FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact

Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:NPR2-GCKR (FusionGDB2 ID:60007)

Fusion Gene Summary for NPR2-GCKR

check button Fusion gene summary
Fusion gene informationFusion gene name: NPR2-GCKR
Fusion gene ID: 60007
HgeneTgene
Gene symbol

NPR2

GCKR

Gene ID

10641

11183

Gene nameNPR2 like, GATOR1 complex subunitmitogen-activated protein kinase kinase kinase kinase 5
SynonymsFFEVF2|NPR2|NPR2L|TUSC4GCKR|KHS|KHS1|MAPKKKK5
Cytomap

3p21.31

14q22.1

Type of geneprotein-codingprotein-coding
DescriptionGATOR complex protein NPRL22810446G01RikG21 proteinNPR2-like proteingene 21 proteinhomologous to yeast nitrogen permease (candidate tumor suppressor)nitrogen permease regulator 2-like proteintumor suppressor candidate 4mitogen-activated protein kinase kinase kinase kinase 5MAPK/ERK kinase kinase kinase 5MEK kinase kinase 5MEKKK 5germinal center kinase-relatedkinase homologous to SPS1/STE20
Modification date2020032020200313
UniProtAcc

P20594

Q14397

Ensembl transtripts involved in fusion geneENST00000342694, ENST00000264717, 
ENST00000424318, 
Fusion gene scores* DoF score3 X 3 X 3=271 X 1 X 1=1
# samples 31
** MAII scorelog2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(1/1*10)=3.32192809488736
Context

PubMed: NPR2 [Title/Abstract] AND GCKR [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointNPR2(35799728)-GCKR(27730548), # 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
HgeneNPR2

GO:0033673

negative regulation of kinase activity

18616680

TgeneGCKR

GO:0006468

protein phosphorylation

9038372

TgeneGCKR

GO:0035556

intracellular signal transduction

9038372


check buttonFusion gene breakpoints across NPR2 (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 GCKR (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
ChimerDB4LIHCTCGA-DD-A39X-01ANPR2chr9

35799728

+GCKRchr2

27730548

+


Top

Fusion Gene ORF analysis for NPR2-GCKR

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-frameENST00000342694ENST00000264717NPR2chr9

35799728

+GCKRchr2

27730548

+
In-frameENST00000342694ENST00000424318NPR2chr9

35799728

+GCKRchr2

27730548

+

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)
ENST00000342694NPR2chr935799728+ENST00000264717GCKRchr227730548+222212421771976599
ENST00000342694NPR2chr935799728+ENST00000424318GCKRchr227730548+222512421771976599

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
ENST00000342694ENST00000264717NPR2chr935799728+GCKRchr227730548+0.0058626280.9941374
ENST00000342694ENST00000424318NPR2chr935799728+GCKRchr227730548+0.0058204650.9941796

Top

Fusion Genomic Features for NPR2-GCKR


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)
NPR2chr935799728+GCKRchr227730547+1.21E-050.99998784
NPR2chr935799728+GCKRchr227730547+1.21E-050.99998784

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%

Top

Fusion Protein Features for NPR2-GCKR


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/chr9:35799728/chr2:27730548)
- 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
NPR2

P20594

GCKR

Q14397

FUNCTION: Receptor for the C-type natriuretic peptide NPPC/CNP hormone. Has guanylate cyclase activity upon binding of its ligand. May play a role in the regulation of skeletal growth. {ECO:0000269|PubMed:15146390, ECO:0000269|PubMed:1672777, ECO:0000269|PubMed:24001744, ECO:0000269|PubMed:24471569, ECO:0000269|PubMed:26980729}.FUNCTION: Regulates glucokinase (GCK) by forming an inactive complex with this enzyme (PubMed:23621087, PubMed:23733961). Acts by promoting GCK recruitment to the nucleus, possibly to provide a reserve of GCK that can be quickly released in the cytoplasm after a meal (PubMed:10456334). The affinity of GCKR for GCK is modulated by fructose metabolites: GCKR with bound fructose 6-phosphate has increased affinity for GCK, while GCKR with bound fructose 1-phosphate has strongly decreased affinity for GCK and does not inhibit GCK activity (PubMed:23621087, PubMed:23733961). {ECO:0000269|PubMed:10456334, ECO:0000269|PubMed:23621087, ECO:0000269|PubMed:23733961}.

