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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:KCNN1-SLC27A1

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: KCNN1-SLC27A1
FusionPDB ID: 41521
FusionGDB2.0 ID: 41521
HgeneTgene
Gene symbol

KCNN1

SLC27A1

Gene ID

3780

376497

Gene namepotassium calcium-activated channel subfamily N member 1solute carrier family 27 member 1
SynonymsKCa2.1|SK1|SKCA1|hSK1ACSVL5|FATP|FATP-1|FATP1
Cytomap

19p13.11

19p13.11

Type of geneprotein-codingprotein-coding
Descriptionsmall conductance calcium-activated potassium channel protein 1potassium channel, calcium activated intermediate/small conductance subfamily N alpha, member 1potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1smalllong-chain fatty acid transport protein 1fatty acid transport protein 1solute carrier family 27 (fatty acid transporter), member 1
Modification date2020031320200327
UniProtAcc

Q92952

.
Ensembl transtripts involved in fusion geneENST idsENST00000222249, ENST00000594192, 
ENST00000598424, ENST00000252595, 
ENST00000442725, ENST00000598848, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score5 X 6 X 3=905 X 5 X 4=100
# samples 55
** MAII scorelog2(5/90*10)=-0.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(5/100*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: KCNN1 [Title/Abstract] AND SLC27A1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)KCNN1(18100627)-SLC27A1(17594691), # samples:2
Anticipated loss of major functional domain due to fusion event.KCNN1-SLC27A1 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.
KCNN1-SLC27A1 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.
KCNN1-SLC27A1 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.
KCNN1-SLC27A1 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID

check buttonFusion gene breakpoints across KCNN1 (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 SLC27A1 (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 Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4OVTCGA-25-1329-01AKCNN1chr19

18100627

+SLC27A1chr19

17594691

+
ChimerDB4OVTCGA-25-1329-01AKCNN1chr19

18100627

+SLC27A1chr19

17597372

+
ChimerDB4OVTCGA-25-1329-01AKCNN1chr19

18100652

-SLC27A1chr19

17597372

+


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Fusion ORF Analysis


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)
ENST00000222249KCNN1chr1918100627+ENST00000442725SLC27A1chr1917597372+3288151415273287586
ENST00000222249KCNN1chr1918100627+ENST00000252595SLC27A1chr1917597372+4844151415273287586
ENST00000222249KCNN1chr1918100652-ENST00000442725SLC27A1chr1917597372+3391161722633901055
ENST00000222249KCNN1chr1918100652-ENST00000252595SLC27A1chr1917597372+4947161722633901054

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
ENST00000222249ENST00000442725KCNN1chr1918100627+SLC27A1chr1917597372+0.0148273790.9851726
ENST00000222249ENST00000252595KCNN1chr1918100627+SLC27A1chr1917597372+0.0078959610.99210405
ENST00000222249ENST00000442725KCNN1chr1918100652-SLC27A1chr1917597372+0.0028308870.9971691
ENST00000222249ENST00000252595KCNN1chr1918100652-SLC27A1chr1917597372+0.0013239940.998676

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>41521_41521_1_KCNN1-SLC27A1_KCNN1_chr19_18100627_ENST00000222249_SLC27A1_chr19_17597372_ENST00000252595_length(amino acids)=586AA_BP=
MIRVRLELRRHQRAGHTIPRIFQAVVQRQPERLALVDAGTGECWTFAQLDAYSNAVANLFRQLGFAPGDVVAIFLEGRPEFVGLWLGLAK
AGMEAALLNVNLRREPLAFCLGTSGAKALIFGGEMVAAVAEVSGHLGKSLIKFCSGDLGPEGILPDTHLLDPLLKEASTAPLAQIPSKGM
DDRLFYIYTSGTTGLPKAAIVVHSRYYRMAAFGHHAYRMQAADVLYDCLPLYHSAGNIIGVGQCLIYGLTVVLRKKFSASRFWDDCIKYN
CTVVQYIGEICRYLLKQPVREAERRHRVRLAVGNGLRPAIWEEFTERFGVRQIGEFYGATECNCSIANMDGKVGSCGFNSRILPHVYPIR
LVKVNEDTMELLRDAQGLCIPCQAGEPGLLVGQINQQDPLRRFDGYVSESATSKKIAHSVFSKGDSAYLSGDVLVMDELGYMYFRDRSGD
TFRWRGENVSTTEVEGVLSRLLGQTDVAVYGVAVPGVEGKAGMAAVADPHSLLDPNAIYQELQKVLAPYARPIFLRLLPQVDTTGTFKIQ

