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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:TMCO7-FGF3 (FusionGDB2 ID:HG79613TG2248)

Fusion Gene Summary for TMCO7-FGF3

check button Fusion gene summary
Fusion gene informationFusion gene name: TMCO7-FGF3
Fusion gene ID: hg79613tg2248
HgeneTgene
Gene symbol

TMCO7

FGF3

Gene ID

79613

2248

Gene nametransport and golgi organization 6 homologfibroblast growth factor 3
SynonymsTMCO7HBGF-3|INT2
Cytomap('TANGO6','TMCO7')('FGF3','FGF3')

16q22.1

11q13.3

Type of geneprotein-codingprotein-coding
Descriptiontransport and Golgi organization protein 6 homologtransmembrane and coiled-coil domain-containing protein 7transmembrane and coiled-coil domains 7fibroblast growth factor 3FGF-3INT-2 proto-oncogene proteinV-INT2 murine mammary tumor virus integration site oncogene homologfibroblast growth factor 3 (murine mammary tumor virus integration site (v-int-2) oncogene homolog)heparin-binding growth fa
Modification date2020031320200328
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000261778, ENST00000561931, 
Fusion gene scores* DoF score14 X 12 X 8=13444 X 3 X 4=48
# samples 155
** MAII scorelog2(15/1344*10)=-3.16349873228288
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(5/48*10)=0.0588936890535686
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: TMCO7 [Title/Abstract] AND FGF3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTANGO6(68964198)-FGF3(69631191), # samples:2
TMCO7(68964198)-FGF3(69631191), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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 TANGO6 (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 FGF3 (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
* 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
ChimerDB4BLCATCGA-DK-A6AV-01ATANGO6chr16

68964198

+FGF3chr11

69631191

-
ChimerDB4BLCATCGA-DK-A6AV-01ATMCO7chr16

68964198

-FGF3chr11

69631191

-


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Fusion Gene ORF analysis for TMCO7-FGF3

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-frameENST00000261778ENST00000334134TANGO6chr16

68964198

+FGF3chr11

69631191

-
intron-3CDSENST00000561931ENST00000334134TANGO6chr16

68964198

+FGF3chr11

69631191

-

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)
ENST00000261778TANGO6chr1668964198+ENST00000334134FGF3chr1169631191-329427131232121066

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
ENST00000261778ENST00000334134TANGO6chr1668964198+FGF3chr1169631191-0.0028553390.99714464

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Fusion Genomic Features for TMCO7-FGF3


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

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Fusion Protein Features for TMCO7-FGF3


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/:68964198/:69631191)
- 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
..
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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
HgeneTANGO6chr16:68964198chr11:69631191ENST00000261778+1418468_4889001095.0TransmembraneHelical

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneTANGO6chr16:68964198chr11:69631191ENST00000261778+1418873_9099001095.0RepeatNote=HEAT 1
HgeneTANGO6chr16:68964198chr11:69631191ENST00000261778+1418952_9889001095.0RepeatNote=HEAT 2


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Fusion Gene Sequence for TMCO7-FGF3


