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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:MTSS1-ZC2HC1A (FusionGDB2 ID:55928)

Fusion Gene Summary for MTSS1-ZC2HC1A

check button Fusion gene summary
Fusion gene informationFusion gene name: MTSS1-ZC2HC1A
Fusion gene ID: 55928
HgeneTgene
Gene symbol

MTSS1

ZC2HC1A

Gene ID

9788

51101

Gene nameMTSS I-BAR domain containing 1zinc finger C2HC-type containing 1A
SynonymsMIM|MIMA|MIMBC8orf70|CGI-62|FAM164A
Cytomap

8q24.13

8q21.13

Type of geneprotein-codingprotein-coding
Descriptionprotein MTSS 1MTSS1, I-BAR domain containingmetastasis suppressor 1metastasis suppressor YGL-1metastasis suppressor protein 1missing in metastasis proteinzinc finger C2HC domain-containing protein 1Afamily with sequence similarity 164, member Aprotein FAM164A
Modification date2020031320200313
UniProtAcc

O43312

Q96GY0

Ensembl transtripts involved in fusion geneENST00000325064, ENST00000354184, 
ENST00000378017, ENST00000395508, 
ENST00000431961, ENST00000518547, 
ENST00000524090, ENST00000523587, 
ENST00000521176, ENST00000263849, 
Fusion gene scores* DoF score12 X 13 X 9=14045 X 6 X 4=120
# samples 177
** MAII scorelog2(17/1404*10)=-3.04593628416686
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(7/120*10)=-0.777607578663552
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: MTSS1 [Title/Abstract] AND ZC2HC1A [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointMTSS1(125575023)-ZC2HC1A(79588022), # samples:1
Anticipated loss of major functional domain due to fusion event.MTSS1-ZC2HC1A seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
MTSS1-ZC2HC1A seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor 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

check buttonFusion gene breakpoints across MTSS1 (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 ZC2HC1A (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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
ChimerDB4BRCATCGA-AR-A0TV-01AMTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+


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Fusion Gene ORF analysis for MTSS1-ZC2HC1A

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
5CDS-intronENST00000325064ENST00000521176MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
5CDS-intronENST00000354184ENST00000521176MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
5CDS-intronENST00000378017ENST00000521176MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
5CDS-intronENST00000395508ENST00000521176MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
5CDS-intronENST00000431961ENST00000521176MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
5CDS-intronENST00000518547ENST00000521176MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
5CDS-intronENST00000524090ENST00000521176MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
5UTR-3CDSENST00000523587ENST00000263849MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
5UTR-intronENST00000523587ENST00000521176MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
Frame-shiftENST00000325064ENST00000263849MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
Frame-shiftENST00000354184ENST00000263849MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
Frame-shiftENST00000378017ENST00000263849MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
Frame-shiftENST00000395508ENST00000263849MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
Frame-shiftENST00000518547ENST00000263849MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
Frame-shiftENST00000524090ENST00000263849MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+
In-frameENST00000431961ENST00000263849MTSS1chr8

125575023

-ZC2HC1Achr8

79588022

+

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)
ENST00000431961MTSS1chr8125575023-ENST00000263849ZC2HC1Achr879588022+38546206491581310

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
ENST00000431961ENST00000263849MTSS1chr8125575023-ZC2HC1Achr879588022+0.0125684110.98743165

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Fusion Genomic Features for MTSS1-ZC2HC1A


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)

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.
genomic feature

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.
genomic feature of top 1%

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Fusion Protein Features for MTSS1-ZC2HC1A


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/chr8:125575023/chr8:79588022)
- 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
MTSS1

O43312

ZC2HC1A

Q96GY0

FUNCTION: May be related to cancer progression or tumor metastasis in a variety of organ sites, most likely through an interaction with the actin cytoskeleton.

