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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: 19527

FusionGeneSummary for LCORL_CDKAL1

check button Fusion gene summary
Fusion gene informationFusion gene name: LCORL_CDKAL1
Fusion gene ID: 19527
HgeneTgene
Gene symbol

LCORL

CDKAL1

Gene ID

254251

54901

Gene nameligand dependent nuclear receptor corepressor likeCDK5 regulatory subunit associated protein 1 like 1
SynonymsMLR1-
Cytomap

4p15.31

6p22.3

Type of geneprotein-codingprotein-coding
Descriptionligand-dependent nuclear receptor corepressor-like proteinLCOR-like proteinMBLK1-related proteintranscription factor MLR1threonylcarbamoyladenosine tRNA methylthiotransferasetRNA-t(6)A37 methylthiotransferase
Modification date2018051920180523
UniProtAcc

Q8N3X6

Q5VV42

Ensembl transtripts involved in fusion geneENST00000326877, ENST00000539056, 
ENST00000382224, ENST00000382226, 
ENST00000512376, 		ENST00000274695, 
ENST00000378624, ENST00000378610, 
ENST00000476517, 
Fusion gene scores* DoF score2 X 2 X 2=811 X 7 X 5=385
# samples 211
** MAII scorelog2(2/8*10)=1.32192809488736log2(11/385*10)=-1.8073549220576
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LCORL [Title/Abstract] AND CDKAL1 [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
TCGARVBLCATCGA-E7-A7DV-01ALCORLchr4

18023221

-CDKAL1chr6

20955650

+
* 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-shiftENST00000326877ENST00000274695LCORLchr4

18023221

-CDKAL1chr6

20955650

+
Frame-shiftENST00000326877ENST00000378624LCORLchr4

18023221

-CDKAL1chr6

20955650

+
Frame-shiftENST00000326877ENST00000378610LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5CDS-intronENST00000326877ENST00000476517LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5UTR-3CDSENST00000539056ENST00000274695LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5UTR-3CDSENST00000539056ENST00000378624LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5UTR-3CDSENST00000539056ENST00000378610LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5UTR-intronENST00000539056ENST00000476517LCORLchr4

18023221

-CDKAL1chr6

20955650

+
intron-3CDSENST00000382224ENST00000274695LCORLchr4

18023221

-CDKAL1chr6

20955650

+
intron-3CDSENST00000382224ENST00000378624LCORLchr4

18023221

-CDKAL1chr6

20955650

+
intron-3CDSENST00000382224ENST00000378610LCORLchr4

18023221

-CDKAL1chr6

20955650

+
intron-intronENST00000382224ENST00000476517LCORLchr4

18023221

-CDKAL1chr6

20955650

+
Frame-shiftENST00000382226ENST00000274695LCORLchr4

18023221

-CDKAL1chr6

20955650

+
Frame-shiftENST00000382226ENST00000378624LCORLchr4

18023221

-CDKAL1chr6

20955650

+
Frame-shiftENST00000382226ENST00000378610LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5CDS-intronENST00000382226ENST00000476517LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5UTR-3CDSENST00000512376ENST00000274695LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5UTR-3CDSENST00000512376ENST00000378624LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5UTR-3CDSENST00000512376ENST00000378610LCORLchr4

18023221

-CDKAL1chr6

20955650

+
5UTR-intronENST00000512376ENST00000476517LCORLchr4

18023221

-CDKAL1chr6

20955650

+

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FusionProtFeatures for LCORL_CDKAL1


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

Q8N3X6

CDKAL1

Q5VV42

May act as transcription activator that binds DNAelements with the sequence 5'-CCCTATCGATCGATCTCTACCT-3'. May playa role in spermatogenesis (By similarity). {ECO:0000250}. Catalyzes the methylthiolation of N6-threonylcarbamoyladenosine (t(6)A), leading to the formation of 2-methylthio-N6-threonylcarbamoyladenosine (ms(2)t(6)A) at position37 in tRNAs that read codons beginning with adenine.{ECO:0000269|PubMed:20584901}.

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 LCORL_CDKAL1


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 LCORL_CDKAL1


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
LCORLCTBP1, MAGEA6CDKAL1ELAVL1, MMS19, LMNA, FAM96B, CIAO1, LCK, SUZ12, TCTN2, TCTN3, EVC2, NEK8, TMEM237, TMEM17, TMEM216, FAF2, TTYH3, BPIFB1, DNM1, TYW3, DNM3, TYW1B


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 LCORL_CDKAL1


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 LCORL_CDKAL1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLCORLC0005612Birth Weight1CTD_human
TgeneCDKAL1C0011860Diabetes Mellitus, Non-Insulin-Dependent3CTD_human
TgeneCDKAL1C0005910Body Weight2CTD_human
TgeneCDKAL1C0005612Birth Weight1CTD_human