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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: 25072

FusionGeneSummary for NUDCD3_LMCD1

check button Fusion gene summary
Fusion gene informationFusion gene name: NUDCD3_LMCD1
Fusion gene ID: 25072
HgeneTgene
Gene symbol

NUDCD3

LMCD1

Gene ID

23386

29995

Gene nameNudC domain containing 3LIM and cysteine rich domains 1
SynonymsNudCL-
Cytomap

7p13

3p25.3

Type of geneprotein-codingprotein-coding
DescriptionnudC domain-containing protein 3NudC-like proteinLIM and cysteine-rich domains protein 1dyxin
Modification date2018052320180523
UniProtAcc

Q8IVD9

Q9NZU5

Ensembl transtripts involved in fusion geneENST00000355451, ENST00000460110, 
ENST00000157600, ENST00000535732, 
ENST00000454244, ENST00000397386, 
Fusion gene scores* DoF score6 X 6 X 2=724 X 2 X 3=24
# samples 64
** MAII scorelog2(6/72*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/24*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: NUDCD3 [Title/Abstract] AND LMCD1 [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
ChiTaRS3.1AI078102NUDCD3chr7

44507828

-LMCD1chr3

8590385

-
* 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
intron-3CDSENST00000355451ENST00000157600NUDCD3chr7

44507828

-LMCD1chr3

8590385

-
intron-3CDSENST00000355451ENST00000535732NUDCD3chr7

44507828

-LMCD1chr3

8590385

-
intron-3CDSENST00000355451ENST00000454244NUDCD3chr7

44507828

-LMCD1chr3

8590385

-
intron-3CDSENST00000355451ENST00000397386NUDCD3chr7

44507828

-LMCD1chr3

8590385

-
intron-3CDSENST00000460110ENST00000157600NUDCD3chr7

44507828

-LMCD1chr3

8590385

-
intron-3CDSENST00000460110ENST00000535732NUDCD3chr7

44507828

-LMCD1chr3

8590385

-
intron-3CDSENST00000460110ENST00000454244NUDCD3chr7

44507828

-LMCD1chr3

8590385

-
intron-3CDSENST00000460110ENST00000397386NUDCD3chr7

44507828

-LMCD1chr3

8590385

-

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FusionProtFeatures for NUDCD3_LMCD1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
NUDCD3

Q8IVD9

LMCD1

Q9NZU5

Transcriptional cofactor that restricts GATA6 functionby inhibiting DNA-binding, resulting in repression of GATA6transcriptional activation of downstream target genes. RepressesGATA6-mediated trans activation of lung- and cardiac tissue-specific promoters. Inhibits DNA-binding by GATA4 and GATA1 to thecTNC promoter (By similarity). Plays a critical role in thedevelopment of cardiac hypertrophy via activation ofcalcineurin/nuclear factor of activated T-cells signaling pathway.{ECO:0000250, ECO:0000269|PubMed:20026769}.

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 NUDCD3_LMCD1


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 NUDCD3_LMCD1


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


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 NUDCD3_LMCD1


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 NUDCD3_LMCD1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneNUDCD3C0023903Liver neoplasms1CTD_human
TgeneLMCD1C0026266Mitral Valve Insufficiency1CTD_human
TgeneLMCD1C0026267Mitral Valve Prolapse Syndrome1CTD_human