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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:SNX27-CDKN3 (FusionGDB2 ID:84354)

Fusion Gene Summary for SNX27-CDKN3

check button Fusion gene summary
Fusion gene informationFusion gene name: SNX27-CDKN3
Fusion gene ID: 84354
HgeneTgene
Gene symbol

SNX27

CDKN3

Gene ID

81609

1033

Gene namesorting nexin 27cyclin dependent kinase inhibitor 3
SynonymsMRT1|MY014CDI1|CIP2|KAP|KAP1
Cytomap

1q21.3

14q22.2

Type of geneprotein-codingprotein-coding
Descriptionsorting nexin-27methamphetamine-responsive transcript 1sorting nexin family member 27cyclin-dependent kinase inhibitor 3CDK2-associated dual specificity phosphataseCdk-associated protein phosphatasecyclin-dependent kinase inhibitorcyclin-dependent kinase interacting protein 2cyclin-dependent kinase interactor 1kinase-associated phos
Modification date2020031320200313
UniProtAcc.

Q16667

Ensembl transtripts involved in fusion geneENST00000458013, ENST00000368843, 
ENST00000368838, ENST00000482791, 
ENST00000335183, ENST00000543789, 
ENST00000442975, ENST00000458126, 
ENST00000556102, ENST00000541304, 
ENST00000556305, ENST00000395577, 
Fusion gene scores* DoF score15 X 9 X 10=13505 X 7 X 4=140
# samples 166
** MAII scorelog2(16/1350*10)=-3.07681559705083
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(6/140*10)=-1.22239242133645
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SNX27 [Title/Abstract] AND CDKN3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSNX27(151584988)-CDKN3(54882617), # samples:2
Anticipated loss of major functional domain due to fusion event.SNX27-CDKN3 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
SNX27-CDKN3 seems lost the major protein functional domain in Tgene partner, which is a essential gene 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
TgeneCDKN3

GO:0007050

cell cycle arrest

8242750


check buttonFusion gene breakpoints across SNX27 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across CDKN3 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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-61-1918-01ASNX27chr1

151584988

+CDKN3chr14

54882617

+
ChimerDB4OVTCGA-61-1918-01ASNX27chr1

151584988

+CDKN3chr14

54882617

+
ChimerDB4OVTCGA-61-1918-01ASNX27chr1

151584988

+CDKN3chr14

54884566

+


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Fusion Gene ORF analysis for SNX27-CDKN3

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
In-frameENST00000458013ENST00000335183SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000458013ENST00000543789SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000458013ENST00000442975SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000458013ENST00000458126SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000458013ENST00000556102SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000458013ENST00000541304SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-3UTRENST00000458013ENST00000556305SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-3UTRENST00000458013ENST00000395577SNX27chr1

151584988

+CDKN3chr14

54882617

+
In-frameENST00000368843ENST00000335183SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000368843ENST00000543789SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000368843ENST00000442975SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000368843ENST00000458126SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000368843ENST00000556102SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-intronENST00000368843ENST00000541304SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-3UTRENST00000368843ENST00000556305SNX27chr1

151584988

+CDKN3chr14

54882617

+
5CDS-3UTRENST00000368843ENST00000395577SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-3CDSENST00000368838ENST00000335183SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000368838ENST00000543789SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000368838ENST00000442975SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000368838ENST00000458126SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000368838ENST00000556102SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000368838ENST00000541304SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-3UTRENST00000368838ENST00000556305SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-3UTRENST00000368838ENST00000395577SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-3CDSENST00000482791ENST00000335183SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000482791ENST00000543789SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000482791ENST00000442975SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000482791ENST00000458126SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000482791ENST00000556102SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-intronENST00000482791ENST00000541304SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-3UTRENST00000482791ENST00000556305SNX27chr1