--------------------------------------------------------------

>41521_41521_2_KCNN1-SLC27A1_KCNN1_chr19_18100627_ENST00000222249_SLC27A1_chr19_17597372_ENST00000442725_length(amino acids)=586AA_BP=
MIRVRLELRRHQRAGHTIPRIFQAVVQRQPERLALVDAGTGECWTFAQLDAYSNAVANLFRQLGFAPGDVVAIFLEGRPEFVGLWLGLAK
AGMEAALLNVNLRREPLAFCLGTSGAKALIFGGEMVAAVAEVSGHLGKSLIKFCSGDLGPEGILPDTHLLDPLLKEASTAPLAQIPSKGM
DDRLFYIYTSGTTGLPKAAIVVHSRYYRMAAFGHHAYRMQAADVLYDCLPLYHSAGNIIGVGQCLIYGLTVVLRKKFSASRFWDDCIKYN
CTVVQYIGEICRYLLKQPVREAERRHRVRLAVGNGLRPAIWEEFTERFGVRQIGEFYGATECNCSIANMDGKVGSCGFNSRILPHVYPIR
LVKVNEDTMELLRDAQGLCIPCQAGEPGLLVGQINQQDPLRRFDGYVSESATSKKIAHSVFSKGDSAYLSGDVLVMDELGYMYFRDRSGD
TFRWRGENVSTTEVEGVLSRLLGQTDVAVYGVAVPGVEGKAGMAAVADPHSLLDPNAIYQELQKVLAPYARPIFLRLLPQVDTTGTFKIQ

--------------------------------------------------------------

>41521_41521_3_KCNN1-SLC27A1_KCNN1_chr19_18100652_ENST00000222249_SLC27A1_chr19_17597372_ENST00000252595_length(amino acids)=1054AA_BP=464
MHPRVSAGAQPLSHAGPRAACSEPNPCTQVVMNSHSYNGSVGRPLGSGPGALGRDPPDPEAGHPPQPPHSPGLQVVVAKSEPARPSPGSP
RGQPQDQDDDEDDEEDEAGRQRASGKPSNVGHRLGHRRALFEKRKRLSDYALIFGMFGIVVMVTETELSWGVYTKESLYSFALKCLISLS
TAILLGLVVLYHAREIQLFMVDNGADDWRIAMTCERVFLISLELAVCAIHPVPGHYRFTWTARLAFTYAPSVAEADVDVLLSIPMFLRLY
LLGRVMLLHSKIFTDASSRSIGALNKITFNTRFVMKTLMTICPGTVLLVFSISSWIIAAWTVRVCERYHDKQEVTSNFLGAMWLISITFL
SIGYGDMVPHTYCGKGVCLLTGIMGAGCTALVVAVVARKLELTKAEKHVHNFMMDTQLTKRVKNAAANVLRETWLIYKHTRLVKKPDQAR
VRKHQRKFLQAIHHGLSVLIRVRLELRRHQRAGHTIPRIFQAVVQRQPERLALVDAGTGECWTFAQLDAYSNAVANLFRQLGFAPGDVVA
IFLEGRPEFVGLWLGLAKAGMEAALLNVNLRREPLAFCLGTSGAKALIFGGEMVAAVAEVSGHLGKSLIKFCSGDLGPEGILPDTHLLDP
LLKEASTAPLAQIPSKGMDDRLFYIYTSGTTGLPKAAIVVHSRYYRMAAFGHHAYRMQAADVLYDCLPLYHSAGNIIGVGQCLIYGLTVV
LRKKFSASRFWDDCIKYNCTVVQYIGEICRYLLKQPVREAERRHRVRLAVGNGLRPAIWEEFTERFGVRQIGEFYGATECNCSIANMDGK
VGSCGFNSRILPHVYPIRLVKVNEDTMELLRDAQGLCIPCQAGEPGLLVGQINQQDPLRRFDGYVSESATSKKIAHSVFSKGDSAYLSGD
VLVMDELGYMYFRDRSGDTFRWRGENVSTTEVEGVLSRLLGQTDVAVYGVAVPGVEGKAGMAAVADPHSLLDPNAIYQELQKVLAPYARP

