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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: 3124

FusionGeneSummary for ATF4_CDK12

check button Fusion gene summary
Fusion gene informationFusion gene name: ATF4_CDK12
Fusion gene ID: 3124
HgeneTgene
Gene symbol

ATF4

CDK12

Gene ID

468

51755

Gene nameactivating transcription factor 4cyclin dependent kinase 12
SynonymsCREB-2|CREB2|TAXREB67|TXREBCRK7|CRKR|CRKRS
Cytomap

22q13.1

17q12

Type of geneprotein-codingprotein-coding
Descriptioncyclic AMP-dependent transcription factor ATF-4DNA-binding protein TAXREB67cAMP response element-binding protein 2cAMP-dependent transcription factor ATF-4cAMP-responsive element-binding protein 2cyclic AMP-responsive element-binding protein 2tax-recyclin-dependent kinase 12CDC2-related protein kinase 7Cdc2-related kinase, arginine/serine-richcell division cycle 2-related protein kinase 7cell division protein kinase 12
Modification date2018052320180523
UniProtAcc

P18848

Q9NYV4

Ensembl transtripts involved in fusion geneENST00000404241, ENST00000337304, 
ENST00000396680, 
ENST00000430627, 
ENST00000447079, ENST00000559545, 
Fusion gene scores* DoF score3 X 3 X 2=1827 X 15 X 12=4860
# samples 331
** MAII scorelog2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(31/4860*10)=-3.97061619321891
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ATF4 [Title/Abstract] AND CDK12 [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
HgeneATF4

GO:0034976

response to endoplasmic reticulum stress

19061639

HgeneATF4

GO:0045893

positive regulation of transcription, DNA-templated

15775988|18940792

HgeneATF4

GO:0045944

positive regulation of transcription by RNA polymerase II

11478948|15775988|18940792

HgeneATF4

GO:1990440

positive regulation of transcription from RNA polymerase II promoter in response to endoplasmic reticulum stress

12871976

TgeneCDK12

GO:0046777

protein autophosphorylation

11683387


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-E2-A152-01AATF4chr22

39916756

+CDK12chr17

37700502

+
* 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-intronENST00000404241ENST00000430627ATF4chr22

39916756

+CDK12chr17

37700502

+
5UTR-intronENST00000404241ENST00000447079ATF4chr22

39916756

+CDK12chr17

37700502

+
5UTR-intronENST00000404241ENST00000559545ATF4chr22

39916756

+CDK12chr17

37700502

+
5UTR-intronENST00000337304ENST00000430627ATF4chr22

39916756

+CDK12chr17

37700502

+
5UTR-intronENST00000337304ENST00000447079ATF4chr22

39916756

+CDK12chr17

37700502

+
5UTR-intronENST00000337304ENST00000559545ATF4chr22

39916756

+CDK12chr17

37700502

+
5UTR-intronENST00000396680ENST00000430627ATF4chr22

39916756

+CDK12chr17

37700502

+
5UTR-intronENST00000396680ENST00000447079ATF4chr22

39916756

+CDK12chr17

37700502

+
5UTR-intronENST00000396680ENST00000559545ATF4chr22

39916756

+CDK12chr17

37700502

+

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FusionProtFeatures for ATF4_CDK12


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
ATF4

P18848

CDK12

Q9NYV4

Transcriptional activator. Binds the cAMP responseelement (CRE) (consensus: 5'-GTGACGT[AC][AG]-3'), a sequencepresent in many viral and cellular promoters. Cooperates withFOXO1 in osteoblasts to regulate glucose homeostasis throughsuppression of beta-cell production and decrease in insulinproduction (By similarity). It binds to a Tax-responsive enhancerelement in the long terminal repeat of HTLV-I. Regulates theinduction of DDIT3/CHOP and asparagine synthetase (ASNS) inresponse to endoplasmic reticulum (ER) stress. In concert withDDIT3/CHOP, activates the transcription of TRIB3 and promotes ERstress-induced neuronal apoptosis by regulating thetranscriptional induction of BBC3/PUMA. Activates transcription ofSIRT4. Regulates the circadian expression of the core clockcomponent PER2 and the serotonin transporter SLC6A4. Binds in acircadian time-dependent manner to the cAMP response elements(CRE) in the SLC6A4 and PER2 promoters and periodically activatesthe transcription of these genes. During ER stress response,activates the transcription of NLRP1, possibly in concert withother factors (PubMed:26086088). {ECO:0000250,ECO:0000269|PubMed:15775988, ECO:0000269|PubMed:16682973,ECO:0000269|PubMed:18940792, ECO:0000269|PubMed:26086088}. Cyclin-dependent kinase that phosphorylates the C-terminal domain (CTD) of the large subunit of RNA polymerase II(POLR2A), thereby acting as a key regulator of transcriptionelongation. Regulates the expression of genes involved in DNArepair and is required for the maintenance of genomic stability.Preferentially phosphorylates 'Ser-5' in CTD repeats that arealready phosphorylated at 'Ser-7', but can also phosphorylate'Ser-2'. Required for RNA splicing, possibly by phosphorylatingSRSF1/SF2. Involved in regulation of MAP kinase activity, possiblyleading to affect the response to estrogen inhibitors.{ECO:0000269|PubMed:11683387, ECO:0000269|PubMed:19651820,ECO:0000269|PubMed:20952539, ECO:0000269|PubMed:22012619,ECO:0000269|PubMed:24662513}.

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 ATF4_CDK12


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 ATF4_CDK12


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
ATF4TRIB3, GPS2, LDOC1, TREX2, PTCD3, TTR, POLR2C, CCDC106, EIF2A, TBP, GTF2F2, GTF2B, CREBBP, JUN, ATF3, DISC1, GABBR1, GABBR2, EP300, BTRC, ZNF226, TRIM24, GTF2A1L, KAT2B, CEBPE, FBXW11, EGLN3, APP, ZNF212, NFKBIA, SRA1, HAUS7, NFE2L2, NFE2, MAFB, MAF, BATF3, BATF2, BATF, ATF4, FOSL1, FOS, ATF2, CEBPA, DDIT3, CREBZF, CREB3, CEBPG, APH1A, MPZL2, TGM2, REPS1, RPS6, HK3, JUNB, LMNB1, MDM2, MAP2K7, SNAP29, CKAP4, ASB7, NEK6, GOLGA1, BFSP2, NDC80, GCC1, GOLGA8EP, GOLGA8F, SHMT2, MOV10, NXF1, DNMT3L, NLGN3, TBC1D25CDK12MGMT, SRRM2, RBM39, ELAVL1, MYC, PRPF4, CDK13, CCNK, TRIM24, IPPK, VPS51, ZNF606, TCEB3, BARD1, PAXIP1, PRPF40A, EWSR1, CDK20, CDK9, PIN1, RPL14, ACAA1, MAP4K4, SCAF4, SUPT16H, SRPK2, CLK1, BCLAF1, RNPS1, SNW1, PCGF1, CDX1, RPL37A, RRS1, ZNF2, FGF8, RPS14, WEE1, LASP1


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 ATF4_CDK12


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 ATF4_CDK12


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneATF4C0005586Bipolar Disorder2PSYGENET
HgeneATF4C0011570Mental Depression1PSYGENET
HgeneATF4C0011581Depressive disorder1PSYGENET
HgeneATF4C0027540Necrosis1CTD_human
HgeneATF4C0036341Schizophrenia1PSYGENET
HgeneATF4C0242184Hypoxia1CTD_human
HgeneATF4C1134719Invasive Ductal Breast Carcinoma1CTD_human