151584988

+CDKN3chr14

54882617

+
intron-3UTRENST00000482791ENST00000395577SNX27chr1

151584988

+CDKN3chr14

54882617

+
Frame-shiftENST00000458013ENST00000335183SNX27chr1

151584988

+CDKN3chr14

54884566

+
In-frameENST00000458013ENST00000543789SNX27chr1

151584988

+CDKN3chr14

54884566

+
Frame-shiftENST00000458013ENST00000442975SNX27chr1

151584988

+CDKN3chr14

54884566

+
Frame-shiftENST00000458013ENST00000458126SNX27chr1

151584988

+CDKN3chr14

54884566

+
Frame-shiftENST00000458013ENST00000556102SNX27chr1

151584988

+CDKN3chr14

54884566

+
5CDS-intronENST00000458013ENST00000541304SNX27chr1

151584988

+CDKN3chr14

54884566

+
5CDS-3UTRENST00000458013ENST00000556305SNX27chr1

151584988

+CDKN3chr14

54884566

+
5CDS-3UTRENST00000458013ENST00000395577SNX27chr1

151584988

+CDKN3chr14

54884566

+
Frame-shiftENST00000368843ENST00000335183SNX27chr1

151584988

+CDKN3chr14

54884566

+
In-frameENST00000368843ENST00000543789SNX27chr1

151584988

+CDKN3chr14

54884566

+
Frame-shiftENST00000368843ENST00000442975SNX27chr1

151584988

+CDKN3chr14

54884566

+
Frame-shiftENST00000368843ENST00000458126SNX27chr1

151584988

+CDKN3chr14

54884566

+
Frame-shiftENST00000368843ENST00000556102SNX27chr1

151584988

+CDKN3chr14

54884566

+
5CDS-intronENST00000368843ENST00000541304SNX27chr1

151584988

+CDKN3chr14

54884566

+
5CDS-3UTRENST00000368843ENST00000556305SNX27chr1

151584988

+CDKN3chr14

54884566

+
5CDS-3UTRENST00000368843ENST00000395577SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000368838ENST00000335183SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000368838ENST00000543789SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000368838ENST00000442975SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000368838ENST00000458126SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000368838ENST00000556102SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-intronENST00000368838ENST00000541304SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3UTRENST00000368838ENST00000556305SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3UTRENST00000368838ENST00000395577SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000482791ENST00000335183SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000482791ENST00000543789SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000482791ENST00000442975SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000482791ENST00000458126SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3CDSENST00000482791ENST00000556102SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-intronENST00000482791ENST00000541304SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3UTRENST00000482791ENST00000556305SNX27chr1

151584988

+CDKN3chr14

54884566

+
intron-3UTRENST00000482791ENST00000395577SNX27chr1

151584988

+CDKN3chr14

54884566

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000458013SNX27chr1151584988+ENST00000335183CDKN3chr1454882617+794431120653177
ENST00000368843SNX27chr1151584988+ENST00000335183CDKN3chr1454882617+794431120653177
ENST00000458013SNX27chr1151584988+ENST00000543789CDKN3chr1454884566+535431533153126
ENST00000368843SNX27chr1151584988+ENST00000543789CDKN3chr1454884566+535431533153126

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
ENST00000458013ENST00000335183SNX27chr1151584988+CDKN3chr1454882617+0.0088611650.9911389
ENST00000368843ENST00000335183SNX27chr1151584988+CDKN3chr1454882617+0.0088611650.9911389
ENST00000458013ENST00000543789SNX27chr1151584988+CDKN3chr1454884566+0.0357182770.96428174
ENST00000368843ENST00000543789SNX27chr1151584988+CDKN3chr1454884566+0.0357182770.96428174

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Fusion Genomic Features for SNX27-CDKN3


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
SNX27chr1151584988+CDKN3chr1454882616+5.86E-101
SNX27chr1151584988+CDKN3chr1454884568+1.87E-131
SNX27chr1151584988+CDKN3chr1454882616+5.86E-101
SNX27chr1151584988+CDKN3chr1454884568+1.87E-131

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for SNX27-CDKN3


check button Go to

FGviewer for the breakpoints of chr1:151584988-chr14:54882617

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.CDKN3

Q16667

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.FUNCTION: May play a role in cell cycle regulation. Dual specificity phosphatase active toward substrates containing either phosphotyrosine or phosphoserine residues. Dephosphorylates CDK2 at 'Thr-160' in a cyclin-dependent manner. {ECO:0000269|PubMed:7569954, ECO:0000269|PubMed:8127873, ECO:0000269|PubMed:8242750}.

