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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: 43309

FusionGeneSummary for ZNF429_LSM14A

check button Fusion gene summary
Fusion gene informationFusion gene name: ZNF429_LSM14A
Fusion gene ID: 43309
HgeneTgene
Gene symbol

ZNF429

LSM14A

Gene ID

353088

26065

Gene namezinc finger protein 429LSM14A, mRNA processing body assembly factor
Synonyms-C19orf13|FAM61A|RAP55|RAP55A
Cytomap

19p12

19q13.11

Type of geneprotein-codingprotein-coding
Descriptionzinc finger protein 429protein LSM14 homolog ALSM14 homolog ALSM14A, SCD6 homolog ARNA-associated protein 55RNA-associated protein 55AalphaSNBPfamily with sequence similarity 61, member AhRAP55hRAP55Aprotein SCD6 homologputative alpha-synuclein-binding protein
Modification date2018052220180519
UniProtAcc

Q86V71

Q8ND56

Ensembl transtripts involved in fusion geneENST00000594022, ENST00000358491, 
ENST00000597078, 
ENST00000540746, 
ENST00000544216, ENST00000433627, 
Fusion gene scores* DoF score3 X 3 X 3=278 X 7 X 6=336
# samples 38
** MAII scorelog2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(8/336*10)=-2.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ZNF429 [Title/Abstract] AND LSM14A [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
TgeneLSM14A

GO:0033962

cytoplasmic mRNA processing body assembly

16484376


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
TCGARVUCECTCGA-B5-A5OE-01AZNF429chr19

21688576

+LSM14Achr19

34717313

+
TCGALDUCECTCGA-B5-A5OE-01AZNF429chr19

21688576

+LSM14Achr19

34718270

+
* 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-3CDSENST00000594022ENST00000540746ZNF429chr19

21688576

+LSM14Achr19

34717313

+
intron-intronENST00000594022ENST00000544216ZNF429chr19

21688576

+LSM14Achr19

34717313

+
intron-intronENST00000594022ENST00000433627ZNF429chr19

21688576

+LSM14Achr19

34717313

+
In-frameENST00000358491ENST00000540746ZNF429chr19

21688576

+LSM14Achr19

34717313

+
5CDS-intronENST00000358491ENST00000544216ZNF429chr19

21688576

+LSM14Achr19

34717313

+
5CDS-intronENST00000358491ENST00000433627ZNF429chr19

21688576

+LSM14Achr19

34717313

+
In-frameENST00000597078ENST00000540746ZNF429chr19

21688576

+LSM14Achr19

34717313

+
5CDS-intronENST00000597078ENST00000544216ZNF429chr19

21688576

+LSM14Achr19

34717313

+
5CDS-intronENST00000597078ENST00000433627ZNF429chr19

21688576

+LSM14Achr19

34717313

+
intron-3UTRENST00000594022ENST00000540746ZNF429chr19

21688576

+LSM14Achr19

34718270

+
intron-3UTRENST00000594022ENST00000544216ZNF429chr19

21688576

+LSM14Achr19

34718270

+
intron-3UTRENST00000594022ENST00000433627ZNF429chr19

21688576

+LSM14Achr19

34718270

+
5CDS-3UTRENST00000358491ENST00000540746ZNF429chr19

21688576

+LSM14Achr19

34718270

+
5CDS-3UTRENST00000358491ENST00000544216ZNF429chr19

21688576

+LSM14Achr19

34718270

+
5CDS-3UTRENST00000358491ENST00000433627ZNF429chr19

21688576

+LSM14Achr19

34718270

+
5CDS-3UTRENST00000597078ENST00000540746ZNF429chr19

21688576

+LSM14Achr19

34718270

+
5CDS-3UTRENST00000597078ENST00000544216ZNF429chr19

21688576

+LSM14Achr19

34718270

+
5CDS-3UTRENST00000597078ENST00000433627ZNF429chr19

21688576

+LSM14Achr19

34718270

+

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FusionProtFeatures for ZNF429_LSM14A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
ZNF429

Q86V71

LSM14A

Q8ND56

May be involved in transcriptional regulation. Essential for formation of P-bodies, cytoplasmicstructures that provide storage sites for non-translating mRNAs.{ECO:0000269|PubMed:16484376, ECO:0000269|PubMed:17074753}.

