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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:LAMA2-GRIK2 (FusionGDB2 ID:43614)

Fusion Gene Summary for LAMA2-GRIK2

check button Fusion gene summary
Fusion gene informationFusion gene name: LAMA2-GRIK2
Fusion gene ID: 43614
HgeneTgene
Gene symbol

LAMA2

GRIK2

Gene ID

3908

2901

Gene namelaminin subunit alpha 2glutamate ionotropic receptor kainate type subunit 5
SynonymsLAMM|MDC1AEAA2|GRIK2|GluK5|KA2
Cytomap

6q22.33

19q13.2

Type of geneprotein-codingprotein-coding
Descriptionlaminin subunit alpha-2laminin M chainlaminin, alpha 2laminin-12 subunit alphalaminin-2 subunit alphalaminin-4 subunit alphamerosin heavy chainmutant laminin subunit alpha 2glutamate receptor ionotropic, kainate 5excitatory amino acid receptor 2glutamate receptor KA2
Modification date2020032820200313
UniProtAcc

P24043

Q13002

Ensembl transtripts involved in fusion geneENST00000421865, ENST00000498257, 
ENST00000413795, ENST00000369138, 
ENST00000421544, ENST00000358361, 
ENST00000318991, ENST00000369137, 
ENST00000369134, 
Fusion gene scores* DoF score9 X 8 X 4=28813 X 18 X 5=1170
# samples 917
** MAII scorelog2(9/288*10)=-1.67807190511264
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(17/1170*10)=-2.78290187833307
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LAMA2 [Title/Abstract] AND GRIK2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointLAMA2(129513998)-GRIK2(102124498), # samples:3
Anticipated loss of major functional domain due to fusion event.LAMA2-GRIK2 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
LAMA2-GRIK2 seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
* 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 buttonFusion gene breakpoints across LAMA2 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across GRIK2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4SARCTCGA-HB-A3YV-01ALAMA2chr6

129513998

+GRIK2chr6

102124498

+
ChimerDB4SARCTCGA-HB-A3YVLAMA2chr6

129513998

+GRIK2chr6

102124497

+
ChimerDB4SARCTCGA-X9-A971-01ALAMA2chr6

129513998

+GRIK2chr6

102124498

+
ChimerDB4SARCTCGA-HB-A3YV-01ALAMA2chr6

129513998

-GRIK2chr6

102124498

+


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Fusion Gene ORF analysis for LAMA2-GRIK2

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-shiftENST00000421865ENST00000413795LAMA2chr6

