![]() |
|||||||
|
Fusion Protein:SDHA-GIF |
Fusion Gene and Fusion Protein Summary |
![]() |
Fusion partner gene information | Fusion gene name: SDHA-GIF | FusionPDB ID: 79898 | FusionGDB2.0 ID: 79898 | Hgene | Tgene | Gene symbol | SDHA | GIF | Gene ID | 6389 | 4504 |
Gene name | succinate dehydrogenase complex flavoprotein subunit A | metallothionein 3 | |
Synonyms | CMD1GG|FP|PGL5|SDH1|SDH2|SDHF | GIF|GIFB|GRIF|ZnMT3 | |
Cytomap | 5p15.33 | 16q13 | |
Type of gene | protein-coding | protein-coding | |
Description | succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrialflavoprotein subunit of complex IIsuccinate dehydrogenase complex, subunit A, flavoprotein (Fp) | metallothionein-3growth inhibitory factormetallothionein 3 (growth inhibitory factor (neurotrophic))metallothionein-III | |
Modification date | 20200313 | 20200320 | |
UniProtAcc | Q5VUM1 Main function of 5'-partner protein: FUNCTION: Plays an essential role in the assembly of succinate dehydrogenase (SDH), an enzyme complex (also referred to as respiratory complex II) that is a component of both the tricarboxylic acid (TCA) cycle and the mitochondrial electron transport chain, and which couples the oxidation of succinate to fumarate with the reduction of ubiquinone (coenzyme Q) to ubiquinol (PubMed:24954416). Binds to the flavoprotein subunit SDHA in its FAD-bound form, blocking the generation of excess reactive oxigen species (ROS) and facilitating its assembly with the iron-sulfur protein subunit SDHB into the SDH catalytic dimer (By similarity). {ECO:0000250|UniProtKB:P38345, ECO:0000269|PubMed:24954416}. | . | |
Ensembl transtripts involved in fusion gene | ENST ids | ENST00000264932, ENST00000504309, ENST00000510361, ENST00000507522, | ENST00000257248, ENST00000541311, |
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 10 X 7 X 6=420 | 5 X 5 X 3=75 |
# samples | 11 | 6 | |
** MAII score | log2(11/420*10)=-1.93288580414146 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(6/75*10)=-0.321928094887362 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Fusion gene context | PubMed: SDHA [Title/Abstract] AND GIF [Title/Abstract] AND fusion [Title/Abstract] | ||
Fusion neoantigen context | PubMed: SDHA [Title/Abstract] AND GIF [Title/Abstract] AND neoantigen [Title/Abstract] | ||
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | SDHA(228448)-GIF(59599269), # samples:1 | ||
Anticipated loss of major functional domain due to fusion event. | SDHA-GIF 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. SDHA-GIF 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. |
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
![]() |
Partner | Gene | GO ID | GO term | PubMed ID |
Hgene | SDHA | GO:0006105 | succinate metabolic process | 7550341 |
Hgene | SDHA | GO:0022904 | respiratory electron transport chain | 7550341 |
Hgene | SDHA | GO:0055114 | oxidation-reduction process | 7550341 |
Tgene | GIF | GO:0001666 | response to hypoxia | 12763630 |
Tgene | GIF | GO:0001934 | positive regulation of protein phosphorylation | 18295594 |
Tgene | GIF | GO:0010628 | positive regulation of gene expression | 18295594 |
Tgene | GIF | GO:0010940 | positive regulation of necrotic cell death | 15129022|16387743 |
Tgene | GIF | GO:0010942 | positive regulation of cell death | 16387743 |
Tgene | GIF | GO:0019430 | removal of superoxide radicals | 12383939 |
Tgene | GIF | GO:0030308 | negative regulation of cell growth | 16601975|17712581 |
Tgene | GIF | GO:0030517 | negative regulation of axon extension | 16601975|17712581 |
Tgene | GIF | GO:0030949 | positive regulation of vascular endothelial growth factor receptor signaling pathway | 18295594 |
Tgene | GIF | GO:0032148 | activation of protein kinase B activity | 18295594 |
Tgene | GIF | GO:0035690 | cellular response to drug | 19536566 |
Tgene | GIF | GO:0036091 | positive regulation of transcription from RNA polymerase II promoter in response to oxidative stress | 18554677 |
Tgene | GIF | GO:0043066 | negative regulation of apoptotic process | 15129022|18554677 |
Tgene | GIF | GO:0043154 | negative regulation of cysteine-type endopeptidase activity involved in apoptotic process | 16387743 |
Tgene | GIF | GO:0043491 | protein kinase B signaling | 18554677 |
Tgene | GIF | GO:0045893 | positive regulation of transcription, DNA-templated | 18295594 |
Tgene | GIF | GO:0050821 | protein stabilization | 18295594 |