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
HgeneNPR2chr9:35799728chr2:27730548ENST00000342694+322513_7863291048.0DomainProtein kinase
HgeneNPR2chr9:35799728chr2:27730548ENST00000342694+322861_9913291048.0DomainGuanylate cyclase
HgeneNPR2chr9:35799728chr2:27730548ENST00000342694+32223_4583291048.0Topological domainExtracellular
HgeneNPR2chr9:35799728chr2:27730548ENST00000342694+322479_10473291048.0Topological domainCytoplasmic
HgeneNPR2chr9:35799728chr2:27730548ENST00000342694+322459_4783291048.0TransmembraneHelical
TgeneGCKRchr9:35799728chr2:27730548ENST000002647171219320_499381626.0DomainSIS 2
TgeneGCKRchr9:35799728chr2:27730548ENST00000264717121990_286381626.0DomainSIS 1
TgeneGCKRchr9:35799728chr2:27730548ENST000002647171219109_110381626.0RegionBeta-D-fructose 6-phosphate binding
TgeneGCKRchr9:35799728chr2:27730548ENST000002647171219179_181381626.0RegionBeta-D-fructose 6-phosphate binding


Top

Fusion Gene Sequence for NPR2-GCKR


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.
>60007_60007_1_NPR2-GCKR_NPR2_chr9_35799728_ENST00000342694_GCKR_chr2_27730548_ENST00000264717_length(transcript)=2222nt_BP=1242nt
TCCCCCTGCCACCCCGTTCTCAGTCCTCAGTCCTTGCCCTAGGCTGGTAGCCCACTCCTTGCCCGCCCCCCGCCTTCCTCCCATCTCCCC
CTCCTCTCCCCGGCCCCCAGCACCTTCTGCATCCCAGCCTACCTAGCCTACTCCTCCTCTTCCTGGCCCTCTTCCCCAGGCTCCAGGCTG
GGGGGTGCTCGCGTCTCCCCTGTAGGCCAGAGCAGCCCCAAGTTCTGGGGGCGGTGGGGCTGCTGCTTTATCCCCATGGCGCTGCCATCA
CTTCTGCTGTTGGTGGCAGCCCTGGCAGGTGGGGTGCGTCCTCCCGGGGCGCGGAACCTGACGCTGGCGGTGGTGCTGCCAGAACACAAC
CTGAGCTATGCCTGGGCCTGGCCACGGGTGGGACCCGCTGTGGCACTAGCTGTGGAGGCTCTGGGCCGGGCACTGCCCGTGGACCTGCGG
TTTGTCAGCTCCGAACTGGAAGGCGCCTGCTCTGAGTACCTGGCACCGCTGAGCGCTGTGGACCTCAAGCTGTACCATGACCCCGACCTG
CTGTTAGGTCCCGGTTGCGTGTACCCTGCTGCCTCTGTGGCCCGCTTTGCCTCCCACTGGCGCCTTCCCCTGCTGACTGCGGGTGCTGTG
GCCTCTGGTTTTTCGGCTAAGAATGACCATTATCGTACCCTGGTTCGCACTGGCCCCTCTGCTCCCAAGCTGGGTGAGTTTGTGGTGACA
CTACACGGGCACTTCAATTGGACTGCCCGTGCTGCCTTGCTGTACCTGGATGCTCGCACAGATGACCGGCCTCACTACTTCACCATCGAG
GGCGTCTTTGAGGCCCTGCAGGGCAGCAACCTCAGTGTGCAGCACCAGGTGTATGCCCGAGAGCCAGGGGGCCCCGAGCAGGCCACCCAC
TTCATCCGGGCCAACGGGCGCATTGTGTATATCTGCGGCCCTCTGGAGATGCTGCATGAGATCCTGCTTCAGGCCCAGAGGGAGAATCTG
ACCAATGGGGATTATGTCTTCTTTTACCTGGATGTCTTTGGGGAGAGTCTCCGTGCAGGCCCCACACGTGCTACAGGCCGGCCCTGGCAG
GACAATCGCACCCGGGAACAGGCCCAGGCCCTCAGAGAGGCCTTTCAGACTGTATTGGTGATCACGTACCGAGAACCCCCAAATCCTGAG
TATCAGGAATTCCAGAATCGTCTGCTGATAAGAGCCCGGGAAGACTTTGGTGTGGAGCTGGGCCCTTCCCTGGGTCCCCAGTTCACCTTC
TCCCAGGAGGACTTCCTGACTTCCATCCTTCCCTCTCTCACGGAAATCGATACTGTGGTCTTCATTTTCACCCTGGATGACAACCTCACG
GAGGTGCAGACTATAGTGGAGCAGGTGAAAGAGAAGACCAACCACATCCAGGCCCTGGCACACAGCACCGTGGGTCAGACCTTGCTGATC
CCTCTGAAGAAGCTCTTTCCCTCCATCATCAGCATCACATGGCCACTGCTTTTCTTTGAATATGAAGGGAACTTCATCCAGAAGTTCCAG
CGTGAGCTAAGCACCAAATGGGTGCTGAATACAGTGAGTACAGGTGCTCATGTGCTTCTTGGTAAGATCCTACAAAACCACATGTTGGAC
CTTCGGATTAGCAACTCCAAGCTCTTCTGGCGGGCGCTGGCCATGCTGCAGCGGTTCTCTGGACAGTCCAAGGCTCGATGCATCGAGAGC
CTCCTCCGAGCGATCCACTTTCCCCAGCCACTGTCAGATGATATTCGGGCTGCTCCCATCTCCTGCCATGTCCAGGTTGCACATGAGAAG
GAACAGGTGATACCCATCGCCTTGCTGAGCCTCCTATTCCGGTGCTCGATCACTGAGGCTCAGGCACACCTGGCTGCAGCTCCTTCTGTC
TGTGAGGCTGTCAGGAGTGCTCTTGCTGGGCCAGGTCAGAAGCGCACTGCGGACCCCCTCGAGATCCTAGAGCCTGACGTTCAGTGAACC
CATGTTTCTGGGTGGGTGAAAGGGGCCCAACCCTGCCCACTTCAGCCCAGCCCGCCCAAGGGGACTTGTGCCAGCAGAACATGTGGGAGG
AAGAAGCCCCGTTTCCAGGGCATCCGCAGCCCAGGGTAGGGAGAAATATTCTCTCCACTTTGGGGGAGAGTTCTTGCTCTCGACCTAGTG