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
HgeneMTSS1chr8:125575023chr8:79588022ENST00000378017-1014108_155345731.0Coiled coilOntology_term=ECO:0000255
HgeneMTSS1chr8:125575023chr8:79588022ENST00000518547-1014108_155345756.0Coiled coilOntology_term=ECO:0000255
HgeneMTSS1chr8:125575023chr8:79588022ENST00000378017-10141_250345731.0DomainIMD
HgeneMTSS1chr8:125575023chr8:79588022ENST00000518547-10141_250345756.0DomainIMD
TgeneZC2HC1Achr8:125575023chr8:79588022ENST000002638490915_395326.0Zinc fingerNote=C2HC-type

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneMTSS1chr8:125575023chr8:79588022ENST00000354184-1013108_155145474.0Coiled coilOntology_term=ECO:0000255
HgeneMTSS1chr8:125575023chr8:79588022ENST00000431961-58108_155145474.0Coiled coilOntology_term=ECO:0000255
HgeneMTSS1chr8:125575023chr8:79588022ENST00000354184-1013238_359145474.0Compositional biasNote=Ser-rich
HgeneMTSS1chr8:125575023chr8:79588022ENST00000354184-1013608_726145474.0Compositional biasNote=Pro-rich
HgeneMTSS1chr8:125575023chr8:79588022ENST00000378017-1014238_359345731.0Compositional biasNote=Ser-rich
HgeneMTSS1chr8:125575023chr8:79588022ENST00000378017-1014608_726345731.0Compositional biasNote=Pro-rich
HgeneMTSS1chr8:125575023chr8:79588022ENST00000431961-58238_359145474.0Compositional biasNote=Ser-rich
HgeneMTSS1chr8:125575023chr8:79588022ENST00000431961-58608_726145474.0Compositional biasNote=Pro-rich
HgeneMTSS1chr8:125575023chr8:79588022ENST00000518547-1014238_359345756.0Compositional biasNote=Ser-rich
HgeneMTSS1chr8:125575023chr8:79588022ENST00000518547-1014608_726345756.0Compositional biasNote=Pro-rich
HgeneMTSS1chr8:125575023chr8:79588022ENST00000354184-10131_250145474.0DomainIMD
HgeneMTSS1chr8:125575023chr8:79588022ENST00000354184-1013727_744145474.0DomainWH2
HgeneMTSS1chr8:125575023chr8:79588022ENST00000378017-1014727_744345731.0DomainWH2
HgeneMTSS1chr8:125575023chr8:79588022ENST00000431961-581_250145474.0DomainIMD
HgeneMTSS1chr8:125575023chr8:79588022ENST00000431961-58727_744145474.0DomainWH2
HgeneMTSS1chr8:125575023chr8:79588022ENST00000518547-1014727_744345756.0DomainWH2


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Fusion Gene Sequence for MTSS1-ZC2HC1A


