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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:FAM131A-HTR3D (FusionGDB2 ID:28481)

Fusion Gene Summary for FAM131A-HTR3D

check button Fusion gene summary
Fusion gene informationFusion gene name: FAM131A-HTR3D
Fusion gene ID: 28481
HgeneTgene
Gene symbol

FAM131A

HTR3D

Gene ID

131408

200909

Gene namefamily with sequence similarity 131 member A5-hydroxytryptamine receptor 3D
SynonymsC3orf40|FLAT715|PRO13785HT3D
Cytomap

3q27.1

3q27.1

Type of geneprotein-codingprotein-coding
Descriptionprotein FAM131A5-hydroxytryptamine receptor 3D5-hydroxytryptamine (serotonin) receptor 3 family member D5-hydroxytryptamine (serotonin) receptor 3D, ionotropic5-hydroxytryptamine receptor 3 subunit Dserotonin 5-HT-3D receptorserotonin receptor 3D
Modification date2020031320200313
UniProtAcc

Q6UXB0

.
Ensembl transtripts involved in fusion geneENST00000497070, ENST00000383847, 
ENST00000340957, ENST00000418281, 
ENST00000450976, ENST00000310585, 
ENST00000453072, 		ENST00000334128, 
ENST00000382489, ENST00000428798, 
ENST00000453435, 
Fusion gene scores* DoF score3 X 4 X 3=363 X 3 X 2=18
# samples 33
** MAII scorelog2(3/36*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: FAM131A [Title/Abstract] AND HTR3D [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointFAM131A(184055159)-HTR3D(183752845), # samples:2
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 FAM131A (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 HTR3D (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
ChimerDB4STADTCGA-CD-8535-01AFAM131Achr3

184053911

+HTR3Dchr3

183752845

+
ChimerDB4STADTCGA-CD-8535-01AFAM131Achr3

184055159

+HTR3Dchr3

183752845

+
ChimerDB4STADTCGA-CD-8535-01AFAM131Achr3

184055159

+HTR3Dchr3

183755809

+
ChimerDB4STADTCGA-CD-8535-01AFAM131Achr3

184056317

+HTR3Dchr3

183752845

+


Top

Fusion Gene ORF analysis for FAM131A-HTR3D

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
3UTR-5UTRENST00000497070ENST00000334128FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
3UTR-intronENST00000497070ENST00000382489FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
3UTR-intronENST00000497070ENST00000428798FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
3UTR-intronENST00000497070ENST00000453435FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
5CDS-5UTRENST00000383847ENST00000334128FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
5CDS-intronENST00000383847ENST00000382489FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
5CDS-intronENST00000383847ENST00000428798FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
5CDS-intronENST00000383847ENST00000453435FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
5UTR-3CDSENST00000340957ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000340957ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000340957ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000340957ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000418281ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000418281ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000418281ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000418281ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000450976ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000450976ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000450976ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-3CDSENST00000450976ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
5UTR-5UTRENST00000340957ENST00000334128FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-5UTRENST00000340957ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-5UTRENST00000418281ENST00000334128FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-5UTRENST00000418281ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-5UTRENST00000450976ENST00000334128FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-5UTRENST00000450976ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-5UTRENST00000450976ENST00000334128FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
5UTR-intronENST00000340957ENST00000382489FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000340957ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000340957ENST00000428798FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000340957ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000340957ENST00000453435FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000340957ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000418281ENST00000382489FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000418281ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000418281ENST00000428798FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000418281ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000418281ENST00000453435FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000418281ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000382489FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000382489FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000428798FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000428798FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000453435FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
5UTR-intronENST00000450976ENST00000453435FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-3CDSENST00000310585ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000310585ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000310585ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000310585ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000383847ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000383847ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000383847ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000383847ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000453072ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000453072ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000453072ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000453072ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000497070ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000497070ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000497070ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-3CDSENST00000497070ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183755809

+
intron-5UTRENST00000310585ENST00000334128FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-5UTRENST00000310585ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-5UTRENST00000310585ENST00000334128FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-5UTRENST00000340957ENST00000334128FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-5UTRENST00000383847ENST00000334128FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-5UTRENST00000383847ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-5UTRENST00000418281ENST00000334128FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-5UTRENST00000453072ENST00000334128FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-5UTRENST00000453072ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-5UTRENST00000453072ENST00000334128FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-5UTRENST00000497070ENST00000334128FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-5UTRENST00000497070ENST00000334128FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000382489FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000382489FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000428798FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000428798FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000453435FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000310585ENST00000453435FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000340957ENST00000382489FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000340957ENST00000428798FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000340957ENST00000453435FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000383847ENST00000382489FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000383847ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000383847ENST00000428798FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000383847ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000383847ENST00000453435FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000383847ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000418281ENST00000382489FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000418281ENST00000428798FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000418281ENST00000453435FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000382489FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000382489FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000428798FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000428798FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000453435FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000453072ENST00000453435FAM131Achr3

184056317

+HTR3Dchr3

183752845

+
intron-intronENST00000497070ENST00000382489FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000497070ENST00000382489FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000497070ENST00000428798FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000497070ENST00000428798FAM131Achr3

184055159

+HTR3Dchr3

183752845

+
intron-intronENST00000497070ENST00000453435FAM131Achr3

184053911

+HTR3Dchr3

183752845

+
intron-intronENST00000497070ENST00000453435FAM131Achr3

184055159

+HTR3Dchr3

183752845

+

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)

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

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Fusion Genomic Features for FAM131A-HTR3D


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)
FAM131Achr3184053911+HTR3Dchr3183752844+0.0405902340.9594098
FAM131Achr3184056317+HTR3Dchr3183752844+0.0275790150.972421
FAM131Achr3184055159+HTR3Dchr3183752844+0.0002273620.9997726
FAM131Achr3184055159+HTR3Dchr3183755808+4.94E-070.9999995
FAM131Achr3184053911+HTR3Dchr3183752844+0.0405902340.9594098
FAM131Achr3184056317+HTR3Dchr3183752844+0.0275790150.972421
FAM131Achr3184055159+HTR3Dchr3183752844+0.0002273620.9997726
FAM131Achr3184055159+HTR3Dchr3183755808+4.94E-070.9999995

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.
genomic feature of top 1%

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Fusion Protein Features for FAM131A-HTR3D


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/:184055159/:183752845)
- 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
FAM131A

Q6UXB0

.
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

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for FAM131A-HTR3D


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.

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Fusion Gene PPI Analysis for FAM131A-HTR3D


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 FAM131A-HTR3D


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 FAM131A-HTR3D


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