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.
>88979_88979_1_TANGO6-FGF3_TANGO6_chr16_68964198_ENST00000261778_FGF3_chr11_69631191_ENST00000334134_length(transcript)=3294nt_BP=2713nt
TACACTCCAGTCATGGCGGCCCGACAGGCCGTGGGCAGCGGGGCTCAGGAGACATGCGGTCTGGATCGGATTTTGGAGGCATTGAAGCTG
CTGCTGAGCCCGGGAGGCTCGGGCTCAAGTTCACTACAGGTCACAAAACATGATGTCTTGTTGGCTACTTTAAAATCTAACCTGTCTGCT
TTGGAGGACAAGTTTCTGAAGGATCCTCAGTGGAAGAATCTGAAACTCCTAAGAGATGAAATTGCTGATAAGGCAGAATGGCCACAAAAC
TCTGTGGATGTCACTTGGAGTTTTACCTCTCAAACCTTGTTGTTGCTTTTGTGCTTGAAGGAAACCATGATCCGCCTTGCAGCTAATTTC
AATCCAGGTAAACCCAACCCTAGGACTCCGGAAGTTGCTCCTGCCCTGAGCCCCGATGCACTTAGTATCTCACAACAGAAGACTGTCCAG
TTCGTTTTGCAGTTTGTAGTTACCTTGGGTATCTGCCCCTATCTCATGCCTGGTGTTGGAGTCCCTTTGAGATATAGAACTGAATTTGGT
GCCGTCGTTCAAGACGTGGTGTGTTTTGATGCTGCCCCCGATGCAACTCGAAGACTGTACACCAGCTGCAAGGCCCTTCTGAATGTTGCT
CAGCACACATCTCTGGGGAGCTTGATCTTCTGCCACCACTTTGGGGATATCGCAGCAGGTCTGTGCCAACTGGGATTCTGCCCAACCAAA
AGAAAACTGCTAACACCTGCAGAAGAGGTTCTAACTGAAGAGGAGAGAACCCTATCCAGGGGGGCCTTGAGAGACATGCTGGATCAAGTC
TATCAGCCCTTAGCAGTCCGGGAACTGCTTATCCTCCAGGGAGGACCACCCCAGTCCTGCACAGATGTGAAGACACAGATGAGGTGTCGG
GCCCCAGCTTGGCTTCGGCGTCTATGTGGACAGCTGCTCTCTGAAAGGTTAATGAGACCTAATGGTGTTCAGGCAGTAGTCCGGGGCATT
TTGGAAGGAGCAGGTGCGGGAGCAGCTGGTGGAAGTGATGCTGAGGTGACGGCTGCTGACTGGAAGAAGTGTGACCTGATCGCAAAGATT
TTGGCCTCTTGTCCCCAGCAGTCTCTTTCACCAGAGAATTACTACAGGGACATCTGCCCCCAGGTTCTGGATTTATTTCACTTTCAAGAT
AAATTGACAGCACGACAATTTCAGAGAGTTGCCACCACTACCTTTATAACTTTGTCAAGAGAACGCCCACATTTGGCAGCAAAGTATTTG
CTCCAGCCAGTGTTAGCTCCTCTTCATCGATGTTTGAATACAGCAGAGCTTTCAGAGAGTGACATGGTACCAGGAACTATTTTGGTGACA
GAAGAAGAACTTAGTAGATGCATTGAGGATGTGTTTAAGGTGTACGTGGTTGGGAATGAACCTTTAACAGTTTTGATGGATTCCCTGCTT
CCAGTCCTGGGAGTGCTTTTTCTTCTCTACTGTTTTACTAAGCAGAGTGTGTCTCACATAAGGTCACTTTGCCAAGAAATCTTATTATGG
ATTCTGGGGAAGCTGGAAAGGAAGAAGGCAATTGCCAGCCTGAAAGGATTTGCAGGGTTGGACAAAGCTGTGCCCTCTCTCCATTCTCTG
TGTCAGTTTAGAGTTGCCACTCAAGGTGGCATTATGATTACCATCAAAGAGGCCATTAGTGATGAAGATGAAGATGAAGCCCTGTACCAG
AAGGTATCCTCTGAGCAGGGCCGGGTGGAGCATCTCGGGGACTTGCTGTCCCACTGCCAGGAATGCGGTTTGGCAGGAGACTTCTTCATC
TTCTGTTTGAAAGAGTTGACTCATGTGGCCTCGGAAAATGAAACAGAGTTAAAAACTGAGCCCTTCTCCAGCAAGAGCCTCTTGGAATTA
GAGCAACATCAGACTCTTCTTGTGGAAGGCCAAGAGCGGAAGCTGCTTGTCCTGCAGCTGATGGCTGTTCTGTGCGAGAGAATGTCTGAG
CAGATATTCACAAACGTCACTCAGGTGGTGGACTTTGTAGCAGCAACATTGCAGAGAGCCTGTGCAAGCCTGGCCCATCAGGCAGAGAGC
ACCGTGGAATCACAGACGCTGAGCATGTCCATGGGGCTGGTGGCTGTCATGCTAGGAGGAGCTGTTCAGTTGAAGTCAAGTGATTTTGCT
GTTCTGAAGCAGTTGTTGCCTCTGTTGGAGAAGGTATCCAACACATACCCTGATCCGGTCATCCAAGAACTCGCTGTTGATCTCCGCATC
ACCATCTCTACCCATGGAGCCTTTGCCACTGAGGCCGTCAGCATGGCTGCCCAAAGTACACTGAACAGAAAAGATCTGGAAGGGAAAATA
GAAGAGCAGCAACAAACCAGTCATGAAAGACCCACTGATGTAGCTCATAGCCACCTTGAACAACAGCAGAGCCATGAGACAGCCCCCCAG
ACAGGCCTGCAGTCAAATGCTCCAATCATTCCTCAAGGAGTCAATGAGCCCAGCACTACTACAAGTCAGAAATCTGGAAGCGTAACCACA
GAACAGCTCCAAGAGGTTCTTTTGTCAGCTTATGACCCTCAAATTCCAACACGGGCTGCTGCCCTGCGTACTCTTTCCCACTGGATAGAG
CAGAGAGAAGCAAAAGCCCTTGAGATGCAAGAGAAGCTTCTCAAGATATTCTTGGAAAACTTGGAACATGAAGACACTTTTGTATATCTA
TCTGCAATTCAGGGTATTTTGGAGATAACGGCAGTGGAGGTGGGCATTGTGGCCATCAGGGGTCTCTTCTCCGGGCGGTACCTGGCCATG
AACAAGAGGGGACGACTCTATGCTTCGGAGCACTACAGCGCCGAGTGCGAGTTTGTGGAGCGGATCCACGAGCTGGGCTATAATACGTAT
GCCTCCCGGCTGTACCGGACGGTGTCTAGTACGCCTGGGGCCCGCCGGCAGCCCAGCGCCGAGAGACTGTGGTACGTGTCTGTGAACGGC
AAGGGCCGGCCCCGCAGGGGCTTCAAGACCCGCCGCACACAGAAGTCCTCCCTGTTCCTGCCCCGCGTGCTGGACCACAGGGACCACGAG
ATGGTGCGGCAGCTACAGAGTGGGCTGCCCAGACCCCCTGGTAAGGGGGTCCAGCCCCGACGGCGGCGGCAGAAGCAGAGCCCGGATAAC
CTGGAGCCCTCTCACGTTCAGGCTTCGAGACTGGGCTCCCAGCTGGAGGCCAGTGCGCACTAGCTGGGCCTGGTGGCCACCGCCAGAGCT