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.
>55928_55928_1_MTSS1-ZC2HC1A_MTSS1_chr8_125575023_ENST00000431961_ZC2HC1A_chr8_79588022_ENST00000263849_length(transcript)=3854nt_BP=620nt
GTTGTGTTGGCAGAAGAGTTGGTGGGGGTTGTGCAGTGTGAGAAGGGAGAGGTGATATCCAGCCTCAGTTGGACAGTGCTCTCCAAGATG
TCAATGATAAGTATCTCTTATTGGAAGAAACAGAAAAGCAGGCTGTCCGGAAGGCTTTGATTGAAGAACGTGGCCGATTCTGTACCTTCA
TCTCTATGCTGCGGCCAGTGATTGAAGAAGAAATCTCAATGCTAGGGGAAATAACCCACCTTCAGACCATCTCGGAAGATCTAAAAAGCC
TGACCATGGACCCTCACAAACTGCCCTCCTCAAGTGAACAGGTGATTCTGGACTTGAAAGGTTCTGATTACAGCTGGTCGTATCAGACGC
CACCCTCTTCCCCCAGCACCACCATGTCCAGAAAGTCCAGTGTCTGCAGCAGCCTGAACAGTGTCAACAGCAGTGACTCCCGGTCCAGCG
GCTCCCACTCGCATTCCCCCAGCTCACATTACCGCTACCGCAGCTCCAACCTGGCCCAGCAGGCTCCTGTGAGGCTGTCCAGCGTGTCCT
CCCATGACTCAGGATTCATATCCCAGGATGCCTTCCAGTCCAAGTCACCATCCCCCATGCCGCCAGAGGCCCCCAACCAGAGAATGGAGG
TGTTGTCCAAGTTGGAGAATTGTTACCTTGCAAGATTTGTGGAAGAACATTCTTTCCAGTAGCATTAAAAAAACATGGACCCATTTGCCA
GAAGACTGCAACTAAAAAACGGAAGACTTTTGATTCAAGCAGACAGAGAGCTGAAGGAACTGATATTCCAACAGTAAAACCTCTCAAACC
GAGGCCAGAACCACCAAAGAAACCATCTAATTGGAGAAGGAAACATGAAGAATTCATTGCTACCATAAGAGCAGCTAAAGGCCTTGATCA
GGCCCTCAAAGAGGGTGGCAAACTTCCTCCTCCTCCTCCACCTTCTTATGATCCTGATTATATTCAATGTCCATATTGTCAGAGGAGATT
CAATGAAAATGCAGCTGATAGACATATAAATTTCTGTAAAGAACAGGCAGCACGTATTAGTAATAAAGGGAAATTTTCTACAGATACCAA
AGGAAAACCAACTTCTCGGACACAGGTGTATAAGCCACCCGCACTTAAAAAGTCAAATTCTCCTGGAACTGCATCATCAGGATCTTCACG
ATTACCGCAGCCAAGTGGCGCTGGCAAAACTGTTGTAGGTGTTCCTTCAGGTAAAGTGTCTTCAAGTAGCAGCTCTTTGGGAAACAAACT
TCAGACCTTATCTCCCTCTCATAAAGGGATAGCAGCCCCTCATGCAGGAGCTAATGTCAAACCCCGAAATTCCACACCACCTAGTTTGGC
AAGAAATCCTGCCCCAGGTGTGCTTACAAACAAAAGAAAAACATATACTGAGAGCTACATAGCCAGGCCAGATGGGGACTGTGCATCTTC
CCTTAATGGTGGAAATATTAAAGGCATTGAAGGACATTCACCTGGAAACTTACCAAAATTCTGCCATGAGTGTGGGACTAAATACCCTGT
AGAATGGGCCAAATTTTGCTGTGAATGTGGCATTCGAAGAATGATTCTATGAATAGAATCTCAAAAAAAAAAAAAAGCCAAGTTCAGAGT
TTATGATTATTGCTGCTTGGACAGCTAGAGCACATCCTCTAGTTAGTTTGTGCTAAAAATACTCGAAATACCATTTCCAGTTAATTTTGA
AGTGTAATCTTTTGGCTATATAATGTGTGTATGTTTATATGTGTACATATACTGTATATAATAAATATCTGATACCCCAGACTGTGTCAT
TCAAGGAAATATTCACTTATCTGTCAGAAAATAATTTCAAATGGAACAATTAATTTAGGTGTTACTTTTCTGTTGTTGTTAAAGCACGTT
AAGTACATTTCCACAAACTCTCATACTCTAGTGCTTAGCCCTTCAAGCTTTAGGATAAGTATAACTTTGAGCAAAAAATTTGGATAAACA
TTTGTATTATTGGTGCCTATCTTCAGATAGTATCATAGTAGGATAGATGCTGGGAATTTTGTAATTAAAGAGAACAGTTTTAGTTACCAT
TAGGTATGTTAAGGTCACTCCTGTAGAGCATGTCAACAAATTATTTCATAAATCCGAAAAACTAAGAGAAAAAAAAACCCCTCTATTAGT
