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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: 1559

FusionGeneSummary for ALK_MSN

check button Fusion gene summary
Fusion gene informationFusion gene name: ALK_MSN
Fusion gene ID: 1559
HgeneTgene
Gene symbol

ALK

MSN

Gene ID

238

4478

Gene nameALK receptor tyrosine kinasemoesin
SynonymsCD246|NBLST3HEL70|IMD50
Cytomap

2p23.2-p23.1

Xq12

Type of geneprotein-codingprotein-coding
DescriptionALK tyrosine kinase receptorCD246 antigenanaplastic lymphoma receptor tyrosine kinasemutant anaplastic lymphoma kinasemoesinepididymis luminal protein 70membrane-organizing extension spike protein
Modification date2018052720180527
UniProtAcc

Q9UM73

P26038

Ensembl transtripts involved in fusion geneENST00000389048, ENST00000431873, 
ENST00000498037, 
ENST00000609205, 
ENST00000360270, 
Fusion gene scores* DoF score6 X 6 X 3=1086 X 6 X 2=72
# samples 67
** MAII scorelog2(6/108*10)=-0.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(7/72*10)=-0.0406419844973459
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ALK [Title/Abstract] AND MSN [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
HgeneALK

GO:0016310

phosphorylation

9174053

HgeneALK

GO:0046777

protein autophosphorylation

9174053

TgeneMSN

GO:0001771

immunological synapse formation

27405666

TgeneMSN

GO:0042098

T cell proliferation

27405666

TgeneMSN

GO:0070489

T cell aggregation

27405666

TgeneMSN

GO:0071394

cellular response to testosterone stimulus

24065547

TgeneMSN

GO:0072678

T cell migration

27405666


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
ChiTaRS3.1AF295079ALKchr2

29446408

-MSNchrX

64958868

+
* 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-intronENST00000389048ENST00000609205ALKchr2

29446408

-MSNchrX

64958868

+
intron-intronENST00000389048ENST00000360270ALKchr2

29446408

-MSNchrX

64958868

+
intron-intronENST00000431873ENST00000609205ALKchr2

29446408

-MSNchrX

64958868

+
intron-intronENST00000431873ENST00000360270ALKchr2

29446408

-MSNchrX

64958868

+
intron-intronENST00000498037ENST00000609205ALKchr2

29446408

-MSNchrX

64958868

+
intron-intronENST00000498037ENST00000360270ALKchr2

29446408

-MSNchrX

64958868

+

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FusionProtFeatures for ALK_MSN


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

Q9UM73

MSN

P26038

Neuronal receptor tyrosine kinase that is essentiallyand transiently expressed in specific regions of the central andperipheral nervous systems and plays an important role in thegenesis and differentiation of the nervous system. Transducessignals from ligands at the cell surface, through specificactivation of the mitogen-activated protein kinase (MAPK) pathway.Phosphorylates almost exclusively at the first tyrosine of the Y-x-x-x-Y-Y motif. Following activation by ligand, ALK inducestyrosine phosphorylation of CBL, FRS2, IRS1 and SHC1, as well asof the MAP kinases MAPK1/ERK2 and MAPK3/ERK1. Acts as a receptorfor ligands pleiotrophin (PTN), a secreted growth factor, andmidkine (MDK), a PTN-related factor, thus participating in PTN andMDK signal transduction. PTN-binding induces MAPK pathwayactivation, which is important for the anti-apoptotic signaling ofPTN and regulation of cell proliferation. MDK-binding inducesphosphorylation of the ALK target insulin receptor substrate(IRS1), activates mitogen-activated protein kinases (MAPKs) andPI3-kinase, resulting also in cell proliferation induction. DrivesNF-kappa-B activation, probably through IRS1 and the activation ofthe AKT serine/threonine kinase. Recruitment of IRS1 to activatedALK and the activation of NF-kappa-B are essential for theautocrine growth and survival signaling of MDK.{ECO:0000269|PubMed:11121404, ECO:0000269|PubMed:11278720,ECO:0000269|PubMed:11387242, ECO:0000269|PubMed:11809760,ECO:0000269|PubMed:12107166, ECO:0000269|PubMed:12122009,ECO:0000269|PubMed:15226403, ECO:0000269|PubMed:15908427,ECO:0000269|PubMed:16317043, ECO:0000269|PubMed:16878150,ECO:0000269|PubMed:17274988}. Probably involved in connections of major cytoskeletalstructures to the plasma membrane. May inhibit herpes simplexvirus 1 infection at an early stage. Plays a role in regulatingthe proliferation, migration, and adhesion of human lymphoid cellsand participates in immunologic synapse formation(PubMed:27405666). {ECO:0000269|PubMed:21549406,ECO:0000269|PubMed:27405666}.

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 ALK_MSN


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 ALK_MSN


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 ALK_MSN


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneALKQ9UM73DB08865CrizotinibALK tyrosine kinase receptorsmall moleculeapproved
HgeneALKQ9UM73DB09063CeritinibALK tyrosine kinase receptorsmall moleculeapproved

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RelatedDiseases for ALK_MSN


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneALKC0007131Non-Small Cell Lung Carcinoma28CTD_human
HgeneALKC0027819Neuroblastoma12CTD_human;ORPHANET
HgeneALKC0152013Adenocarcinoma of lung (disorder)8CTD_human
HgeneALKC0206180Ki-1+ Anaplastic Large Cell Lymphoma6CTD_human
HgeneALKC2751681NEUROBLASTOMA, SUSCEPTIBILITY TO, 34UNIPROT
HgeneALKC0018199Granuloma, Plasma Cell3CTD_human
HgeneALKC0007621Neoplastic Cell Transformation2CTD_human
HgeneALKC0027627Neoplasm Metastasis2CTD_human
HgeneALKC0001973Alcoholic Intoxication, Chronic1PSYGENET
HgeneALKC0006118Brain Neoplasms1CTD_human
HgeneALKC0007134Renal Cell Carcinoma1CTD_human
HgeneALKC0011570Mental Depression1PSYGENET
HgeneALKC0011581Depressive disorder1PSYGENET
HgeneALKC0027643Neoplasm Recurrence, Local1CTD_human
HgeneALKC0036341Schizophrenia1PSYGENET
HgeneALKC0079744Diffuse Large B-Cell Lymphoma1CTD_human
HgeneALKC0085269Plasma Cell Granuloma, Pulmonary1CTD_human
HgeneALKC0278601Inflammatory Breast Carcinoma1CTD_human
TgeneMSNC0023893Liver Cirrhosis, Experimental1CTD_human
TgeneMSNC0029408Degenerative polyarthritis1CTD_human
TgeneMSNC0151744Myocardial Ischemia1CTD_human
TgeneMSNC3495559Juvenile arthritis1CTD_human