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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: 19581

FusionGeneSummary for LDLRAD4_NOVA1

check button Fusion gene summary
Fusion gene informationFusion gene name: LDLRAD4_NOVA1
Fusion gene ID: 19581
HgeneTgene
Gene symbol

LDLRAD4

NOVA1

Gene ID

753

4857

Gene namelow density lipoprotein receptor class A domain containing 4NOVA alternative splicing regulator 1
SynonymsC18orf1Nova-1
Cytomap

18p11.21

14q12

Type of geneprotein-codingprotein-coding
Descriptionlow-density lipoprotein receptor class A domain-containing protein 4clone 22RNA-binding protein Nova-1neuro-oncological ventral antigen 1onconeural ventral antigen 1paraneoplastic Ri antigenventral neuron-specific protein 1
Modification date2018051920180519
UniProtAcc

O15165

P51513

Ensembl transtripts involved in fusion geneENST00000361205, ENST00000399848, 
ENST00000359446, ENST00000587757, 
ENST00000585931, ENST00000586765, 
ENST00000590308, ENST00000592991, 
ENST00000465357, ENST00000539517, 
ENST00000267422, ENST00000344429, 
ENST00000547619, ENST00000574031, 
ENST00000551754, 
Fusion gene scores* DoF score7 X 7 X 3=1474 X 3 X 3=36
# samples 94
** MAII scorelog2(9/147*10)=-0.70781924850669
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: LDLRAD4 [Title/Abstract] AND NOVA1 [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
HgeneLDLRAD4

GO:0010991

negative regulation of SMAD protein complex assembly

24627487


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
TCGALDPRADTCGA-YL-A8HM-01ALDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
* 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-3CDSENST00000361205ENST00000465357LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-3CDSENST00000361205ENST00000539517LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000361205ENST00000267422LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000361205ENST00000344429LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000361205ENST00000547619LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000361205ENST00000574031LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-intronENST00000361205ENST00000551754LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-3CDSENST00000399848ENST00000465357LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-3CDSENST00000399848ENST00000539517LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000399848ENST00000267422LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000399848ENST00000344429LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000399848ENST00000547619LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000399848ENST00000574031LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-intronENST00000399848ENST00000551754LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-3CDSENST00000359446ENST00000465357LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-3CDSENST00000359446ENST00000539517LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000359446ENST00000267422LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000359446ENST00000344429LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000359446ENST00000547619LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-5UTRENST00000359446ENST00000574031LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
5UTR-intronENST00000359446ENST00000551754LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000587757ENST00000465357LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000587757ENST00000539517LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000587757ENST00000267422LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000587757ENST00000344429LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000587757ENST00000547619LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000587757ENST00000574031LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-intronENST00000587757ENST00000551754LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000585931ENST00000465357LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000585931ENST00000539517LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000585931ENST00000267422LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000585931ENST00000344429LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000585931ENST00000547619LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000585931ENST00000574031LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-intronENST00000585931ENST00000551754LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000586765ENST00000465357LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000586765ENST00000539517LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000586765ENST00000267422LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000586765ENST00000344429LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000586765ENST00000547619LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000586765ENST00000574031LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-intronENST00000586765ENST00000551754LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000590308ENST00000465357LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000590308ENST00000539517LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000590308ENST00000267422LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000590308ENST00000344429LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000590308ENST00000547619LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000590308ENST00000574031LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-intronENST00000590308ENST00000551754LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000592991ENST00000465357LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-3CDSENST00000592991ENST00000539517LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000592991ENST00000267422LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000592991ENST00000344429LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000592991ENST00000547619LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-5UTRENST00000592991ENST00000574031LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-
intron-intronENST00000592991ENST00000551754LDLRAD4chr18

13278187

+NOVA1chr14

26949349

-

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FusionProtFeatures for LDLRAD4_NOVA1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LDLRAD4

O15165

NOVA1

P51513

May regulate RNA splicing or metabolism in a specificsubset of developing neurons.

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 LDLRAD4_NOVA1


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 LDLRAD4_NOVA1


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
LDLRAD4RTFDC1, HECW2, HECW1, WWP2, NEDD4, ITCH, NEDD4L, WWP1, TAX1BP1, WWC2, KIDINS220, NCAPD3, UBR3, ARFGEF2, UBR1, VPS18, STXBP4, ACVR2B, ACVR2A, EPN1, MAGI3, DPY19L1, ANKRD13D, ANKRD13A, TOMM40, NCAPH2, DHX38, CMTR1, SMURF1, SMURF2, PLCG1, FLCN, RNF31, CSNK1E, CSNK1D, MAGI1, FGFR1, USP33, CALCOCO2, YAP1, SUFU, SMAD2, SMAD3, RBCK1, CUEDC1, WWOX, UIMC1, USP22, KIAA1033NOVA1RPP14, PCBP1, APP, SRPK1, COQ3, FOXB1, FOXE1, FOXL1, FOXP3, NOVA2


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 LDLRAD4_NOVA1


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 LDLRAD4_NOVA1


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