TACGTAATTTAAACATCTTACTTGTTTTGTAAAAGTGTAATTATGCAATTTCCTTTTCAAATACACAAGACTAAAAATACAAATCTATCT
TGTTCTATTTATAACTGATTTTTTTTAGTTCTGTATGTATTCGTTGAACATATTTTTTTACTTCCAATTGTTTTTCCAGATTTCACTTTT
CCTCTTTTTCCATAACCCGTGAAGATAGTTTTAATTTGCTAGTTCATTTTTTGCTGTATTTGAAAATGTAATTATTTAATATAGAAGGCA
CAGAATTCCCTGCAAAATCTTACATGTTTAAAAACATATAATTTTTTGTATCTGAATTTAGAATAAATCATTTTAATGCATCTTAAATCA
CGTCACCTAATCATAATAGTTGTGGTAACTAATCATTAGTGCAGAGCATGCAGATAAAAAATATTTGAATTTTTTTTTCTTGGAAGTACA
TGTAGTTATGAGTAGGTTAAGAGAATATCTAATTTTCCTACTCTTTTTTTCATCTTTAGCATTTAATGTTGAAACACCATTCACGTCACA
TTAAGGACCCACTGAAAATGTATTGTTTTAATGCATAATTGACTTACCTAATTAAACATACACACAAATTTAATTATTTTTTTCTCTTTA
ACCTGATCACGACACAGCTCTTAATCATTGTCACTTTCAGTATATCATAGTAGTTAGTAGTAGATTGCCTTGATGGCAGTAATTCTGTAG
TAATTTCTATTCAATCAAACCTAAGAGAGCTTTGATCTTACTGTAAAGGTACAAACAAATCTCTTATATAATTCCTAGCTTTTTTTTTTG
TTTATGATTCTGATCAACTATAAGACACAATGTAAAGAATTGTGGCTTATAATTTATCTGAAATTTATTAGCTTAGTTTAGTTTGGGCAG
GAGTTACAAACTTAATAGGAATTGTCATTTTACTTACAGTTTATTTCCTGATTAGTTGTTAATTTTTTTCCCCTCAGTTATCTTTATTCA
GTCTTATTGGTCAAAACAAAGAAACAAATAGTCCATCAACTAAAATAAGCTGTAATGAATTTAGAAGATGAATGCATATATTAGATTTCC
ATTTAAATCACTTCTGTTATAAATCATATAAAGAACTTTAAACTTGTTTTATCTAATACTGAGCACTGTTTTTTTGTCAAGTATTTTTTT
AAGACCACATAATTCTTTTTGTCTGCTCAAGGAAAGGATAGATAAATAATTGGCACACATTTGTTTCTCACTGAATTTTACAGTAGTAAA
TTAATGTTATAATGTACCACATGGAGATGAGTTGGTAAGAAATCATCTAGTTCCAGAGCCCAGAGATTATAAACAGTAGGTGAAATAGAT
TTATGACTTACGAAATATGTTGTGACAATATATTTAAATGCATTTTTATATTACTTGCATATTCTCACATTGATTTGTGCAATAGTTCAG
TTTTAAAAAAAATCTTCCTATGCATCATGTATTTTATTTTTATTTATTTTCACAAGTATTTGACAGTATGGTAGAATAAAAGATGATTGT
AAGATTAAAAATGTAAAAATTGCTTATGTATTATTCTGAATTGTGTTAGGTTGAAAAAGATGATTGTGGTGACTATTATTTCTTGTCCAC

>55928_55928_1_MTSS1-ZC2HC1A_MTSS1_chr8_125575023_ENST00000431961_ZC2HC1A_chr8_79588022_ENST00000263849_length(amino acids)=310AA_BP=
MLPCKICGRTFFPVALKKHGPICQKTATKKRKTFDSSRQRAEGTDIPTVKPLKPRPEPPKKPSNWRRKHEEFIATIRAAKGLDQALKEGG
KLPPPPPPSYDPDYIQCPYCQRRFNENAADRHINFCKEQAARISNKGKFSTDTKGKPTSRTQVYKPPALKKSNSPGTASSGSSRLPQPSG
AGKTVVGVPSGKVSSSSSSLGNKLQTLSPSHKGIAAPHAGANVKPRNSTPPSLARNPAPGVLTNKRKTYTESYIARPDGDCASSLNGGNI

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

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Fusion Gene PPI Analysis for MTSS1-ZC2HC1A


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


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 MTSS1-ZC2HC1A


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 MTSS1-ZC2HC1A


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