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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: 20459

FusionGeneSummary for LYRM9_NSRP1

check button Fusion gene summary
Fusion gene informationFusion gene name: LYRM9_NSRP1
Fusion gene ID: 20459
HgeneTgene
Gene symbol

LYRM9

NSRP1

Gene ID

201229

84081

Gene nameLYR motif containing 9nuclear speckle splicing regulatory protein 1
SynonymsC17orf108|HSD24CCDC55|HSPC095|NSrp70
Cytomap

17q11.2

17q11.2

Type of geneprotein-codingprotein-coding
DescriptionLYR motif-containing protein 9UPF0631 protein C17orf108nuclear speckle splicing regulatory protein 1coiled-coil domain containing 55coiled-coil domain-containing protein 55nuclear speckle-related protein 70
Modification date2018033120180522
UniProtAcc

A8MSI8

Q9H0G5

Ensembl transtripts involved in fusion geneENST00000379103, ENST00000460380, 
ENST00000508862, ENST00000379102, 
ENST00000503642, 
ENST00000540900, 
ENST00000584423, ENST00000247026, 
ENST00000479218, 
Fusion gene scores* DoF score1 X 1 X 1=14 X 2 X 4=32
# samples 14
** MAII scorelog2(1/1*10)=3.32192809488736log2(4/32*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: LYRM9 [Title/Abstract] AND NSRP1 [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
TgeneNSRP1

GO:0000381

regulation of alternative mRNA splicing, via spliceosome

21296756


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-EW-A1OZ-01ALYRM9chr17

26209595

-NSRP1chr17

28499560

+
* 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
5CDS-3UTRENST00000379103ENST00000540900LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000379103ENST00000584423LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000379103ENST00000247026LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000379103ENST00000479218LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-3UTRENST00000460380ENST00000540900LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000460380ENST00000584423LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000460380ENST00000247026LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000460380ENST00000479218LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-3UTRENST00000508862ENST00000540900LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000508862ENST00000584423LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000508862ENST00000247026LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000508862ENST00000479218LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-3UTRENST00000379102ENST00000540900LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000379102ENST00000584423LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000379102ENST00000247026LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000379102ENST00000479218LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-3UTRENST00000503642ENST00000540900LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000503642ENST00000584423LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000503642ENST00000247026LYRM9chr17

26209595

-NSRP1chr17

28499560

+
5CDS-intronENST00000503642ENST00000479218LYRM9chr17

26209595

-NSRP1chr17

28499560

+

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FusionProtFeatures for LYRM9_NSRP1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LYRM9

A8MSI8

NSRP1

Q9H0G5

RNA-binding protein that mediates pre-mRNA alternativesplicing regulation. {ECO:0000269|PubMed:21296756}.

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 LYRM9_NSRP1


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 LYRM9_NSRP1


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
LYRM9NSRP1NEDD4L, NEDD4, JMJD6, APP, BARD1, CTNNBL1, FBXO25, CDK18, SRPK2, SRPK1, CIAO1, HIST1H3E, MYO1C, XRCC3, EMC2, CHORDC1, MMGT1


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 LYRM9_NSRP1


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 LYRM9_NSRP1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLYRM9C0149925Small cell carcinoma of lung1CTD_human