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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 8340

FusionGeneSummary for CPSF7_CHN2

check button Fusion gene summary
Fusion gene informationFusion gene name: CPSF7_CHN2
Fusion gene ID: 8340
HgeneTgene
Gene symbol

CPSF7

CHN2

Gene ID

79869

1124

Gene namecleavage and polyadenylation specific factor 7chimerin 2
SynonymsCFIm59ARHGAP3|BCH|CHN2-3|RHOGAP3
Cytomap

11q12.2

7p14.3

Type of geneprotein-codingprotein-coding
Descriptioncleavage and polyadenylation specificity factor subunit 7CPSF 59 kDa subunitcleavage and polyadenylation specificity factor 59 kDa subunitcleavage factor Im complex 59 kDa subunitpre-mRNA cleavage factor I, 59 kDa subunitpre-mRNA cleavage factor Im 5beta-chimaerinbeta-chimerinbeta3-chimaerinchimerin (chimaerin) 2chimerin, beta-2chimerin, testis-specificrho-GTPase-activating protein 3
Modification date2018051920180519
UniProtAcc

Q8N684

P52757

Ensembl transtripts involved in fusion geneENST00000340437, ENST00000394888, 
ENST00000439958, ENST00000494016, 
ENST00000448745, ENST00000541963, 
ENST00000539406, ENST00000222792, 
ENST00000435288, ENST00000495789, 
ENST00000539389, ENST00000546235, 
ENST00000409041, ENST00000424025, 
ENST00000439711, ENST00000421775, 
ENST00000410098, 
Fusion gene scores* DoF score5 X 5 X 2=506 X 5 X 4=120
# samples 56
** MAII scorelog2(5/50*10)=0log2(6/120*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CPSF7 [Title/Abstract] AND CHN2 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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
HgeneCPSF7

GO:0051262

protein tetramerization

20695905

HgeneCPSF7

GO:0051290

protein heterotetramerization

23187700

HgeneCPSF7

GO:1990120

messenger ribonucleoprotein complex assembly

29276085


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* 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.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChiTaRS3.1BF091403CPSF7chr11

61187511

+CHN2chr7

29259028

+
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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
intron-intronENST00000340437ENST00000539406CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000222792CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000435288CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000495789CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000539389CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000546235CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000409041CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000424025CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000439711CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000421775CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000340437ENST00000410098CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000539406CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000222792CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000435288CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000495789CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000539389CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000546235CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000409041CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000424025CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000439711CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000421775CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000394888ENST00000410098CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000539406CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000222792CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000435288CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000495789CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000539389CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000546235CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000409041CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000424025CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000439711CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000421775CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000439958ENST00000410098CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000539406CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000222792CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000435288CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000495789CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000539389CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000546235CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000409041CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000424025CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000439711CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000421775CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000494016ENST00000410098CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000539406CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000222792CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000435288CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000495789CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000539389CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000546235CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000409041CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000424025CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000439711CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000421775CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000448745ENST00000410098CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000539406CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000222792CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000435288CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000495789CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000539389CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000546235CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000409041CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000424025CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000439711CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000421775CPSF7chr11

61187511

+CHN2chr7

29259028

+
intron-intronENST00000541963ENST00000410098CPSF7chr11

61187511

+CHN2chr7

29259028

+

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FusionProtFeatures for CPSF7_CHN2


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CPSF7

Q8N684

CHN2

P52757

Component of the cleavage factor Im (CFIm) complex thatfunctions as an activator of the pre-mRNA 3'-end cleavage andpolyadenylation processing required for the maturation of pre-mRNAinto functional mRNAs (PubMed:8626397, PubMed:17024186,PubMed:29276085). CFIm contributes to the recruitment ofmultiprotein complexes on specific sequences on the pre-mRNA 3'-end, so called cleavage and polyadenylation signals (pA signals)(PubMed:8626397, PubMed:17024186). Most pre-mRNAs contain multiplepA signals, resulting in alternative cleavage and polyadenylation(APA) producing mRNAs with variable 3'-end formation(PubMed:23187700, PubMed:29276085). The CFIm complex acts as a keyregulator of cleavage and polyadenylation site choice during APAthrough its binding to 5'-UGUA-3' elements localized in the 3'-untranslated region (UTR) for a huge number of pre-mRNAs(PubMed:20695905, PubMed:29276085). CPSF7 activates directly themRNA 3'-processing machinery (PubMed:29276085). Binds to pAsignals in RNA substrates (PubMed:8626397, PubMed:17024186).{ECO:0000269|PubMed:17024186, ECO:0000269|PubMed:20695905,ECO:0000269|PubMed:23187700, ECO:0000269|PubMed:29276085,ECO:0000269|PubMed:8626397}.

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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FusionGeneSequence for CPSF7_CHN2


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for CPSF7_CHN2


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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RelatedDrugs for CPSF7_CHN2


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for CPSF7_CHN2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneCHN2C0023903Liver neoplasms1CTD_human
TgeneCHN2C0032927Precancerous Conditions1CTD_human