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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: 28862

FusionGeneSummary for PRPF38A_CDNF

check button Fusion gene summary
Fusion gene informationFusion gene name: PRPF38A_CDNF
Fusion gene ID: 28862
HgeneTgene
Gene symbol

PRPF38A

CDNF

Gene ID

84950

441549

Gene namepre-mRNA processing factor 38Acerebral dopamine neurotrophic factor
SynonymsPRP38A|Prp38ARMETL1
Cytomap

1p32.3

10p13

Type of geneprotein-codingprotein-coding
Descriptionpre-mRNA-splicing factor 38APRP38 pre-mRNA processing factor 38 domain containing Acerebral dopamine neurotrophic factorARMET-like protein 1arginine-rich, mutated in early stage tumors-like 1conserved dopamine neurotrophic factor
Modification date2018052220180523
UniProtAcc

Q8NAV1

Q49AH0

Ensembl transtripts involved in fusion geneENST00000257181, ENST00000474048, 
ENST00000378442, ENST00000378441, 
Fusion gene scores* DoF score2 X 2 X 2=81 X 2 X 1=2
# samples 21
** MAII scorelog2(2/8*10)=1.32192809488736log2(1/2*10)=2.32192809488736
Context

PubMed: PRPF38A [Title/Abstract] AND CDNF [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
TCGARVSARCTCGA-IF-A4AK-01APRPF38Achr1

52876872

+CDNFchr10

14870271

-
TCGALDSARCTCGA-IF-A4AK-01APRPF38Achr1

52876872

+CDNFchr10

14867619

-
* 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
5CDS-5UTRENST00000257181ENST00000378442PRPF38Achr1

52876872

+CDNFchr10

14870271

-
5CDS-5UTRENST00000257181ENST00000378441PRPF38Achr1

52876872

+CDNFchr10

14870271

-
intron-5UTRENST00000474048ENST00000378442PRPF38Achr1

52876872

+CDNFchr10

14870271

-
intron-5UTRENST00000474048ENST00000378441PRPF38Achr1

52876872

+CDNFchr10

14870271

-
5CDS-5UTRENST00000257181ENST00000378442PRPF38Achr1

52876872

+CDNFchr10

14867619

-
5CDS-intronENST00000257181ENST00000378441PRPF38Achr1

52876872

+CDNFchr10

14867619

-
intron-5UTRENST00000474048ENST00000378442PRPF38Achr1

52876872

+CDNFchr10

14867619

-
intron-intronENST00000474048ENST00000378441PRPF38Achr1

52876872

+CDNFchr10

14867619

-

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FusionProtFeatures for PRPF38A_CDNF


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PRPF38A

Q8NAV1

CDNF

Q49AH0

May be required for pre-mRNA splicing. {ECO:0000305}. Trophic factor for dopamine neurons. Prevents the 6-hydroxydopamine (6-OHDA)-induced degeneration of dopaminergicneurons. When administered after 6-OHDA-lesioning, restores thedopaminergic function and prevents the degeneration ofdopaminergic neurons in substantia nigra (By similarity).{ECO:0000250}.

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 PRPF38A_CDNF


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 PRPF38A_CDNF


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
PRPF38AGTF3C1, POLA2, MAPK6, JMJD6, APP, U2AF1, CHERP, RBM39, SRSF3, PRPF38A, DHX8, RNPS1, PPIG, SRSF4, ZCCHC10, SRPK1, SRPK2, CSNK2A1, PRMT5, CLK2, SDCBP, SDCBP2, EED, SEC13, MFAP1, CSNK2B, IFI16, CLK1, XPO1, CDC14B, C11orf57, KIAA1161, RPS13, E2F5, HIST1H2BO, SRSF5, TP53BP1, SRSF6, SPAG1, WDR70, C12orf45, AP3B1, CFAP20, DNAAF2, TSSC4, DLST, PDHA1CDNFNFS1, MANF, LYRM4


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 PRPF38A_CDNF


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 PRPF38A_CDNF


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneCDNFC0600427Cocaine Dependence1PSYGENET