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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: 26398

FusionGeneSummary for PDE4D_CRABP1

check button Fusion gene summary
Fusion gene informationFusion gene name: PDE4D_CRABP1
Fusion gene ID: 26398
HgeneTgene
Gene symbol

PDE4D

CRABP1

Gene ID

5144

1381

Gene namephosphodiesterase 4Dcellular retinoic acid binding protein 1
SynonymsACRDYS2|DPDE3|HSPDE4D|PDE43|PDE4DN2|STRK1CRABP|CRABP-I|CRABPI|RBP5
Cytomap

5q11.2-q12.1

15q25.1

Type of geneprotein-codingprotein-coding
DescriptioncAMP-specific 3',5'-cyclic phosphodiesterase 4DcAMP-specific phosphodiesterase PDE4D6phosphodiesterase 4D, cAMP-specific (phosphodiesterase E3 dunce homolog, Drosophila)testicular tissue protein Li 136cellular retinoic acid-binding protein 1cellular retinoic acid-binding protein I
Modification date2018051920180519
UniProtAcc

Q08499

P29762

Ensembl transtripts involved in fusion geneENST00000340635, ENST00000360047, 
ENST00000507116, ENST00000502484, 
ENST00000546160, ENST00000502575, 
ENST00000358923, ENST00000503258, 
ENST00000405755, ENST00000317118, 
ENST00000503947, 
ENST00000299529, 
Fusion gene scores* DoF score23 X 14 X 10=32201 X 1 X 1=1
# samples 341
** MAII scorelog2(34/3220*10)=-3.24345403686428
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(1/1*10)=3.32192809488736
Context

PubMed: PDE4D [Title/Abstract] AND CRABP1 [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
HgenePDE4D

GO:0006198

cAMP catabolic process

9371713|17404263


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
TCGARVLUADTCGA-86-7713-01APDE4Dchr5

58334686

-CRABP1chr15

78640269

+
* 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-shiftENST00000340635ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
Frame-shiftENST00000360047ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
Frame-shiftENST00000507116ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
In-frameENST00000502484ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
Frame-shiftENST00000546160ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
intron-3CDSENST00000502575ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
Frame-shiftENST00000358923ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
Frame-shiftENST00000503258ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
Frame-shiftENST00000405755ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
intron-3CDSENST00000317118ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+
intron-3CDSENST00000503947ENST00000299529PDE4Dchr5

58334686

-CRABP1chr15

78640269

+

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FusionProtFeatures for PDE4D_CRABP1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PDE4D

Q08499

CRABP1

P29762

Cytosolic CRABPs may regulate the access of retinoicacid to the nuclear retinoic acid receptors.

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 PDE4D_CRABP1


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.
>In-frame_PDE4D_ENST00000502484_chr5_58334686_-_CRABP1_ENST00000299529_chr15_78640269_+_263aa
MKRNTCDLLSRSKSASEETLHSSNEEEDPFRGMEPYLVRRLSCRNIQLPPLAFRQLEQADLKSESENIQRPTSLPLKILPLIAITSAESS
GFDVDNGTSAGRSPLDPMTSPGSGLILQANFVHSQRRESFLYRSDSDYDLSPKSMSRNSSIASDIHGDDLIVTPFAQVLASLRTVRNNFA


* Fusion transcript sequences (only coding sequence (CDS) region).
>In-frame_PDE4D_ENST00000502484_chr5_58334686_-_CRABP1_ENST00000299529_chr15_78640269_+_789nt
ATGAAAAGAAATACCTGTGATTTGCTTTCTCGGAGCAAAAGTGCCTCTGAGGAAACACTACATTCCAGTAATGAAGAGGAAGACCCTTTC
CGCGGAATGGAACCCTATCTTGTCCGGAGACTTTCATGTCGCAATATTCAGCTTCCCCCTCTCGCCTTCAGACAGTTGGAACAAGCTGAC
TTGAAAAGTGAATCAGAGAACATTCAACGACCAACCAGCCTCCCCCTGAAGATTCTGCCGCTGATTGCTATCACTTCTGCAGAATCCAGT
GGTTTTGATGTGGACAATGGCACATCTGCGGGACGGAGTCCCTTGGATCCCATGACCAGCCCAGGATCCGGGCTAATTCTCCAAGCAAAT
TTTGTCCACAGTCAACGACGGGAGTCCTTCCTGTATCGATCCGACAGCGATTATGACCTCTCTCCAAAGTCTATGTCCCGGAACTCCTCC
ATTGCCAGTGATATACACGGAGATGACTTGATTGTGACTCCATTTGCTCAGGTCTTGGCCAGTCTGCGAACTGTACGAAACAACTTTGCT
GCATTAACTAATTTGCAAGATCGAGCACCTAGCAAAAGATCACCCATGTGCAACCAACCATCCATCAACAAAGCCACCATAACAGAGGAG
GCCTACCAGAAACTGGCCAGCGAGACCCTGGAGGAGCTGGACTGGTGTCTGGACCAGCTAGAGACCCTACAGACCAGGCACTCCGTCAGT


