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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: 9743

FusionGeneSummary for DENND4C_NFIL3

check button Fusion gene summary
Fusion gene informationFusion gene name: DENND4C_NFIL3
Fusion gene ID: 9743
HgeneTgene
Gene symbol

DENND4C

NFIL3

Gene ID

55667

4783

Gene nameDENN domain containing 4Cnuclear factor, interleukin 3 regulated
SynonymsC9orf55|C9orf55B|RAB10GEF|bA513M16.3E4BP4|IL3BP1|NF-IL3A|NFIL3A
Cytomap

9p22.1

9q22.31

Type of geneprotein-codingprotein-coding
DescriptionDENN domain-containing protein 4CDENN/MADD domain containing 4A pseudogeneDENN/MADD domain containing 4Cnuclear factor interleukin-3-regulated proteinE4 promoter-binding protein 4interleukin-3 promoter transcriptional activatorinterleukin-3-binding protein 1transcriptional activator NF-IL3A
Modification date2018051920180523
UniProtAcc

Q5VZ89

Q16649

Ensembl transtripts involved in fusion geneENST00000434457, ENST00000602925, 
ENST00000380432, 
ENST00000297689, 
Fusion gene scores* DoF score6 X 5 X 5=1503 X 3 X 2=18
# samples 73
** MAII scorelog2(7/150*10)=-1.09953567355091
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: DENND4C [Title/Abstract] AND NFIL3 [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

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
TCGALDBRCATCGA-E9-A244-01ADENND4Cchr9

19230831

+NFIL3chr9

94173188

-
* 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
5UTR-5UTRENST00000434457ENST00000297689DENND4Cchr9

19230831

+NFIL3chr9

94173188

-
5UTR-5UTRENST00000602925ENST00000297689DENND4Cchr9

19230831

+NFIL3chr9

94173188

-
intron-5UTRENST00000380432ENST00000297689DENND4Cchr9

19230831

+NFIL3chr9

94173188

-

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FusionProtFeatures for DENND4C_NFIL3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
DENND4C

Q5VZ89

NFIL3

Q16649

Acts as a transcriptional regulator that recognizes andbinds to the sequence 5'-[GA]TTA[CT]GTAA[CT]-3', a sequencepresent in many cellular and viral promoters. Repressestranscription from promoters with activating transcription factor(ATF) sites. Represses promoter activity in osteoblasts (Bysimilarity). Represses transcriptional activity of PER1 (Bysimilarity). Represses transcriptional activity of PER2 via the B-site on the promoter (By similarity). Activates transcription fromthe interleukin-3 promoter in T-cells. Competes for the sameconsensus-binding site with PAR DNA-binding factors (DBP, HLF andTEF) (By similarity). Component of the circadian clock that actsas a negative regulator for the circadian expression of PER2oscillation in the cell-autonomous core clock (By similarity).Protects pro-B cells from programmed cell death (By similarity).{ECO:0000250, ECO:0000269|PubMed:1620116,ECO:0000269|PubMed:7565758, ECO:0000269|PubMed:8836190}.

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 DENND4C_NFIL3


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 DENND4C_NFIL3


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
DENND4CYWHAB, FBXW11, MED4, OFD1, XPO1, CDK8, C1orf112, CDH1, KCTD3, KIF13B, ZBTB21, KSR1, GIGYF1, CGN, LRFN1, DENND1A, RTKN, SH3PXD2A, MAST3, SRGAP2, EIF4E2, SIPA1L1, PPM1H, LPIN3, LIMA1, MAGI1, TESK2, DCLK1, ZNF638, MAPKAP1, NF1, HDAC4, CBY1, SH3RF3, SRSF12, CDC25C, SYDE1, AGAP1, NADK, GIGYF2, CDC25B, CDK16, TANC2, PTPN13, CAMSAP2, RALGPS2, FAM110B, USP21, KIAA1804, RASAL2, TIAM1, FAM53C, ANKRD34A, OSBPL6, PHLDB2, RPTOR, PLEKHA7, KIF1C, CSNK1A1, MELK, NAV1, DENND4A, FAM110A, GAB2, STARD13, PTPN14, WEE1, INPP5ENFIL3DR1, CBX8, MAFG, MAFF, BATF, NFIL3, DDIT3, TRAF2, AMOTL2, DEC1, CREB1, DNMT3L, RFWD2, STK40, ATF1, MCM9


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 DENND4C_NFIL3


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 DENND4C_NFIL3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneNFIL3C0877792Sleep Disorders, Circadian Rhythm1CTD_human