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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: 24210

FusionGeneSummary for NFIA_DCLK1

check button Fusion gene summary
Fusion gene informationFusion gene name: NFIA_DCLK1
Fusion gene ID: 24210
HgeneTgene
Gene symbol

NFIA

DCLK1

Gene ID

4774

9201

Gene namenuclear factor I Adoublecortin like kinase 1
SynonymsBRMUTD|CTF|NF-I/A|NF1-A|NFI-A|NFI-LCL1|CLICK1|DCAMKL1|DCDC3A|DCLK
Cytomap

1p31.3

13q13.3

Type of geneprotein-codingprotein-coding
Descriptionnuclear factor 1 A-typeCCAAT-box-binding transcription factorTGGCA-binding proteinserine/threonine-protein kinase DCLK1doublecortin domain-containing protein 3Adoublecortin-like and CAM kinase-like 1
Modification date2018052320180527
UniProtAcc

Q12857

O15075

Ensembl transtripts involved in fusion geneENST00000371191, ENST00000407417, 
ENST00000479364, ENST00000371189, 
ENST00000403491, ENST00000371187, 
ENST00000485903, ENST00000371185, 
ENST00000371184, ENST00000357977, 
ENST00000360631, ENST00000255448, 
ENST00000379892, ENST00000379893, 
ENST00000460982, 
Fusion gene scores* DoF score14 X 13 X 7=12744 X 4 X 4=64
# samples 184
** MAII scorelog2(18/1274*10)=-2.82329646592663
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/64*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: NFIA [Title/Abstract] AND DCLK1 [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
HgeneNFIA

GO:0045944

positive regulation of transcription by RNA polymerase II

17010934


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
TCGARVBRCATCGA-GM-A2DH-01ANFIAchr1

61798258

+DCLK1chr13

36413313

-
* 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
Frame-shiftENST00000371191ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000371191ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371191ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371191ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371191ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000407417ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000407417ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000407417ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000407417ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000407417ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
3UTR-3CDSENST00000479364ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
3UTR-3CDSENST00000479364ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
3UTR-intronENST00000479364ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
3UTR-intronENST00000479364ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
3UTR-intronENST00000479364ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000371189ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000371189ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371189ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371189ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371189ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000403491ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000403491ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000403491ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000403491ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000403491ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000371187ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000371187ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371187ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371187ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371187ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000485903ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000485903ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000485903ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000485903ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000485903ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000371185ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
Frame-shiftENST00000371185ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371185ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371185ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
5CDS-intronENST00000371185ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-3CDSENST00000371184ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-3CDSENST00000371184ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-intronENST00000371184ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-intronENST00000371184ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-intronENST00000371184ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-3CDSENST00000357977ENST00000360631NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-3CDSENST00000357977ENST00000255448NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-intronENST00000357977ENST00000379892NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-intronENST00000357977ENST00000379893NFIAchr1

61798258

+DCLK1chr13

36413313

-
intron-intronENST00000357977ENST00000460982NFIAchr1

61798258

+DCLK1chr13

36413313

-

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FusionProtFeatures for NFIA_DCLK1


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

Q12857

DCLK1

O15075

Recognizes and binds the palindromic sequence 5'-TTGGCNNNNNGCCAA-3' present in viral and cellular promoters and inthe origin of replication of adenovirus type 2. These proteins areindividually capable of activating transcription and replication. Probable kinase that may be involved in a calcium-signaling pathway controlling neuronal migration in the developingbrain. May also participate in functions of the mature nervoussystem.

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 NFIA_DCLK1


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 NFIA_DCLK1


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
NFIAELAVL1, TFAP4, SAP18, PCDHA2, NOP2, TRA2A, HNRNPU, TPBG, SRSF7, NOP56, RRS1, RPS13, SON, SRSF10, FTSJ3, RRP7A, UTP14A, ZNF326, RPS6, DDX21, RPS24, SURF4, DHX9, TRIM55, VTN, LUC7L3, RBM25, HP1BP3, ACIN1, ADNP, SRSF3, TRA2B, RPS11, RPL37A, SMAD4, SMAD2, SMAD3, XPO1, CREB1, RBPJ, FOXC2, NFIB, UBCDCLK1APP, CFTR, HAX1, NUFIP1, CDCA8, DGUOK, DNAAF2, DCX, SLC4A1AP, CEP170, SPICE1, CEP128, DCTN1, LCA5, KCTD3, KIF13B, ZBTB21, KSR1, GIGYF1, LRFN1, DENND1A, SH3PXD2A, SRGAP2, EIF4E2, SIPA1L1, LIMA1, MAGI1, TESK2, ZNF638, SRSF12, SYDE1, RTKN, MAST3, PPM1H, AGAP1, CDC25B, CDK16, DENND4C, FAM110B, USP21, FAM53C, ANKRD34A, MAPKAP1, FAM110A, CGN, HDAC4, TBC1D25, NF1, NADK, CBY1, TIAM1, PHLDB2, KIAA1804, RASAL2, GAB2, CAMSAP2, MELK, PLEKHA7, CDC25C, LPIN3, KIF1C, GIGYF2, DEPDC1B, NAV1, MLLT4, DENND4A, PTPN14, STARD13, RPTOR, PLEKHA5, SH3BP4, HDAC7, EDC3, SH3RF3, LARP1, RAB3IP, INPP5E


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 NFIA_DCLK1


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 NFIA_DCLK1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneDCLK1C0005586Bipolar Disorder1PSYGENET
TgeneDCLK1C0009404Colorectal Neoplasms1CTD_human
TgeneDCLK1C0036341Schizophrenia1PSYGENET