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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:HNRNPF-ATAD1 (FusionGDB2 ID:37169)

Fusion Gene Summary for HNRNPF-ATAD1

check button Fusion gene summary
Fusion gene informationFusion gene name: HNRNPF-ATAD1
Fusion gene ID: 37169
HgeneTgene
Gene symbol

HNRNPF

ATAD1

Gene ID

3185

84896

Gene nameheterogeneous nuclear ribonucleoprotein FATPase family AAA domain containing 1
SynonymsHNRPF|OK/SW-cl.23|mcs94-1AFDC1|FNP001|HKPX4|Msp1|THORASE
Cytomap

10q11.21

10q23.31

Type of geneprotein-codingprotein-coding
Descriptionheterogeneous nuclear ribonucleoprotein FHnRNP F proteinnucleolin-like protein mcs94-1ATPase family AAA domain-containing protein 1
Modification date2020032720200313
UniProtAcc

P52597

Q8NBU5

Ensembl transtripts involved in fusion geneENST00000357065, ENST00000337970, 
ENST00000356053, ENST00000443950, 
ENST00000498176, ENST00000544000, 
ENST00000308448, ENST00000328142, 
ENST00000495903, ENST00000541004, 
ENST00000400215, 
Fusion gene scores* DoF score17 X 15 X 7=178516 X 9 X 7=1008
# samples 1918
** MAII scorelog2(19/1785*10)=-3.23185275058551
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(18/1008*10)=-2.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: HNRNPF [Title/Abstract] AND ATAD1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointHNRNPF(43904579)-ATAD1(89574369), # samples:3
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
HgeneHNRNPF

GO:0043484

regulation of RNA splicing

20526337


check buttonFusion gene breakpoints across HNRNPF (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 ATAD1 (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
ChimerDB4BRCATCGA-AC-A3EH-01AHNRNPFchr10

43904579

-ATAD1chr10

89574369

-
ChimerDB4BRCATCGA-AC-A3EHHNRNPFchr10

43903164

-ATAD1chr10

89574369

-
ChimerDB4BRCATCGA-AC-A3EHHNRNPFchr10

43904578

-ATAD1chr10

89574369

-


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Fusion Gene ORF analysis for HNRNPF-ATAD1

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
5UTR-5UTRENST00000357065ENST00000308448HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
5UTR-5UTRENST00000357065ENST00000328142HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
5UTR-5UTRENST00000357065ENST00000495903HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
5UTR-5UTRENST00000357065ENST00000541004HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
5UTR-intronENST00000357065ENST00000400215HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000308448HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000308448HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000308448HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000328142HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000328142HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000328142HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000495903HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000495903HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000495903HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000541004HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000541004HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000337970ENST00000541004HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000308448HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000308448HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000308448HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000328142HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000328142HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000328142HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000495903HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000495903HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000495903HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000541004HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000541004HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000356053ENST00000541004HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000357065ENST00000308448HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000357065ENST00000308448HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000357065ENST00000328142HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000357065ENST00000328142HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000357065ENST00000495903HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000357065ENST00000495903HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000357065ENST00000541004HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000357065ENST00000541004HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000308448HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000308448HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000308448HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000328142HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000328142HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000328142HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000495903HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000495903HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000495903HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000541004HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000541004HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000443950ENST00000541004HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000308448HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000308448HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000308448HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000328142HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000328142HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000328142HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000495903HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000495903HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000495903HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000541004HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000541004HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000498176ENST00000541004HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000308448HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000308448HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000308448HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000328142HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000328142HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000328142HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000495903HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000495903HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000495903HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000541004HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000541004HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-5UTRENST00000544000ENST00000541004HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-intronENST00000337970ENST00000400215HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-intronENST00000337970ENST00000400215HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-intronENST00000337970ENST00000400215HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-intronENST00000356053ENST00000400215HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-intronENST00000356053ENST00000400215HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-intronENST00000356053ENST00000400215HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-intronENST00000357065ENST00000400215HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-intronENST00000357065ENST00000400215HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-intronENST00000443950ENST00000400215HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-intronENST00000443950ENST00000400215HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-intronENST00000443950ENST00000400215HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-intronENST00000498176ENST00000400215HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-intronENST00000498176ENST00000400215HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-intronENST00000498176ENST00000400215HNRNPFchr10

43904578

-ATAD1chr10

89574369

-
intron-intronENST00000544000ENST00000400215HNRNPFchr10

43904579

-ATAD1chr10

89574369

-
intron-intronENST00000544000ENST00000400215HNRNPFchr10

43903164

-ATAD1chr10

89574369

-
intron-intronENST00000544000ENST00000400215HNRNPFchr10

43904578

-ATAD1chr10

89574369

-

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 HNRNPF-ATAD1


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.

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 HNRNPF-ATAD1


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/:43904579/:89574369)
- 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
HNRNPF

P52597

ATAD1

Q8NBU5

FUNCTION: Component of the heterogeneous nuclear ribonucleoprotein (hnRNP) complexes which provide the substrate for the processing events that pre-mRNAs undergo before becoming functional, translatable mRNAs in the cytoplasm. Plays a role in the regulation of alternative splicing events. Binds G-rich sequences in pre-mRNAs and keeps target RNA in an unfolded state. {ECO:0000269|PubMed:20526337}.FUNCTION: Outer mitochondrial translocase required to remove mislocalized tail-anchored transmembrane proteins on mitochondria (PubMed:24843043). Specifically recognizes and binds tail-anchored transmembrane proteins: acts as a dislocase that mediates the ATP-dependent extraction of mistargeted tail-anchored transmembrane proteins from the mitochondrion outer membrane (By similarity). Also plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory (By similarity). Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent (By similarity). {ECO:0000250|UniProtKB:P28737, ECO:0000250|UniProtKB:Q9D5T0, ECO:0000269|PubMed:24843043}.

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 HNRNPF-ATAD1


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 HNRNPF-ATAD1


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 HNRNPF-ATAD1


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 HNRNPF-ATAD1


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