>60007_60007_1_NPR2-GCKR_NPR2_chr9_35799728_ENST00000342694_GCKR_chr2_27730548_ENST00000264717_length(amino acids)=599AA_BP=355
MGGARVSPVGQSSPKFWGRWGCCFIPMALPSLLLLVAALAGGVRPPGARNLTLAVVLPEHNLSYAWAWPRVGPAVALAVEALGRALPVDL
RFVSSELEGACSEYLAPLSAVDLKLYHDPDLLLGPGCVYPAASVARFASHWRLPLLTAGAVASGFSAKNDHYRTLVRTGPSAPKLGEFVV
TLHGHFNWTARAALLYLDARTDDRPHYFTIEGVFEALQGSNLSVQHQVYAREPGGPEQATHFIRANGRIVYICGPLEMLHEILLQAQREN
LTNGDYVFFYLDVFGESLRAGPTRATGRPWQDNRTREQAQALREAFQTVLVITYREPPNPEYQEFQNRLLIRAREDFGVELGPSLGPQFT
FSQEDFLTSILPSLTEIDTVVFIFTLDDNLTEVQTIVEQVKEKTNHIQALAHSTVGQTLLIPLKKLFPSIISITWPLLFFEYEGNFIQKF
QRELSTKWVLNTVSTGAHVLLGKILQNHMLDLRISNSKLFWRALAMLQRFSGQSKARCIESLLRAIHFPQPLSDDIRAAPISCHVQVAHE

