCL0.55160.5531716
SF1-ITPR1chr1164543969chr34669446515HLA-C07:02AYIDCLFKL0.53650.93711019
SF1-ITPR1chr1164543969chr34669446515HLA-C07:17AYIDCLFKL0.46610.96471019
SF1-ITPR1chr1164543969chr34669446515HLA-C14:03AYIDCLFKL0.35390.95941019
SF1-ITPR1chr1164543969chr34669446515HLA-C14:02AYIDCLFKL0.35390.95941019
SF1-ITPR1chr1164543969chr34669446515HLA-C06:06AYIDCLFKL0.3160.99011019

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Potential FusionNeoAntigen Information of SF1-ITPR1 in HLA II

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.

check button Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).
Fusion geneHchrHbpTgeneTchrTbpHLA IIFusionNeoAntigen peptideNeoantigen start (at BP 13)Neoantigen end (at BP 13)

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Fusion breakpoint peptide structures of SF1-ITPR1

check button3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens
* The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA.
File nameBPseqHgeneTgeneHchrHbpTchrTbpAAlen
2040EQERAYIDCLFKLCSF1ITPR1chr1164543969chr34669446515

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of SF1-ITPR1

check buttonVirtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.
HLA allelePDB IDFile nameBPseqDocking scoreGlide score
HLA-B51:011E282040EQERAYIDCLFKLC-2.66736-2.78076
HLA-A03:012XPG2040EQERAYIDCLFKLC-1.51105-2.54635
HLA-B14:023BVN2040EQERAYIDCLFKLC-5.83247-5.94587
HLA-B14:023BVN2040EQERAYIDCLFKLC-3.51703-4.55233
HLA-B52:013W392040EQERAYIDCLFKLC-5.64143-6.67673
HLA-B52:013W392040EQERAYIDCLFKLC-5.35834-5.47174
HLA-B18:014JQV2040EQERAYIDCLFKLC-4.10602-5.14132
HLA-B18:014JQV2040EQERAYIDCLFKLC-3.86802-3.98142
HLA-A11:014UQ22040EQERAYIDCLFKLC-9.64733-9.76073
HLA-A11:014UQ22040EQERAYIDCLFKLC-2.23117-3.26647
HLA-A24:025HGA2040EQERAYIDCLFKLC-5.71077-5.82417
HLA-A24:025HGA2040EQERAYIDCLFKLC-3.6538-4.6891
HLA-C08:026JTP2040EQERAYIDCLFKLC-5.36916-5.48256
HLA-B27:056PYJ2040EQERAYIDCLFKLC-6.42081-7.45611
HLA-B27:056PYJ2040EQERAYIDCLFKLC-5.71384-5.82724
HLA-B27:036PZ52040EQERAYIDCLFKLC-3.23395-3.34735
HLA-B27:036PZ52040EQERAYIDCLFKLC-2.07721-3.11251
HLA-B44:053DX82040EQERAYIDCLFKLC-5.14294-5.25634
HLA-B44:053DX82040EQERAYIDCLFKLC-3.98213-5.01743
HLA-A02:016TDR2040EQERAYIDCLFKLC-4.77803-5.81333

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Vaccine Design for the FusionNeoAntigens of SF1-ITPR1

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptide sequenceFusionNeoAntigen RNA sequence
SF1-ITPR1chr1164543969chr346694461019AYIDCLFKLCTTATATAGACTGCCTCTTTAAGCTAT
SF1-ITPR1chr1164543969chr346694461119YIDCLFKLATATAGACTGCCTCTTTAAGCTAT
SF1-ITPR1chr1164543969chr34669446716QERAYIDCLAAGAAAGAGCTTATATAGACTGCCTCT
SF1-ITPR1chr1164543969chr34669446817ERAYIDCLFAAAGAGCTTATATAGACTGCCTCTTTA
SF1-ITPR1chr1164543969chr34669446918RAYIDCLFKGAGCTTATATAGACTGCCTCTTTAAGC

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence

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Information of the samples that have these potential fusion neoantigens of SF1-ITPR1

check button These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens.
Cancer typeFusion geneHchrHbpHenstTchrTbpTenstSample
BRCASF1-ITPR1chr1164543969ENST00000227503chr34669446ENST00000302640TCGA-BH-A0C0

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Potential target of CAR-T therapy development for SF1-ITPR1

check button Predicted 3D structure. We used RoseTTAFold.

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, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features


* Minus value of BPloci means that the break point is located before the CDS.
- In-frame and retained 'Transmembrane'.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneITPR1chr11:64543969chr3:4669446ENST000003026403612283_230302744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003026403612315_233502744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003026403612362_238202744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003026403612406_242602744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003026403612449_246902744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003026403612578_259802744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003570863592283_230302711.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003570863592315_233502711.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003570863592362_238202711.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003570863592406_242602711.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003570863592449_246902711.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000003570863592578_259802711.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004436941592283_230302744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004436941592315_233502744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004436941592362_238202744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004436941592406_242602744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004436941592449_246902744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004436941592578_259802744.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004562113582283_230302696.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004562113582315_233502696.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004562113582362_238202696.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004562113582406_242602696.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004562113582449_246902696.0TransmembraneHelical
TgeneITPR1chr11:64543969chr3:4669446ENST000004562113582578_259802696.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003026403612283_230302744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003026403612315_233502744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003026403612362_238202744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003026403612406_242602744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003026403612449_246902744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003026403612578_259802744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003570863592283_230302711.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003570863592315_233502711.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003570863592362_238202711.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003570863592406_242602711.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003570863592449_246902711.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000003570863592578_259802711.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004436941592283_230302744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004436941592315_233502744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004436941592362_238202744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004436941592406_242602744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004436941592449_246902744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004436941592578_259802744.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004562113582283_230302696.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004562113582315_233502696.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004562113582362_238202696.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004562113582406_242602696.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004562113582449_246902696.0TransmembraneHelical
TgeneITPR1chr11:64543970chr3:4669447ENST000004562113582578_259802696.0TransmembraneHelical

check button Subcellular localization prediction of the transmembrane domain retained fusion proteins
* We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image.
HgeneHchrHbpHenstTgeneTchrTbpTenstDeepLoc result

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Related Drugs to SF1-ITPR1

check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to SF1-ITPR1

check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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