* Fusion transcript sequences (Full-length transcript).
>In-frame_PDE4D_ENST00000502484_chr5_58334686_-_CRABP1_ENST00000299529_chr15_78640269_+_1266nt
AAGCACGAGTCCTATAGTTGGCGTACCCTGAGGCCTGCCAGTTCCTGCCTTAATGCATATGTAGTCGTAATTGAGTTCTGACACGGCCTT
GGATGTTTCTGTCCTAAATAGCTGACATTGCATCTTCAAGACTGTCATTCCAGTTGGCTTTTGAGTGGATACGTGCAGTGAGATCATTGA
CACTGGAAACACTAGTTCCCATTTTAATTACTTAAAACACCACGATGAAAAGAAATACCTGTGATTTGCTTTCTCGGAGCAAAAGTGCCT
CTGAGGAAACACTACATTCCAGTAATGAAGAGGAAGACCCTTTCCGCGGAATGGAACCCTATCTTGTCCGGAGACTTTCATGTCGCAATA
TTCAGCTTCCCCCTCTCGCCTTCAGACAGTTGGAACAAGCTGACTTGAAAAGTGAATCAGAGAACATTCAACGACCAACCAGCCTCCCCC
TGAAGATTCTGCCGCTGATTGCTATCACTTCTGCAGAATCCAGTGGTTTTGATGTGGACAATGGCACATCTGCGGGACGGAGTCCCTTGG
ATCCCATGACCAGCCCAGGATCCGGGCTAATTCTCCAAGCAAATTTTGTCCACAGTCAACGACGGGAGTCCTTCCTGTATCGATCCGACA
GCGATTATGACCTCTCTCCAAAGTCTATGTCCCGGAACTCCTCCATTGCCAGTGATATACACGGAGATGACTTGATTGTGACTCCATTTG
CTCAGGTCTTGGCCAGTCTGCGAACTGTACGAAACAACTTTGCTGCATTAACTAATTTGCAAGATCGAGCACCTAGCAAAAGATCACCCA
TGTGCAACCAACCATCCATCAACAAAGCCACCATAACAGAGGAGGCCTACCAGAAACTGGCCAGCGAGACCCTGGAGGAGCTGGACTGGT
GTCTGGACCAGCTAGAGACCCTACAGACCAGGCACTCCGTCAGTGAGATGGCCTCCAACAAGACGTTTGGCGCCGATGACGTGGTCTGCA
CCAGAATTTATGTCCGAGAGTGAAGGCAGCTGGCTTGCTCCTACTTTCAGGAAGGGATGCAGGCTCCCCTGAGGAATATGTCATAGTTCT
GAGCTGCCAGTGGACCGCCCTTTTCCCCTACCAATATTAGGTGATCCCGTTTTCCCCATGACAATGTTGTAGTGTCCCCCACCCCCACCC
CCCAGGCCTTGGTGCCTCTTGTATCCCTAGTGCTCCATAGTTTGGCATTTGCACGGTTTCGAAGTCATTAAACTGGTTAGACGTGTCTCA


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FusionGenePPI for PDE4D_CRABP1


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
PDE4DPDE4DIP, PDE4D, AKAP6, GNB2L1, ARRB1, MDM2, ITSN1, ARRB2, PPP3CA, PPP3CB, PPP3R1, GSK3B, CSNK1A1, CDK2, PAFAH1B1, PRKACA, APP, LYN, SRC, FYN, ABL1, GRB2, PIAS4, MAPK1, BIN1, HDGFRP2, ZBTB1, MAGEA6, TRAF1, COIL, GOLGA8EP, GOLGA8F, ZDHHC17, SPTAN1, PIK3R1, TRIM23, ITPKB, PFKFB2, AKAP12, ATOH1, DUSP13, PDE4B, TRIM25CRABP1TRA2A, CDK2, TSPO, CETN1


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 PDE4D_CRABP1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgenePDE4DQ08499DB00651DyphyllinecAMP-specific 3',5'-cyclic phosphodiesterase 4Dsmall moleculeapproved
HgenePDE4DQ08499DB01656RoflumilastcAMP-specific 3',5'-cyclic phosphodiesterase 4Dsmall moleculeapproved
HgenePDE4DQ08499DB01088IloprostcAMP-specific 3',5'-cyclic phosphodiesterase 4Dsmall moleculeapproved|investigational
HgenePDE4DQ08499DB05266IbudilastcAMP-specific 3',5'-cyclic phosphodiesterase 4Dsmall moleculeapproved|investigational
HgenePDE4DQ08499DB05676ApremilastcAMP-specific 3',5'-cyclic phosphodiesterase 4Dsmall moleculeapproved|investigational

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RelatedDiseases for PDE4D_CRABP1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgenePDE4DC3553250ACRODYSOSTOSIS 2 WITH OR WITHOUT HORMONE RESISTANCE4UNIPROT
HgenePDE4DC0011581Depressive disorder3PSYGENET
HgenePDE4DC0004096Asthma2CTD_human
HgenePDE4DC0011570Mental Depression2PSYGENET
HgenePDE4DC0033578Prostatic Neoplasms1CTD_human
HgenePDE4DC0036341Schizophrenia1PSYGENET
HgenePDE4DC0236733Amphetamine-Related Disorders1CTD_human
TgeneCRABP1C0007134Renal Cell Carcinoma1CTD_human
TgeneCRABP1C0022548Keloid1CTD_human
TgeneCRABP1C0023903Liver neoplasms1CTD_human
TgeneCRABP1C0279626Squamous cell carcinoma of esophagus1CTD_human