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
HgeneSNX27chr1:151584988chr14:54882617ENST00000368838+111161_2690.0436.0DomainPX
HgeneSNX27chr1:151584988chr14:54882617ENST00000368838+11143_1360.0436.0DomainPDZ
HgeneSNX27chr1:151584988chr14:54882617ENST00000368843+112161_269103.66666666666667529.0DomainPX
HgeneSNX27chr1:151584988chr14:54882617ENST00000368843+11243_136103.66666666666667529.0DomainPDZ
HgeneSNX27chr1:151584988chr14:54882617ENST00000458013+112161_269103.66666666666667542.0DomainPX
HgeneSNX27chr1:151584988chr14:54882617ENST00000458013+11243_136103.66666666666667542.0DomainPDZ
HgeneSNX27chr1:151584988chr14:54884566ENST00000368838+111161_2690.0436.0DomainPX
HgeneSNX27chr1:151584988chr14:54884566ENST00000368838+11143_1360.0436.0DomainPDZ
HgeneSNX27chr1:151584988chr14:54884566ENST00000368843+112161_269103.66666666666667529.0DomainPX
HgeneSNX27chr1:151584988chr14:54884566ENST00000368843+11243_136103.66666666666667529.0DomainPDZ
HgeneSNX27chr1:151584988chr14:54884566ENST00000458013+112161_269103.66666666666667542.0DomainPX
HgeneSNX27chr1:151584988chr14:54884566ENST00000458013+11243_136103.66666666666667542.0DomainPDZ
HgeneSNX27chr1:151584988chr14:54882617ENST00000368838+111273_3620.0436.0RegionNote=FERM-like region F1
HgeneSNX27chr1:151584988chr14:54882617ENST00000368838+111373_4210.0436.0RegionNote=FERM-like region F2
HgeneSNX27chr1:151584988chr14:54882617ENST00000368838+111425_5250.0436.0RegionNote=FERM-like region F3
HgeneSNX27chr1:151584988chr14:54882617ENST00000368843+112273_362103.66666666666667529.0RegionNote=FERM-like region F1
HgeneSNX27chr1:151584988chr14:54882617ENST00000368843+112373_421103.66666666666667529.0RegionNote=FERM-like region F2
HgeneSNX27chr1:151584988chr14:54882617ENST00000368843+112425_525103.66666666666667529.0RegionNote=FERM-like region F3
HgeneSNX27chr1:151584988chr14:54882617ENST00000458013+112273_362103.66666666666667542.0RegionNote=FERM-like region F1
HgeneSNX27chr1:151584988chr14:54882617ENST00000458013+112373_421103.66666666666667542.0RegionNote=FERM-like region F2
HgeneSNX27chr1:151584988chr14:54882617ENST00000458013+112425_525103.66666666666667542.0RegionNote=FERM-like region F3
HgeneSNX27chr1:151584988chr14:54884566ENST00000368838+111273_3620.0436.0RegionNote=FERM-like region F1
HgeneSNX27chr1:151584988chr14:54884566ENST00000368838+111373_4210.0436.0RegionNote=FERM-like region F2
HgeneSNX27chr1:151584988chr14:54884566ENST00000368838+111425_5250.0436.0RegionNote=FERM-like region F3
HgeneSNX27chr1:151584988chr14:54884566ENST00000368843+112273_362103.66666666666667529.0RegionNote=FERM-like region F1
HgeneSNX27chr1:151584988chr14:54884566ENST00000368843+112373_421103.66666666666667529.0RegionNote=FERM-like region F2
HgeneSNX27chr1:151584988chr14:54884566ENST00000368843+112425_525103.66666666666667529.0RegionNote=FERM-like region F3
HgeneSNX27chr1:151584988chr14:54884566ENST00000458013+112273_362103.66666666666667542.0RegionNote=FERM-like region F1
HgeneSNX27chr1:151584988chr14:54884566ENST00000458013+112373_421103.66666666666667542.0RegionNote=FERM-like region F2
HgeneSNX27chr1:151584988chr14:54884566ENST00000458013+112425_525103.66666666666667542.0RegionNote=FERM-like region F3
TgeneCDKN3chr1:151584988chr14:54882617ENST000003351834833_201138.66666666666666213.0DomainTyrosine-protein phosphatase
TgeneCDKN3chr1:151584988chr14:54882617ENST000004429753733_20198.66666666666667173.0DomainTyrosine-protein phosphatase
TgeneCDKN3chr1:151584988chr14:54884566ENST000003351835833_201149.33333333333334213.0DomainTyrosine-protein phosphatase
TgeneCDKN3chr1:151584988chr14:54884566ENST000004429754733_201109.33333333333333173.0DomainTyrosine-protein phosphatase


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Fusion Gene Sequence for SNX27-CDKN3