129513998

+GRIK2chr6

102124498

+
Frame-shiftENST00000421865ENST00000369138LAMA2chr6

129513998

+GRIK2chr6

102124498

+
Frame-shiftENST00000421865ENST00000421544LAMA2chr6

129513998

+GRIK2chr6

102124498

+
Frame-shiftENST00000421865ENST00000358361LAMA2chr6

129513998

+GRIK2chr6

102124498

+
Frame-shiftENST00000421865ENST00000318991LAMA2chr6

129513998

+GRIK2chr6

102124498

+
Frame-shiftENST00000421865ENST00000369137LAMA2chr6

129513998

+GRIK2chr6

102124498

+
Frame-shiftENST00000421865ENST00000369134LAMA2chr6

129513998

+GRIK2chr6

102124498

+
intron-3CDSENST00000498257ENST00000413795LAMA2chr6

129513998

+GRIK2chr6

102124498

+
intron-3CDSENST00000498257ENST00000369138LAMA2chr6

129513998

+GRIK2chr6

102124498

+
intron-3CDSENST00000498257ENST00000421544LAMA2chr6

129513998

+GRIK2chr6

102124498

+
intron-3CDSENST00000498257ENST00000358361LAMA2chr6

129513998

+GRIK2chr6

102124498

+
intron-3CDSENST00000498257ENST00000318991LAMA2chr6

129513998

+GRIK2chr6

102124498

+
intron-3CDSENST00000498257ENST00000369137LAMA2chr6

129513998

+GRIK2chr6

102124498

+
intron-3CDSENST00000498257ENST00000369134LAMA2chr6

129513998

+GRIK2chr6

102124498

+
Frame-shiftENST00000421865ENST00000413795LAMA2chr6

129513998

+GRIK2chr6

102124497

+
Frame-shiftENST00000421865ENST00000369138LAMA2chr6

129513998

+GRIK2chr6

102124497

+
Frame-shiftENST00000421865ENST00000421544LAMA2chr6

129513998

+GRIK2chr6

102124497

+
Frame-shiftENST00000421865ENST00000358361LAMA2chr6

129513998

+GRIK2chr6

102124497

+
Frame-shiftENST00000421865ENST00000318991LAMA2chr6

129513998

+GRIK2chr6

102124497

+
Frame-shiftENST00000421865ENST00000369137LAMA2chr6

129513998

+GRIK2chr6

102124497

+
Frame-shiftENST00000421865ENST00000369134LAMA2chr6

129513998

+GRIK2chr6

102124497

+
intron-3CDSENST00000498257ENST00000413795LAMA2chr6

129513998

+GRIK2chr6

102124497

+
intron-3CDSENST00000498257ENST00000369138LAMA2chr6

129513998

+GRIK2chr6

102124497

+
intron-3CDSENST00000498257ENST00000421544LAMA2chr6

129513998

+GRIK2chr6

102124497

+
intron-3CDSENST00000498257ENST00000358361LAMA2chr6

129513998

+GRIK2chr6

102124497

+
intron-3CDSENST00000498257ENST00000318991LAMA2chr6

129513998

+GRIK2chr6

102124497

+
intron-3CDSENST00000498257ENST00000369137LAMA2chr6

129513998

+GRIK2chr6

102124497

+
intron-3CDSENST00000498257ENST00000369134LAMA2chr6

129513998

+GRIK2chr6

102124497

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for LAMA2-GRIK2


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
LAMA2chr6129513998+GRIK2chr6102124497+4.74E-060.99999523
LAMA2chr6129513998+GRIK2chr6102124497+4.74E-060.99999523
LAMA2chr6129513998+GRIK2chr6102124497+4.74E-060.99999523
LAMA2chr6129513998+GRIK2chr6102124497+4.74E-060.99999523
LAMA2chr6129513998+GRIK2chr6102124497+4.74E-060.99999523
LAMA2chr6129513998+GRIK2chr6102124497+4.74E-060.99999523

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for LAMA2-GRIK2


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LAMA2

P24043

GRIK2

Q13002

FUNCTION: Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organization of cells into tissues during embryonic development by interacting with other extracellular matrix components.FUNCTION: Ionotropic glutamate receptor. L-glutamate acts as an excitatory neurotransmitter at many synapses in the central nervous system. Binding of the excitatory neurotransmitter L-glutamate induces a conformation change, leading to the opening of the cation channel, and thereby converts the chemical signal to an electrical impulse. The receptor then desensitizes rapidly and enters a transient inactive state, characterized by the presence of bound agonist (PubMed:28180184). Modulates cell surface expression of NETO2 (By similarity). {ECO:0000250|UniProtKB:P39087, ECO:0000269|PubMed:28180184}.; FUNCTION: Independent of its ionotropic glutamate receptor activity, acts as a thermoreceptor conferring sensitivity to cold temperatures (PubMed:31474366). Functions in dorsal root ganglion neurons (By similarity). {ECO:0000250|UniProtKB:P39087, ECO:0000269|PubMed:31474366}.

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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Fusion Gene Sequence for LAMA2-GRIK2


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for LAMA2-GRIK2


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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Related Drugs for LAMA2-GRIK2


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneGRIK2Q13002DB00849MethylphenobarbitalAntagonistSmall moleculeApproved
TgeneGRIK2Q13002DB00849MethylphenobarbitalAntagonistSmall moleculeApproved
TgeneGRIK2Q13002DB00237ButabarbitalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB00237ButabarbitalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB00241ButalbitalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB00241ButalbitalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB00306TalbutalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB00306TalbutalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB01351AmobarbitalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB01351AmobarbitalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB01353ButobarbitalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB01353ButobarbitalAntagonistSmall moleculeApproved|Illicit
TgeneGRIK2Q13002DB01174PhenobarbitalAntagonistSmall moleculeApproved|Investigational
TgeneGRIK2Q13002DB01174PhenobarbitalAntagonistSmall moleculeApproved|Investigational
TgeneGRIK2Q13002DB00312PentobarbitalAntagonistSmall moleculeApproved|Investigational|Vet_approved
TgeneGRIK2Q13002DB00312PentobarbitalAntagonistSmall moleculeApproved|Investigational|Vet_approved
TgeneGRIK2Q13002DB00142Glutamic acidSmall moleculeApproved|Nutraceutical
TgeneGRIK2Q13002DB00142Glutamic acidSmall moleculeApproved|Nutraceutical
TgeneGRIK2Q13002DB00418SecobarbitalAntagonistSmall moleculeApproved|Vet_approved
TgeneGRIK2Q13002DB00418SecobarbitalAntagonistSmall moleculeApproved|Vet_approved
TgeneGRIK2Q13002DB00599ThiopentalAntagonistSmall moleculeApproved|Vet_approved
TgeneGRIK2Q13002DB00599ThiopentalAntagonistSmall moleculeApproved|Vet_approved
TgeneGRIK2Q13002DB00794PrimidoneAntagonistSmall moleculeApproved|Vet_approved
TgeneGRIK2Q13002DB00794PrimidoneAntagonistSmall moleculeApproved|Vet_approved