--------------------------------------------------------------

>41521_41521_4_KCNN1-SLC27A1_KCNN1_chr19_18100652_ENST00000222249_SLC27A1_chr19_17597372_ENST00000442725_length(amino acids)=1055AA_BP=464
MHPRVSAGAQPLSHAGPRAACSEPNPCTQVVMNSHSYNGSVGRPLGSGPGALGRDPPDPEAGHPPQPPHSPGLQVVVAKSEPARPSPGSP
RGQPQDQDDDEDDEEDEAGRQRASGKPSNVGHRLGHRRALFEKRKRLSDYALIFGMFGIVVMVTETELSWGVYTKESLYSFALKCLISLS
TAILLGLVVLYHAREIQLFMVDNGADDWRIAMTCERVFLISLELAVCAIHPVPGHYRFTWTARLAFTYAPSVAEADVDVLLSIPMFLRLY
LLGRVMLLHSKIFTDASSRSIGALNKITFNTRFVMKTLMTICPGTVLLVFSISSWIIAAWTVRVCERYHDKQEVTSNFLGAMWLISITFL
SIGYGDMVPHTYCGKGVCLLTGIMGAGCTALVVAVVARKLELTKAEKHVHNFMMDTQLTKRVKNAAANVLRETWLIYKHTRLVKKPDQAR
VRKHQRKFLQAIHHGLSVLIRVRLELRRHQRAGHTIPRIFQAVVQRQPERLALVDAGTGECWTFAQLDAYSNAVANLFRQLGFAPGDVVA
IFLEGRPEFVGLWLGLAKAGMEAALLNVNLRREPLAFCLGTSGAKALIFGGEMVAAVAEVSGHLGKSLIKFCSGDLGPEGILPDTHLLDP
LLKEASTAPLAQIPSKGMDDRLFYIYTSGTTGLPKAAIVVHSRYYRMAAFGHHAYRMQAADVLYDCLPLYHSAGNIIGVGQCLIYGLTVV
LRKKFSASRFWDDCIKYNCTVVQYIGEICRYLLKQPVREAERRHRVRLAVGNGLRPAIWEEFTERFGVRQIGEFYGATECNCSIANMDGK
VGSCGFNSRILPHVYPIRLVKVNEDTMELLRDAQGLCIPCQAGEPGLLVGQINQQDPLRRFDGYVSESATSKKIAHSVFSKGDSAYLSGD
VLVMDELGYMYFRDRSGDTFRWRGENVSTTEVEGVLSRLLGQTDVAVYGVAVPGVEGKAGMAAVADPHSLLDPNAIYQELQKVLAPYARP

--------------------------------------------------------------

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Fusion Protein Functional Features


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/chr19:18100627/chr19:17594691)
- 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 buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
KCNN1