Tgene | GIF | GO:0051354 | negative regulation of oxidoreductase activity | 21320589 |
Tgene | GIF | GO:0055069 | zinc ion homeostasis | 18157556 |
Tgene | GIF | GO:0055073 | cadmium ion homeostasis | 18157556 |
Tgene | GIF | GO:0060547 | negative regulation of necrotic cell death | 18554677 |
Tgene | GIF | GO:0070371 | ERK1 and ERK2 cascade | 18554677 |
Tgene | GIF | GO:0070374 | positive regulation of ERK1 and ERK2 cascade | 18295594 |
Tgene | GIF | GO:0071276 | cellular response to cadmium ion | 16387743 |
Tgene | GIF | GO:0071732 | cellular response to nitric oxide | 18157556 |
Tgene | GIF | GO:2000117 | negative regulation of cysteine-type endopeptidase activity | 18554677 |
Tgene | GIF | GO:2000378 | negative regulation of reactive oxygen species metabolic process | 18554677 |
![]() Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr5:228448/chr11:59599269) - 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. |
![]() |
![]() |
![]() * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
![]() |
![]() * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
![]() |
Top |
Fusion Amino Acid Sequences |
![]() |
Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
ENST00000264932 | SDHA | chr5 | 228448 | + | ENST00000257248 | GIF | chr11 | 59599269 | - | 1282 | 885 | 73 | 1065 | 330 |
ENST00000264932 | SDHA | chr5 | 228448 | + | ENST00000541311 | GIF | chr11 | 59599269 | - | 1275 | 885 | 73 | 1065 | 330 |
ENST00000504309 | SDHA | chr5 | 228448 | + | ENST00000257248 | GIF | chr11 | 59599269 | - | 1220 | 823 | 11 | 1003 | 330 |
ENST00000504309 | SDHA | chr5 | 228448 | + | ENST00000541311 | GIF | chr11 | 59599269 | - | 1213 | 823 | 11 | 1003 | 330 |
ENST00000510361 | SDHA | chr5 | 228448 | + | ENST00000257248 | GIF | chr11 | 59599269 | - | 1061 | 664 | 38 | 844 | 268 |
ENST00000510361 | SDHA | chr5 | 228448 | + | ENST00000541311 | GIF | chr11 | 59599269 | - | 1054 | 664 | 38 | 844 | 268 |
![]() |
Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
ENST00000264932 | ENST00000257248 | SDHA | chr5 | 228448 | + | GIF | chr11 | 59599269 | - | 0.00107342 | 0.9989266 |
ENST00000264932 | ENST00000541311 | SDHA | chr5 | 228448 | + | GIF | chr11 | 59599269 | - | 0.001115402 | 0.9988846 |
ENST00000504309 | ENST00000257248 | SDHA | chr5 | 228448 | + | GIF | chr11 | 59599269 | - | 0.00094549 | 0.9990545 |
ENST00000504309 | ENST00000541311 | SDHA | chr5 | 228448 | + | GIF | chr11 | 59599269 | - | 0.000993663 | 0.99900633 |
ENST00000510361 | ENST00000257248 | SDHA | chr5 | 228448 | + | GIF | chr11 | 59599269 | - | 0.000961102 | 0.99903893 |
ENST00000510361 | ENST00000541311 | SDHA | chr5 | 228448 | + | GIF | chr11 | 59599269 | - | 0.00101645 | 0.99898356 |
![]() |
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 |
Top |
Fusion Protein Breakpoint Sequences for SDHA-GIF |
![]() |
Hgene | Hchr | Hbp | Tgene | Tchr | Tbp | Length(fusion protein) | BP in fusion protein | Peptide |
SDHA | chr5 | 228448 | GIF | chr11 | 59599269 | 664 | 209 | HRIRAKNTVVATGFETTMTSWGLVVS |
SDHA | chr5 | 228448 | GIF | chr11 | 59599269 | 823 | 271 | HRIRAKNTVVATGFETTMTSWGLVVS |
SDHA | chr5 | 228448 | GIF | chr11 | 59599269 | 885 | 271 | HRIRAKNTVVATGFETTMTSWGLVVS |
Top |
Potential FusionNeoAntigen Information of SDHA-GIF in HLA I |
![]() |
SDHA-GIF_228448_59599269.msa |
![]() * We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5) |
Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA I | FusionNeoAntigen peptide | Binding score | Immunogenic score | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B46:01 | VATGFETTM | 0.9819 | 0.747 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:01 | VATGFETTM | 0.9782 | 0.8988 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-A24:17 | GFETTMTSW | 0.9575 | 0.7962 | 12 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:03 | VATGFETTM | 0.9519 | 0.8851 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:05 | VATGFETTM | 0.9501 | 0.7858 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-A31:08 | GFETTMTSW | 0.8534 | 0.8009 | 12 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:02 | VATGFETTM | 0.7016 | 0.9757 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:04 | VATGFETTM | 0.7016 | 0.9757 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:01 | TGFETTMTSW | 0.9995 | 0.9943 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B58:02 | TGFETTMTSW | 0.9983 | 0.9892 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B58:01 | TGFETTMTSW | 0.998 | 0.9898 