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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: 20201

FusionGeneSummary for LRRC16A_CTSW

check button Fusion gene summary
Fusion gene informationFusion gene name: LRRC16A_CTSW
Fusion gene ID: 20201
HgeneTgene
Gene symbol

LRRC16A

CTSW

Gene ID

55604

1521

Gene namecapping protein regulator and myosin 1 linker 1cathepsin W
SynonymsCARMIL|CARMIL1a|LRRC16|LRRC16A|dJ501N12.1|dJ501N12.5LYPN
Cytomap

6p22.2

11q13.1

Type of geneprotein-codingprotein-coding
DescriptionF-actin-uncapping protein LRRC16ACARMIL homologcapping protein regulator and myosin 1 linker protein 1capping protein, Arp2/3 and myosin-I linker homolog 1capping protein, Arp2/3 and myosin-I linker protein 1capping protein, Arp2/3, and Myosin-I Linkcathepsin Wlymphopain
Modification date2018051920180523
UniProtAcc

P56202

Ensembl transtripts involved in fusion geneENST00000329474, ENST00000377969, 
ENST00000476458, 
ENST00000307886, 
ENST00000528419, 
Fusion gene scores* DoF score5 X 4 X 5=1001 X 1 X 1=1
# samples 51
** MAII scorelog2(5/100*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(1/1*10)=3.32192809488736
Context

PubMed: LRRC16A [Title/Abstract] AND CTSW [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
HgeneLRRC16A

GO:0030335

positive regulation of cell migration

19846667

HgeneLRRC16A

GO:0044351

macropinocytosis

19846667

HgeneLRRC16A

GO:0051639

actin filament network formation

19846667

HgeneLRRC16A

GO:1902745

positive regulation of lamellipodium organization

16054028


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-K4-A3WV-01ALRRC16Achr6

25581667

+CTSWchr11

65648878

+
* 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-shiftENST00000329474ENST00000307886LRRC16Achr6

25581667

+CTSWchr11

65648878

+
Frame-shiftENST00000329474ENST00000528419LRRC16Achr6

25581667

+CTSWchr11

65648878

+
intron-3CDSENST00000377969ENST00000307886LRRC16Achr6

25581667

+CTSWchr11

65648878

+
intron-3CDSENST00000377969ENST00000528419LRRC16Achr6

25581667

+CTSWchr11

65648878

+
intron-3CDSENST00000476458ENST00000307886LRRC16Achr6

25581667

+CTSWchr11

65648878

+
intron-3CDSENST00000476458ENST00000528419LRRC16Achr6

25581667

+CTSWchr11

65648878

+

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FusionProtFeatures for LRRC16A_CTSW


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LRRC16A

CTSW

P56202

Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}. May have a specific function in the mechanism orregulation of T-cell cytolytic activity.

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 LRRC16A_CTSW


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 LRRC16A_CTSW


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
LRRC16ASH3KBP1, SLAIN2, KLC4, RPP30, CAPZA2, PAK4, CAPZB, FGFR1OP, HUWE1, GAN, CDH1, PAK7, ZPLD1, PIANP, HSF1CTSWCREB3


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 LRRC16A_CTSW


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 LRRC16A_CTSW


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