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>In-frame_ENST00000458013_ENST00000335183_TCGA-61-1918-01A_SNX27_chr1_151584988_+_CDKN3_chr14_54882617_length(transcript)=794nt_BP=431nt
TCCCGCGGCCGGCGGATCGGGCGCGCGCGTCGGGGGTCGTCCGGCTGCCAGGCAGGGCGAGCACGCGCCGGGAGGCCTTGGAGGCGTAGG
GGGCGGGGGTACGGCTCGCCTGCTCGCAAGATGGCGGACGAGGACGGGGAAGGGATTCATCCCTCAGCCCCTCACAGGAACGGAGGTGGC
GGCGGCGGCGGGGGGTCTGGGCTCCACTGCGCCGGGAACGGCGGCGGGGGAGGCGGCGGCCCGCGGGTCGTGCGCATCGTCAAGTCCGAG
TCCGGCTACGGCTTCAACGTGCGGGGCCAAGTGAGCGAGGGCGGGCAACTGCGGAGCATCAACGGGGAGCTGTACGCGCCGCTGCAGCAT
GTGAGCGCCGTGCTGCCCGGGGGGGCGGCCGATCGGGCCGGGGTGCGCAAGGGGGACCGCATCCTGGAGGTCTGCTATGGAGGACTTGGG
AGATCTTGTCTTGTAGCTGCTTGTCTCCTACTATACCTGTCTGACACAATATCACCAGAGCAAGCCATAGACAGCCTGCGAGACCTAAGA
GGATCCGGGGCAATACAGACCATCAAGCAATACAATTATCTTCATGAGTTTCGGGACAAATTAGCTGCACATCTATCATCAAGAGATTCA
CAATCAAGATCTGTATCAAGATAAAGGAATTCAAATAGCATATATATGACCATGTCTGAAATGTCAGTTCTCTAGCATAATTTGTATTGA

>In-frame_ENST00000458013_ENST00000335183_TCGA-61-1918-01A_SNX27_chr1_151584988_+_CDKN3_chr14_54882617_length(amino acids)=177AA_start in transcript=120_stop in transcript=653
MADEDGEGIHPSAPHRNGGGGGGGGSGLHCAGNGGGGGGGPRVVRIVKSESGYGFNVRGQVSEGGQLRSINGELYAPLQHVSAVLPGGAA

--------------------------------------------------------------
>In-frame_ENST00000368843_ENST00000335183_TCGA-61-1918-01A_SNX27_chr1_151584988_+_CDKN3_chr14_54882617_length(transcript)=794nt_BP=431nt
TCCCGCGGCCGGCGGATCGGGCGCGCGCGTCGGGGGTCGTCCGGCTGCCAGGCAGGGCGAGCACGCGCCGGGAGGCCTTGGAGGCGTAGG
GGGCGGGGGTACGGCTCGCCTGCTCGCAAGATGGCGGACGAGGACGGGGAAGGGATTCATCCCTCAGCCCCTCACAGGAACGGAGGTGGC
GGCGGCGGCGGGGGGTCTGGGCTCCACTGCGCCGGGAACGGCGGCGGGGGAGGCGGCGGCCCGCGGGTCGTGCGCATCGTCAAGTCCGAG
TCCGGCTACGGCTTCAACGTGCGGGGCCAAGTGAGCGAGGGCGGGCAACTGCGGAGCATCAACGGGGAGCTGTACGCGCCGCTGCAGCAT
GTGAGCGCCGTGCTGCCCGGGGGGGCGGCCGATCGGGCCGGGGTGCGCAAGGGGGACCGCATCCTGGAGGTCTGCTATGGAGGACTTGGG
AGATCTTGTCTTGTAGCTGCTTGTCTCCTACTATACCTGTCTGACACAATATCACCAGAGCAAGCCATAGACAGCCTGCGAGACCTAAGA
GGATCCGGGGCAATACAGACCATCAAGCAATACAATTATCTTCATGAGTTTCGGGACAAATTAGCTGCACATCTATCATCAAGAGATTCA
CAATCAAGATCTGTATCAAGATAAAGGAATTCAAATAGCATATATATGACCATGTCTGAAATGTCAGTTCTCTAGCATAATTTGTATTGA

>In-frame_ENST00000368843_ENST00000335183_TCGA-61-1918-01A_SNX27_chr1_151584988_+_CDKN3_chr14_54882617_length(amino acids)=177AA_start in transcript=120_stop in transcript=653
MADEDGEGIHPSAPHRNGGGGGGGGSGLHCAGNGGGGGGGPRVVRIVKSESGYGFNVRGQVSEGGQLRSINGELYAPLQHVSAVLPGGAA