--------------------------------------------------------------
>60007_60007_2_NPR2-GCKR_NPR2_chr9_35799728_ENST00000342694_GCKR_chr2_27730548_ENST00000424318_length(transcript)=2225nt_BP=1242nt
TCCCCCTGCCACCCCGTTCTCAGTCCTCAGTCCTTGCCCTAGGCTGGTAGCCCACTCCTTGCCCGCCCCCCGCCTTCCTCCCATCTCCCC
CTCCTCTCCCCGGCCCCCAGCACCTTCTGCATCCCAGCCTACCTAGCCTACTCCTCCTCTTCCTGGCCCTCTTCCCCAGGCTCCAGGCTG
GGGGGTGCTCGCGTCTCCCCTGTAGGCCAGAGCAGCCCCAAGTTCTGGGGGCGGTGGGGCTGCTGCTTTATCCCCATGGCGCTGCCATCA
CTTCTGCTGTTGGTGGCAGCCCTGGCAGGTGGGGTGCGTCCTCCCGGGGCGCGGAACCTGACGCTGGCGGTGGTGCTGCCAGAACACAAC
CTGAGCTATGCCTGGGCCTGGCCACGGGTGGGACCCGCTGTGGCACTAGCTGTGGAGGCTCTGGGCCGGGCACTGCCCGTGGACCTGCGG
TTTGTCAGCTCCGAACTGGAAGGCGCCTGCTCTGAGTACCTGGCACCGCTGAGCGCTGTGGACCTCAAGCTGTACCATGACCCCGACCTG
CTGTTAGGTCCCGGTTGCGTGTACCCTGCTGCCTCTGTGGCCCGCTTTGCCTCCCACTGGCGCCTTCCCCTGCTGACTGCGGGTGCTGTG
GCCTCTGGTTTTTCGGCTAAGAATGACCATTATCGTACCCTGGTTCGCACTGGCCCCTCTGCTCCCAAGCTGGGTGAGTTTGTGGTGACA
CTACACGGGCACTTCAATTGGACTGCCCGTGCTGCCTTGCTGTACCTGGATGCTCGCACAGATGACCGGCCTCACTACTTCACCATCGAG
GGCGTCTTTGAGGCCCTGCAGGGCAGCAACCTCAGTGTGCAGCACCAGGTGTATGCCCGAGAGCCAGGGGGCCCCGAGCAGGCCACCCAC
TTCATCCGGGCCAACGGGCGCATTGTGTATATCTGCGGCCCTCTGGAGATGCTGCATGAGATCCTGCTTCAGGCCCAGAGGGAGAATCTG
ACCAATGGGGATTATGTCTTCTTTTACCTGGATGTCTTTGGGGAGAGTCTCCGTGCAGGCCCCACACGTGCTACAGGCCGGCCCTGGCAG
GACAATCGCACCCGGGAACAGGCCCAGGCCCTCAGAGAGGCCTTTCAGACTGTATTGGTGATCACGTACCGAGAACCCCCAAATCCTGAG
TATCAGGAATTCCAGAATCGTCTGCTGATAAGAGCCCGGGAAGACTTTGGTGTGGAGCTGGGCCCTTCCCTGGGTCCCCAGTTCACCTTC
TCCCAGGAGGACTTCCTGACTTCCATCCTTCCCTCTCTCACGGAAATCGATACTGTGGTCTTCATTTTCACCCTGGATGACAACCTCACG
GAGGTGCAGACTATAGTGGAGCAGGTGAAAGAGAAGACCAACCACATCCAGGCCCTGGCACACAGCACCGTGGGTCAGACCTTGCTGATC
CCTCTGAAGAAGCTCTTTCCCTCCATCATCAGCATCACATGGCCACTGCTTTTCTTTGAATATGAAGGGAACTTCATCCAGAAGTTCCAG
CGTGAGCTAAGCACCAAATGGGTGCTGAATACAGTGAGTACAGGTGCTCATGTGCTTCTTGGTAAGATCCTACAAAACCACATGTTGGAC
CTTCGGATTAGCAACTCCAAGCTCTTCTGGCGGGCGCTGGCCATGCTGCAGCGGTTCTCTGGACAGTCCAAGGCTCGATGCATCGAGAGC
CTCCTCCGAGCGATCCACTTTCCCCAGCCACTGTCAGATGATATTCGGGCTGCTCCCATCTCCTGCCATGTCCAGGTTGCACATGAGAAG
GAACAGGTGATACCCATCGCCTTGCTGAGCCTCCTATTCCGGTGCTCGATCACTGAGGCTCAGGCACACCTGGCTGCAGCTCCTTCTGTC
TGTGAGGCTGTCAGGAGTGCTCTTGCTGGGCCAGGTCAGAAGCGCACTGCGGACCCCCTCGAGATCCTAGAGCCTGACGTTCAGTGAACC
CATGTTTCTGGGTGGGTGAAAGGGGCCCAACCCTGCCCACTTCAGCCCAGCCCGCCCAAGGGGACTTGTGCCAGCAGAACATGTGGGAGG
AAGAAGCCCCGTTTCCAGGGCATCCGCAGCCCAGGGTAGGGAGAAATATTCTCTCCACTTTGGGGGAGAGTTCTTGCTCTCGACCTAGTG

>60007_60007_2_NPR2-GCKR_NPR2_chr9_35799728_ENST00000342694_GCKR_chr2_27730548_ENST00000424318_length(amino acids)=599AA_BP=355
MGGARVSPVGQSSPKFWGRWGCCFIPMALPSLLLLVAALAGGVRPPGARNLTLAVVLPEHNLSYAWAWPRVGPAVALAVEALGRALPVDL
RFVSSELEGACSEYLAPLSAVDLKLYHDPDLLLGPGCVYPAASVARFASHWRLPLLTAGAVASGFSAKNDHYRTLVRTGPSAPKLGEFVV
TLHGHFNWTARAALLYLDARTDDRPHYFTIEGVFEALQGSNLSVQHQVYAREPGGPEQATHFIRANGRIVYICGPLEMLHEILLQAQREN
LTNGDYVFFYLDVFGESLRAGPTRATGRPWQDNRTREQAQALREAFQTVLVITYREPPNPEYQEFQNRLLIRAREDFGVELGPSLGPQFT
FSQEDFLTSILPSLTEIDTVVFIFTLDDNLTEVQTIVEQVKEKTNHIQALAHSTVGQTLLIPLKKLFPSIISITWPLLFFEYEGNFIQKF
QRELSTKWVLNTVSTGAHVLLGKILQNHMLDLRISNSKLFWRALAMLQRFSGQSKARCIESLLRAIHFPQPLSDDIRAAPISCHVQVAHE

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

Top

Fusion Gene PPI Analysis for NPR2-GCKR


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


Top

Related Drugs for NPR2-GCKR


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

Top

Related Diseases for NPR2-GCKR


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