Q92952

.
FUNCTION: Forms a voltage-independent potassium channel activated by intracellular calcium. Activation is followed by membrane hyperpolarization. Thought to regulate neuronal excitability by contributing to the slow component of synaptic afterhyperpolarization. The channel is blocked by apamin (By similarity). {ECO:0000250}.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811317_337432.6666666666667544.0IntramembranePore-forming%3B Name%3DSegment H5
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811111_131432.6666666666667544.0TransmembraneHelical%3B Name%3DSegment S1
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811140_160432.6666666666667544.0TransmembraneHelical%3B Name%3DSegment S2
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811179_199432.6666666666667544.0TransmembraneHelical%3B Name%3DSegment S3
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811228_248432.6666666666667544.0TransmembraneHelical%3B Name%3DSegment S4
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811277_297432.6666666666667544.0TransmembraneHelical%3B Name%3DSegment S5
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811346_366432.6666666666667544.0TransmembraneHelical%3B Name%3DSegment S6
TgeneSLC27A1chr19:18100627chr19:17597372ENST00000252595012246_25755.666666666666664647.0Nucleotide bindingAMP
TgeneSLC27A1chr19:18100627chr19:17597372ENST00000442725113246_25755.666666666666664647.0Nucleotide bindingAMP
TgeneSLC27A1chr19:18100652chr19:17597372ENST00000252595012246_25755.666666666666664647.0Nucleotide bindingAMP
TgeneSLC27A1chr19:18100652chr19:17597372ENST00000442725113246_25755.666666666666664647.0Nucleotide bindingAMP
TgeneSLC27A1chr19:18100627chr19:17597372ENST00000252595012191_47555.666666666666664647.0RegionSufficient for oligomerization
TgeneSLC27A1chr19:18100627chr19:17597372ENST00000442725113191_47555.666666666666664647.0RegionSufficient for oligomerization
TgeneSLC27A1chr19:18100652chr19:17597372ENST00000252595012191_47555.666666666666664647.0RegionSufficient for oligomerization
TgeneSLC27A1chr19:18100652chr19:17597372ENST00000442725113191_47555.666666666666664647.0RegionSufficient for oligomerization

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111509_5180544.0Compositional biasNote=Poly-Pro
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811509_518432.6666666666667544.0Compositional biasNote=Poly-Pro
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111317_3370544.0IntramembranePore-forming%3B Name%3DSegment H5
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111384_4630544.0RegionCalmodulin-binding
HgeneKCNN1chr19:18100652chr19:17597372ENST00000222249-811384_463432.6666666666667544.0RegionCalmodulin-binding
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111111_1310544.0TransmembraneHelical%3B Name%3DSegment S1
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111140_1600544.0TransmembraneHelical%3B Name%3DSegment S2
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111179_1990544.0TransmembraneHelical%3B Name%3DSegment S3
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111228_2480544.0TransmembraneHelical%3B Name%3DSegment S4
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111277_2970544.0TransmembraneHelical%3B Name%3DSegment S5
HgeneKCNN1chr19:18100627chr19:17597372ENST00000222249+111346_3660544.0TransmembraneHelical%3B Name%3DSegment S6
TgeneSLC27A1chr19:18100627chr19:17597372ENST000002525950121_1355.666666666666664647.0Topological domainExtracellular
TgeneSLC27A1chr19:18100627chr19:17597372ENST0000025259501235_64655.666666666666664647.0Topological domainCytoplasmic
TgeneSLC27A1chr19:18100627chr19:17597372ENST000004427251131_1355.666666666666664647.0Topological domainExtracellular
TgeneSLC27A1chr19:18100627chr19:17597372ENST0000044272511335_64655.666666666666664647.0Topological domainCytoplasmic
TgeneSLC27A1chr19:18100652chr19:17597372ENST000002525950121_1355.666666666666664647.0Topological domainExtracellular
TgeneSLC27A1chr19:18100652chr19:17597372ENST0000025259501235_64655.666666666666664647.0Topological domainCytoplasmic
TgeneSLC27A1chr19:18100652chr19:17597372ENST000004427251131_1355.666666666666664647.0Topological domainExtracellular
TgeneSLC27A1chr19:18100652chr19:17597372ENST0000044272511335_64655.666666666666664647.0Topological domainCytoplasmic
TgeneSLC27A1chr19:18100627chr19:17597372ENST0000025259501214_3455.666666666666664647.0TransmembraneHelical
TgeneSLC27A1chr19:18100627chr19:17597372ENST0000044272511314_3455.666666666666664647.0TransmembraneHelical
TgeneSLC27A1chr19:18100652chr19:17597372ENST0000025259501214_3455.666666666666664647.0TransmembraneHelical
TgeneSLC27A1chr19:18100652chr19:17597372ENST0000044272511314_3455.666666666666664647.0TransmembraneHelical


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
KCNN1
SLC27A1


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to KCNN1-SLC27A1


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 KCNN1-SLC27A1


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