>88979_88979_1_TANGO6-FGF3_TANGO6_chr16_68964198_ENST00000261778_FGF3_chr11_69631191_ENST00000334134_length(amino acids)=1066AA_BP=895
MAARQAVGSGAQETCGLDRILEALKLLLSPGGSGSSSLQVTKHDVLLATLKSNLSALEDKFLKDPQWKNLKLLRDEIADKAEWPQNSVDV
TWSFTSQTLLLLLCLKETMIRLAANFNPGKPNPRTPEVAPALSPDALSISQQKTVQFVLQFVVTLGICPYLMPGVGVPLRYRTEFGAVVQ
DVVCFDAAPDATRRLYTSCKALLNVAQHTSLGSLIFCHHFGDIAAGLCQLGFCPTKRKLLTPAEEVLTEEERTLSRGALRDMLDQVYQPL
AVRELLILQGGPPQSCTDVKTQMRCRAPAWLRRLCGQLLSERLMRPNGVQAVVRGILEGAGAGAAGGSDAEVTAADWKKCDLIAKILASC
PQQSLSPENYYRDICPQVLDLFHFQDKLTARQFQRVATTTFITLSRERPHLAAKYLLQPVLAPLHRCLNTAELSESDMVPGTILVTEEEL
SRCIEDVFKVYVVGNEPLTVLMDSLLPVLGVLFLLYCFTKQSVSHIRSLCQEILLWILGKLERKKAIASLKGFAGLDKAVPSLHSLCQFR
VATQGGIMITIKEAISDEDEDEALYQKVSSEQGRVEHLGDLLSHCQECGLAGDFFIFCLKELTHVASENETELKTEPFSSKSLLELEQHQ
TLLVEGQERKLLVLQLMAVLCERMSEQIFTNVTQVVDFVAATLQRACASLAHQAESTVESQTLSMSMGLVAVMLGGAVQLKSSDFAVLKQ
LLPLLEKVSNTYPDPVIQELAVDLRITISTHGAFATEAVSMAAQSTLNRKDLEGKIEEQQQTSHERPTDVAHSHLEQQQSHETAPQTGLQ
SNAPIIPQGVNEPSTTTSQKSGSVTTEQLQEVLLSAYDPQIPTRAAALRTLSHWIEQREAKALEMQEKLLKIFLENLEHEDTFVYLSAIQ
GILEITAVEVGIVAIRGLFSGRYLAMNKRGRLYASEHYSAECEFVERIHELGYNTYASRLYRTVSSTPGARRQPSAERLWYVSVNGKGRP

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Fusion Gene PPI Analysis for TMCO7-FGF3


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 TMCO7-FGF3


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 TMCO7-FGF3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC1853144Deafness, Congenital, with Inner Ear Agenesis, Microtia, and Microdontia10CLINGEN;CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneC0006142Malignant neoplasm of breast1CGI;CTD_human
TgeneC0008924Cleft upper lip1CTD_human
TgeneC0008925Cleft Palate1CTD_human
TgeneC0018784Sensorineural Hearing Loss (disorder)1CTD_human
TgeneC0038368Stomatognathic Diseases1CTD_human
TgeneC0376634Craniofacial Abnormalities1CTD_human
TgeneC0678222Breast Carcinoma1CGI;CTD_human
TgeneC1257931Mammary Neoplasms, Human1CTD_human
TgeneC1384666hearing impairment1GENOMICS_ENGLAND
TgeneC1458155Mammary Neoplasms1CTD_human
TgeneC1691779Sensory hearing loss1CTD_human
TgeneC1704330Dental Diseases1CTD_human
TgeneC1833693Otodental Dysplasia1ORPHANET
TgeneC1837218Cleft palate, isolated1CTD_human
TgeneC2239176Liver carcinoma1CTD_human
TgeneC2750325Oculootodental syndrome1ORPHANET
TgeneC4704874Mammary Carcinoma, Human1CTD_human