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Related Diseases for LAMA2-GRIK2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLAMA2C1263858Muscular dystrophy congenital, merosin negative6CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
HgeneLAMA2C0026850Muscular Dystrophy2CTD_human
HgeneLAMA2C0036341Schizophrenia2CTD_human
HgeneLAMA2C4748327MUSCULAR DYSTROPHY, LIMB-GIRDLE, AUTOSOMAL RECESSIVE 232UNIPROT
HgeneLAMA2C0005684Malignant neoplasm of urinary bladder1CTD_human
HgeneLAMA2C0005695Bladder Neoplasm1CTD_human
HgeneLAMA2C0027092Myopia1CTD_human
TgeneGRIK2C0005586Bipolar Disorder3CTD_human;PSYGENET
TgeneGRIK2C0004352Autistic Disorder2CTD_human
TgeneGRIK2C0005587Depression, Bipolar1CTD_human
TgeneGRIK2C0006142Malignant neoplasm of breast1CTD_human;UNIPROT
TgeneGRIK2C0007102Malignant tumor of colon1CTD_human
TgeneGRIK2C0007131Non-Small Cell Lung Carcinoma1CTD_human
TgeneGRIK2C0009375Colonic Neoplasms1CTD_human
TgeneGRIK2C0013146Drug abuse1CTD_human
TgeneGRIK2C0013170Drug habituation1CTD_human
TgeneGRIK2C0013222Drug Use Disorders1CTD_human
TgeneGRIK2C0014859Esophageal Neoplasms1CTD_human
TgeneGRIK2C0016722Frigidity1CTD_human
TgeneGRIK2C0017636Glioblastoma1CTD_human
TgeneGRIK2C0020594Hypoactive Sexual Desire Disorder1CTD_human
TgeneGRIK2C0023903Liver neoplasms1CTD_human
TgeneGRIK2C0024232Lymphatic Metastasis1CTD_human
TgeneGRIK2C0024713Manic Disorder1CTD_human
TgeneGRIK2C0029231Organic Mental Disorders, Substance-Induced1CTD_human
TgeneGRIK2C0029261Orgasmic Disorder1CTD_human
TgeneGRIK2C0033953Psychosexual Disorders1CTD_human
TgeneGRIK2C0036341Schizophrenia1CTD_human
TgeneGRIK2C0036902Sexual Arousal Disorder1CTD_human
TgeneGRIK2C0038580Substance Dependence1CTD_human
TgeneGRIK2C0038586Substance Use Disorders1CTD_human
TgeneGRIK2C0236969Substance-Related Disorders1CTD_human
TgeneGRIK2C0334588Giant Cell Glioblastoma1CTD_human
TgeneGRIK2C0338831Manic1CTD_human
TgeneGRIK2C0345904Malignant neoplasm of liver1CTD_human
TgeneGRIK2C0525045Mood Disorders1PSYGENET
TgeneGRIK2C0546837Malignant neoplasm of esophagus1CTD_human
TgeneGRIK2C0678222Breast Carcinoma1CTD_human
TgeneGRIK2C0740858Substance abuse problem1CTD_human
TgeneGRIK2C0919267ovarian neoplasm1CTD_human
TgeneGRIK2C1140680Malignant neoplasm of ovary1CTD_human
TgeneGRIK2C1257931Mammary Neoplasms, Human1CTD_human
TgeneGRIK2C1458155Mammary Neoplasms1CTD_human
TgeneGRIK2C1510472Drug Dependence1CTD_human
TgeneGRIK2C1621958Glioblastoma Multiforme1CTD_human
TgeneGRIK2C1970198MENTAL RETARDATION, AUTOSOMAL RECESSIVE 61CTD_human;GENOMICS_ENGLAND
TgeneGRIK2C4316881Prescription Drug Abuse1CTD_human
TgeneGRIK2C4704874Mammary Carcinoma, Human1CTD_human