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 ZNF429_LSM14A


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_ZNF429_ENST00000358491_chr19_21688576_+_LSM14A_ENST00000540746_chr19_34717313_+_9aa

>In-frame_ZNF429_ENST00000597078_chr19_21688576_+_LSM14A_ENST00000540746_chr19_34717313_+_9aa


* Fusion transcript sequences (only coding sequence (CDS) region).
>In-frame_ZNF429_ENST00000358491_chr19_21688576_+_LSM14A_ENST00000540746_chr19_34717313_+_27nt

>In-frame_ZNF429_ENST00000597078_chr19_21688576_+_LSM14A_ENST00000540746_chr19_34717313_+_27nt


* Fusion transcript sequences (Full-length transcript).
>In-frame_ZNF429_ENST00000358491_chr19_21688576_+_LSM14A_ENST00000540746_chr19_34717313_+_1000nt
AAACATTATCCAATCAGGCACGCAGCTGGAGCGACAGGACGGTTTCCGGAATATGGCGGGGCGTTTGGCTCTTGCTGCAGCCAGAGCTCC
AGGTCTCGTCTTCATTTCTGTGTCCTTTGTTCTTAGAGGCCCAGCCTGTGTGGCCCTGTGACCCGCAGATATTGGGAGATACACAGCTAA
GACTCCAGGACCCCCTGGAAGCCTAGAAATGAAAACCACAGCTTTTGGACCCTAAAAGGTCTGGATTGATCGTACTGCTTTCTGAAAGAA
AGACAACAAAGTTGCTGCATAGTCTACAAACAAGTCTCTGAAAATAGGTGAATTTCTAGCTCTTCATGGTCCTGAACATTGATTTCAGTC
TTTGCAAAGAATGAAGAAGTGAATTCGCTGTACATTTGTCACCAGCACTGGGTTTTTGTTTTTTGTTTGTTTTTCCGCTTAATTTCAAAG
ATAAAATGCAGTTACTTTTGGGGGTGGAAGGCTCATCTTAAAACATGAGCATTAAATATATTTGGAATAGCAGAAGGTTAAGTAATTTCT
TATGTATAGTTAAACTAAAGCAGTACTTCAGTGGGACTTAACAAGTATTTTTTCATCACTGAAAGGTTTTTTTTTTTTATCACTAAATTG
TATTTGGCAATTGCAAGTTGCCTGCAGATAGGGCCGTGATACTGTGTTTTGAGCCACAGAAGGTTGTGTGTGTGTGTGTGTGTGTGTGTG
TGTGTGTGTGTGTATGTGTGTGTCTTTTTCCTCCTTTCTTTTGGGGAATCCTGTAATATGAGGTAGCTTATTTCGTCAATTAATTAGGGT
GCTGGATGGTAGAGAATTTTGTCAGTCAACTATGTACACACAGTAAATACTGTTTCTTAGGCAAAGGTAACTTTTTTATATAGTTGTAAA
ATTCCATTATATTCCATTGCCAAAGAAACATTAAGAACTTTGTATAGCTGTATAAAAAGCAACTAATTTTTTAAAGAATAAACATTTTAA

>In-frame_ZNF429_ENST00000597078_chr19_21688576_+_LSM14A_ENST00000540746_chr19_34717313_+_960nt
GGTTTCCGGAATATGGCGGGGCGTTTGGCTCTTGCTGCAGCCAGAGCTCCAGGTCTCGTCTTCATTTCTGTGTCCTTTGTTCTTAGAGGC
CCAGCCTGTGTGGCCCTGTGACCCGCAGATATTGGGAGATACACAGCTAAGACTCCAGGACCCCCTGGAAGCCTAGAAATGAAAACCACA
GCTTTTGGACCCTAAAAGGTCTGGATTGATCGTACTGCTTTCTGAAAGAAAGACAACAAAGTTGCTGCATAGTCTACAAACAAGTCTCTG
AAAATAGGTGAATTTCTAGCTCTTCATGGTCCTGAACATTGATTTCAGTCTTTGCAAAGAATGAAGAAGTGAATTCGCTGTACATTTGTC
ACCAGCACTGGGTTTTTGTTTTTTGTTTGTTTTTCCGCTTAATTTCAAAGATAAAATGCAGTTACTTTTGGGGGTGGAAGGCTCATCTTA
AAACATGAGCATTAAATATATTTGGAATAGCAGAAGGTTAAGTAATTTCTTATGTATAGTTAAACTAAAGCAGTACTTCAGTGGGACTTA
ACAAGTATTTTTTCATCACTGAAAGGTTTTTTTTTTTTATCACTAAATTGTATTTGGCAATTGCAAGTTGCCTGCAGATAGGGCCGTGAT
ACTGTGTTTTGAGCCACAGAAGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTCTTTTTCCTCCTTTCTT
TTGGGGAATCCTGTAATATGAGGTAGCTTATTTCGTCAATTAATTAGGGTGCTGGATGGTAGAGAATTTTGTCAGTCAACTATGTACACA
CAGTAAATACTGTTTCTTAGGCAAAGGTAACTTTTTTATATAGTTGTAAAATTCCATTATATTCCATTGCCAAAGAAACATTAAGAACTT


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FusionGenePPI for ZNF429_LSM14A


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
ZNF429LSM14AELAVL1, RAE1, HNRNPDL, SYNCRIP, CIRBP, HNRNPH1, DDX1, HNRNPU, HNRNPL, CSNK2A1, HECW2, TP53, PRMT8, NTRK1, XPO1, AHSA1, SORT1, EGFR, SFPQ, STRAP, G3BP1


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 ZNF429_LSM14A


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 ZNF429_LSM14A


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