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:03 | TGFETTMTSW | 0.9866 | 0.9971 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B53:01 | TGFETTMTSW | 0.9747 | 0.933 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:01 | ATGFETTMTSW | 0.9998 | 0.9897 | 10 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B58:01 | ATGFETTMTSW | 0.9984 | 0.9813 | 10 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:03 | ATGFETTMTSW | 0.9966 | 0.9962 | 10 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:08 | VATGFETTM | 0.9992 | 0.9298 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:19 | VATGFETTM | 0.9992 | 0.9947 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:07 | VATGFETTM | 0.9984 | 0.9861 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C15:04 | VATGFETTM | 0.9984 | 0.9744 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C15:06 | VATGFETTM | 0.9966 | 0.9749 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C04:06 | VATGFETTM | 0.9843 | 0.9826 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C12:12 | VATGFETTM | 0.968 | 0.9692 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C06:03 | VATGFETTM | 0.964 | 0.994 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C12:04 | VATGFETTM | 0.9632 | 0.9922 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C08:04 | VATGFETTM | 0.9574 | 0.9915 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C08:13 | VATGFETTM | 0.9574 | 0.9915 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:14 | VATGFETTM | 0.8703 | 0.9922 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:12 | VATGFETTM | 0.7016 | 0.9757 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C08:03 | VATGFETTM | 0.6425 | 0.9947 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C02:06 | VATGFETTM | 0.6415 | 0.9816 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:04 | VATGFETTM | 0.9995 | 0.9937 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:03 | VATGFETTM | 0.9995 | 0.9937 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:02 | VATGFETTM | 0.9993 | 0.9852 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:67 | VATGFETTM | 0.9989 | 0.9909 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:17 | VATGFETTM | 0.9985 | 0.9783 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:05 | VATGFETTM | 0.9984 | 0.9475 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C15:09 | VATGFETTM | 0.9984 | 0.9744 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C12:02 | VATGFETTM | 0.9977 | 0.9854 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C15:05 | VATGFETTM | 0.9945 | 0.9822 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C15:02 | VATGFETTM | 0.9932 | 0.9776 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C12:03 | VATGFETTM | 0.9881 | 0.9799 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C16:04 | VATGFETTM | 0.9858 | 0.9826 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:11 | VATGFETTM | 0.9854 | 0.9334 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C03:06 | VATGFETTM | 0.9786 | 0.9944 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:77 | VATGFETTM | 0.9782 | 0.8988 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:23 | VATGFETTM | 0.9771 | 0.9035 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:13 | VATGFETTM | 0.9461 | 0.8912 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C16:01 | VATGFETTM | 0.8703 | 0.9883 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C16:02 | VATGFETTM | 0.7618 | 0.9957 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:22 | VATGFETTM | 0.7339 | 0.7371 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B35:09 | VATGFETTM | 0.7016 | 0.9757 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C02:10 | VATGFETTM | 0.7002 | 0.9858 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C02:02 | VATGFETTM | 0.7002 | 0.9858 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C08:01 | VATGFETTM | 0.6425 | 0.9947 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B07:13 | VATGFETTM | 0.5381 | 0.8179 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-C17:01 | VATGFETTM | 0.3164 | 0.9855 | 9 | 18 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:10 | TGFETTMTSW | 0.9995 | 0.9943 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:04 | TGFETTMTSW | 0.9991 | 0.9059 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:02 | TGFETTMTSW | 0.9941 | 0.9897 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B15:13 | TGFETTMTSW | 0.9833 | 0.992 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B15:68 | AKNTVVATGF | 0.9477 | 0.6313 | 4 | 14 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B53:02 | TGFETTMTSW | 0.917 | 0.9125 | 11 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:10 | ATGFETTMTSW | 0.9998 | 0.9897 | 10 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:04 | ATGFETTMTSW | 0.9998 | 0.9374 | 10 | 21 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | HLA-B57:02 | ATGFETTMTSW | 0.9984 | 0.9916 | 10 | 21 |