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>In-frame_ENST00000458013_ENST00000543789_TCGA-61-1918-01A_SNX27_chr1_151584988_+_CDKN3_chr14_54884566_length(transcript)=535nt_BP=431nt
TCCCGCGGCCGGCGGATCGGGCGCGCGCGTCGGGGGTCGTCCGGCTGCCAGGCAGGGCGAGCACGCGCCGGGAGGCCTTGGAGGCGTAGG
GGGCGGGGGTACGGCTCGCCTGCTCGCAAGATGGCGGACGAGGACGGGGAAGGGATTCATCCCTCAGCCCCTCACAGGAACGGAGGTGGC
GGCGGCGGCGGGGGGTCTGGGCTCCACTGCGCCGGGAACGGCGGCGGGGGAGGCGGCGGCCCGCGGGTCGTGCGCATCGTCAAGTCCGAG
TCCGGCTACGGCTTCAACGTGCGGGGCCAAGTGAGCGAGGGCGGGCAACTGCGGAGCATCAACGGGGAGCTGTACGCGCCGCTGCAGCAT
GTGAGCGCCGTGCTGCCCGGGGGGGCGGCCGATCGGGCCGGGGTGCGCAAGGGGGACCGCATCCTGGAGGTTAGCTGCTTGTCTCCTACT

>In-frame_ENST00000458013_ENST00000543789_TCGA-61-1918-01A_SNX27_chr1_151584988_+_CDKN3_chr14_54884566_length(amino acids)=126AA_start in transcript=533_stop in transcript=153
LMVCIAPDPLRSRRLSMACSGDIVSDRYSRRQAANLQDAVPLAHPGPIGRPPGQHGAHMLQRRVQLPVDAPQLPALAHLAPHVEAVAGLG

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>In-frame_ENST00000368843_ENST00000543789_TCGA-61-1918-01A_SNX27_chr1_151584988_+_CDKN3_chr14_54884566_length(transcript)=535nt_BP=431nt
TCCCGCGGCCGGCGGATCGGGCGCGCGCGTCGGGGGTCGTCCGGCTGCCAGGCAGGGCGAGCACGCGCCGGGAGGCCTTGGAGGCGTAGG
GGGCGGGGGTACGGCTCGCCTGCTCGCAAGATGGCGGACGAGGACGGGGAAGGGATTCATCCCTCAGCCCCTCACAGGAACGGAGGTGGC
GGCGGCGGCGGGGGGTCTGGGCTCCACTGCGCCGGGAACGGCGGCGGGGGAGGCGGCGGCCCGCGGGTCGTGCGCATCGTCAAGTCCGAG
TCCGGCTACGGCTTCAACGTGCGGGGCCAAGTGAGCGAGGGCGGGCAACTGCGGAGCATCAACGGGGAGCTGTACGCGCCGCTGCAGCAT
GTGAGCGCCGTGCTGCCCGGGGGGGCGGCCGATCGGGCCGGGGTGCGCAAGGGGGACCGCATCCTGGAGGTTAGCTGCTTGTCTCCTACT

>In-frame_ENST00000368843_ENST00000543789_TCGA-61-1918-01A_SNX27_chr1_151584988_+_CDKN3_chr14_54884566_length(amino acids)=126AA_start in transcript=533_stop in transcript=153
LMVCIAPDPLRSRRLSMACSGDIVSDRYSRRQAANLQDAVPLAHPGPIGRPPGQHGAHMLQRRVQLPVDAPQLPALAHLAPHVEAVAGLG

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Fusion Gene PPI Analysis for SNX27-CDKN3


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


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
TgeneCDKN3chr1:151584988chr14:54882617ENST00000335183481_34138.66666666666666213.0CDK2
TgeneCDKN3chr1:151584988chr14:54882617ENST00000442975371_3498.66666666666667173.0CDK2
TgeneCDKN3chr1:151584988chr14:54884566ENST00000335183581_34149.33333333333334213.0CDK2
TgeneCDKN3chr1:151584988chr14:54884566ENST00000442975471_34109.33333333333333173.0CDK2


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for SNX27-CDKN3


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for SNX27-CDKN3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneSNX27C0036572Seizures1GENOMICS_ENGLAND
HgeneSNX27C0557874Global developmental delay1GENOMICS_ENGLAND
HgeneSNX27C1858120Generalized hypotonia1GENOMICS_ENGLAND
HgeneSNX27C3714756Intellectual Disability1GENOMICS_ENGLAND
TgeneCDKN3C2239176Liver carcinoma2CTD_human;UNIPROT
TgeneCDKN3C0023893Liver Cirrhosis, Experimental1CTD_human