Top |
Potential FusionNeoAntigen Information of SDHA-GIF in HLA II |
![]() |
SDHA-GIF_228448_59599269.msa |
![]() * We used NetMHCIIpan v4.1 (%rank<0.5). |
Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA II | FusionNeoAntigen peptide | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | DRB1-0437 | HRIRAKNTVVATGFE | 0 | 15 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | DRB1-0804 | HRIRAKNTVVATGFE | 0 | 15 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | DRB1-0828 | HRIRAKNTVVATGFE | 0 | 15 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | DRB1-1167 | HRIRAKNTVVATGFE | 0 | 15 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | DRB1-1367 | HRIRAKNTVVATGFE | 0 | 15 |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 885 | DRB1-1415 | HRIRAKNTVVATGFE | 0 | 15 |
Top |
Fusion breakpoint peptide structures of SDHA-GIF |
![]() * 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 name | BPseq | Hgene | Tgene | Hchr | Hbp | Tchr | Tbp | AAlen |
6426 | NTVVATGFETTMTS | SDHA | GIF | chr5 | 228448 | chr11 | 59599269 | 885 |
Top |
Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of SDHA-GIF |
![]() * We used Glide to predict the interaction between HLAs and neoantigens. |
HLA allele | PDB ID | File name | BPseq | Docking score | Glide score |
HLA-B14:02 | 3BVN | 6426 | NTVVATGFETTMTS | -7.15543 | -7.26883 |
HLA-B14:02 | 3BVN | 6426 | NTVVATGFETTMTS | -4.77435 | -5.80965 |
HLA-B52:01 | 3W39 | 6426 | NTVVATGFETTMTS | -6.80875 | -6.92215 |
HLA-B52:01 | 3W39 | 6426 | NTVVATGFETTMTS | -4.20386 | -5.23916 |
HLA-A11:01 | 4UQ2 | 6426 | NTVVATGFETTMTS | -7.5194 | -8.5547 |
HLA-A11:01 | 4UQ2 | 6426 | NTVVATGFETTMTS | -6.9601 | -7.0735 |
HLA-A24:02 | 5HGA | 6426 | NTVVATGFETTMTS | -7.52403 | -7.63743 |
HLA-A24:02 | 5HGA | 6426 | NTVVATGFETTMTS | -5.82433 | -6.85963 |
HLA-B27:05 | 6PYJ | 6426 | NTVVATGFETTMTS | -3.28285 | -4.31815 |
HLA-B44:05 | 3DX8 | 6426 | NTVVATGFETTMTS | -5.91172 | -6.94702 |
HLA-B44:05 | 3DX8 | 6426 | NTVVATGFETTMTS | -4.24346 | -4.35686 |
Top |
Vaccine Design for the FusionNeoAntigens of SDHA-GIF |
![]() |
Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide sequence | FusionNeoAntigen RNA sequence |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 10 | 21 | ATGFETTMTSW | TGCCACAGGATTTGAAACCACAATGACATCTTG |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 11 | 21 | TGFETTMTSW | CACAGGATTTGAAACCACAATGACATCTTG |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 12 | 21 | GFETTMTSW | AGGATTTGAAACCACAATGACATCTTG |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 4 | 14 | AKNTVVATGF | AGCAAAGAACACTGTTGTTGCCACAGGATT |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 9 | 18 | VATGFETTM | TGTTGCCACAGGATTTGAAACCACAAT |
![]() |
Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide | FusionNEoAntigen RNA sequence |
SDHA-GIF | chr5 | 228448 | chr11 | 59599269 | 0 | 15 | HRIRAKNTVVATGFE | CCATCGCATAAGAGCAAAGAACACTGTTGTTGCCACAGGATTTGA |
Top |
Information of the samples that have these potential fusion neoantigens of SDHA-GIF |
![]() |
Cancer type | Fusion gene | Hchr | Hbp | Henst | Tchr | Tbp | Tenst | Sample |
Non-Cancer | SDHA-GIF | chr5 | 228448 | ENST00000264932 | chr11 | 59599269 | ENST00000257248 | 169N |
Top |
Potential target of CAR-T therapy development for SDHA-GIF |
![]() |
![]() * Minus value of BPloci means that the break point is located before the CDS. |
- In-frame and retained 'Transmembrane'. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
![]() * 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. |
Hgene | Hchr | Hbp | Henst | Tgene | Tchr | Tbp | Tenst | DeepLoc result |
Top |
Related Drugs to SDHA-GIF |
![]() (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
Hgene | Tgene | Drug | Source | PMID |
Top |
Related Diseases to SDHA-GIF |
![]() (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
Hgene | Tgene | Disease | Source | PMID |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |