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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:LTA4H-LAMA2

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: LTA4H-LAMA2
FusionPDB ID: 50253
FusionGDB2.0 ID: 50253
HgeneTgene
Gene symbol

LTA4H

LAMA2

Gene ID

4048

3908

Gene nameleukotriene A4 hydrolaselaminin subunit alpha 2
Synonyms-LAMM|MDC1A
Cytomap

12q23.1

6q22.33

Type of geneprotein-codingprotein-coding
Descriptionleukotriene A-4 hydrolaseLTA-4 hydrolasetesticular secretory protein Li 27laminin subunit alpha-2laminin M chainlaminin, alpha 2laminin-12 subunit alphalaminin-2 subunit alphalaminin-4 subunit alphamerosin heavy chainmutant laminin subunit alpha 2
Modification date2020031320200328
UniProtAcc

P09960

P24043

Ensembl transtripts involved in fusion geneENST idsENST00000228740, ENST00000413268, 
ENST00000548375, ENST00000552789, 
ENST00000498257, ENST00000421865, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score9 X 11 X 4=39616 X 17 X 7=1904
# samples 1117
** MAII scorelog2(11/396*10)=-1.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(17/1904*10)=-3.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: LTA4H [Title/Abstract] AND LAMA2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)LTA4H(96429139)-LAMA2(129571257), # samples:1
Anticipated loss of major functional domain due to fusion event.LTA4H-LAMA2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
LTA4H-LAMA2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
LTA4H-LAMA2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
LTA4H-LAMA2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame 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
HgeneLTA4H

GO:0019370

leukotriene biosynthetic process

9774412|15078870

HgeneLTA4H

GO:0043171

peptide catabolic process

9774412|15078870|18804029


check buttonFusion gene breakpoints across LTA4H (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across LAMA2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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-3B-A9HS-01ALTA4Hchr12

96429139

-LAMA2chr6

129571257

+


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)
BP loci
(transcript)
Predicted start
(transcript)
Predicted stop
(transcript)
Seq length
(amino acids)
ENST00000228740LTA4Hchr1296429139-ENST00000421865LAMA2chr6129571257+811030114278872581

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
ENST00000228740ENST00000421865LTA4Hchr1296429139-LAMA2chr6129571257+0.000486210.99951375

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>50253_50253_1_LTA4H-LAMA2_LTA4H_chr12_96429139_ENST00000228740_LAMA2_chr6_129571257_ENST00000421865_length(amino acids)=2581AA_BP=53
MPEIVDTCSLASPASVCRTKHLHLRCSVDFTRRTLTGTAALTVQSQEDNLRSLLPAVGGQLTFTISYDLEEEEEDTERVLQLMIILEGND
LSISTAQDEVYLHPSEEHTNVLLLKEESFTIHGTHFPVRRKEFMTVLANLKRVLLQITYSFGMDAIFRLSSVNLESAVSYPTDGSIAAAV
EVCQCPPGYTGSSCESCWPRHRRVNGTIFGGICEPCQCFGHAESCDDVTGECLNCKDHTGGPYCDKCLPGFYGEPTKGTSEDCQPCACPL
NIPSNNFSPTCHLDRSLGLICDGCPVGYTGPRCERCAEGYFGQPSVPGGSCQPCQCNDNLDFSIPGSCDSLSGSCLICKPGTTGRYCELC
ADGYFGDAVDAKNCQPCRCNAGGSFSEVCHSQTGQCECRANVQGQRCDKCKAGTFGLQSARGCVPCNCNSFGSKSFDCEESGQCWCQPGV
TGKKCDRCAHGYFNFQEGGCTACECSHLGNNCDPKTGRCICPPNTIGEKCSKCAPNTWGHSITTGCKACNCSTVGSLDFQCNVNTGQCNC
HPKFSGAKCTECSRGHWNYPRCNLCDCFLPGTDATTCDSETKKCSCSDQTGQCTCKVNVEGIHCDRCRPGKFGLDAKNPLGCSSCYCFGT
TTQCSEAKGLIRTWVTLKAEQTILPLVDEALQHTTTKGIVFQHPEIVAHMDLMREDLHLEPFYWKLPEQFEGKKLMAYGGKLKYAIYFEA
REETGFSTYNPQVIIRGGTPTHARIIVRHMAAPLIGQLTRHEIEMTEKEWKYYGDDPRVHRTVTREDFLDILYDIHYILIKATYGNFMRQ
SRISEISMEVAEQGRGTTMTPPADLIEKCDCPLGYSGLSCEACLPGFYRLRSQPGGRTPGPTLGTCVPCQCNGHSSLCDPETSICQNCQH
HTAGDFCERCALGYYGIVKGLPNDCQQCACPLISSSNNFSPSCVAEGLDDYRCTACPRGYEGQYCERCAPGYTGSPGNPGGSCQECECDP
YGSLPVPCDPVTGFCTCRPGATGRKCDGCKHWHAREGWECVFCGDECTGLLLGDLARLEQMVMSINLTGPLPAPYKMLYGLENMTQELKH
LLSPQRAPERLIQLAEGNLNTLVTEMNELLTRATKVTADGEQTGQDAERTNTRAKSLGEFIKELARDAEAVNEKAIKLNETLGTRDEAFE
RNLEGLQKEIDQMIKELRRKNLETQKEIAEDELVAAEALLKKVKKLFGESRGENEEMEKDLREKLADYKNKVDDAWDLLREATDKIREAN
RLFAVNQKNMTALEKKKEAVESGKRQIENTLKEGNDILDEANRLADEINSIIDYVEDIQTKLPPMSEELNDKIDDLSQEIKDRKLAEKVS
QAESHAAQLNDSSAVLDGILDEAKNISFNATAAFKAYSNIKDYIDEAEKVAKEAKDLAHEATKLATGPRGLLKEDAKGCLQKSFRILNEA
KKLANDVKENEDHLNGLKTRIENADARNGDLLRTLNDTLGKLSAIPNDTAAKLQAVKDKARQANDTAKDVLAQITELHQNLDGLKKNYNK
LADSVAKTNAVVKDPSKNKIIADADATVKNLEQEADRLIDKLKPIKELEDNLKKNISEIKELINQARKQANSIKVSVSSGGDCIRTYKPE
IKKGSYNNIVVNVKTAVADNLLFYLGSAKFIDFLAIEMRKGKVSFLWDVGSGVGRVEYPDLTIDDSYWYRIVASRTGRNGTISVRALDGP
KASIVPSTHHSTSPPGYTILDVDANAMLFVGGLTGKLKKADAVRVITFTGCMGETYFDNKPIGLWNFREKEGDCKGCTVSPQVEDSEGTI
QFDGEGYALVSRPIRWYPNISTVMFKFRTFSSSALLMYLATRDLRDFMSVELTDGHIKVSYDLGSGMASVVSNQNHNDGKWKSFTLSRIQ
KQANISIVDIDTNQEENIATSSSGNNFGLDLKADDKIYFGGLPTLRNLSMKARPEVNLKKYSGCLKDIEISRTPYNILSSPDYVGVTKGC
SLENVYTVSFPKPGFVELSPVPIDVGTEINLSFSTKNESGIILLGSGGTPAPPRRKRRQTGQAYYAILLNRGRLEVHLSTGARTMRKIVI
RPEPNLFHDGREHSVHVERTRGIFTVQVDENRRYMQNLTVEQPIEVKKLFVGGAPPEFQPSPLRNIPPFEGCIWNLVINSVPMDFARPVS
FKNADIGRCAHQKLREDEDGAAPAEIVIQPEPVPTPAFPTPTPVLTHGPCAAESEPALLIGSKQFGLSRNSHIAIAFDDTKVKNRLTIEL
EVRTEAESGLLFYMARINHADFATVQLRNGLPYFSYDLGSGDTHTMIPTKINDGQWHKIKIMRSKQEGILYVDGASNRTISPKKADILDV
VGMLYVGGLPINYTTRRIGPVTYSIDGCVRNLHMAEAPADLEQPTSSFHVGTCFANAQRGTYFDGTGFAKAVGGFKVGLDLLVEFEFRTT
TTTGVLLGISSQKMDGMGIEMIDEKLMFHVDNGAGRFTAVYDAGVPGHLCDGQWHKVTANKIKHRIELTVDGNQVEAQSPNPASTSADTN

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Fusion Protein Functional Features


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr12:96429139/chr6:129571257)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LTA4H

P09960

LAMA2

P24043

FUNCTION: Bifunctional zinc metalloenzyme that comprises both epoxide hydrolase (EH) and aminopeptidase activities. Acts as an epoxide hydrolase to catalyze the conversion of LTA4 to the proinflammatory mediator leukotriene B4 (LTB4) (PubMed:11917124, PubMed:12207002, PubMed:15078870, PubMed:18804029, PubMed:1897988, PubMed:1975494, PubMed:2244921). Has also aminopeptidase activity, with high affinity for N-terminal arginines of various synthetic tripeptides (PubMed:20813919, PubMed:18804029). In addition to its proinflammatory EH activity, may also counteract inflammation by its aminopeptidase activity, which inactivates by cleavage another neutrophil attractant, the tripeptide Pro-Gly-Pro (PGP), a bioactive fragment of collagen generated by the action of matrix metalloproteinase-9 (MMP9) and prolylendopeptidase (PREPL) (PubMed:20813919, PubMed:24591641). Involved also in the biosynthesis of resolvin E1 and 18S-resolvin E1 from eicosapentaenoic acid, two lipid mediators that show potent anti-inflammatory and pro-resolving actions (PubMed:21206090). {ECO:0000269|PubMed:11917124, ECO:0000269|PubMed:12207002, ECO:0000269|PubMed:15078870, ECO:0000269|PubMed:18804029, ECO:0000269|PubMed:1897988, ECO:0000269|PubMed:1975494, ECO:0000269|PubMed:20813919, ECO:0000269|PubMed:21206090, ECO:0000269|PubMed:2244921, ECO:0000269|PubMed:24591641}.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.

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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651630_2150594.03123.0Coiled coilOntology_term=ECO:0000255
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651014_1059594.03123.0DomainLaminin EGF-like 11
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651060_1105594.03123.0DomainLaminin EGF-like 12
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651106_1165594.03123.0DomainLaminin EGF-like 13
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651166_1175594.03123.0DomainLaminin EGF-like 14%3B first part
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651176_1379594.03123.0DomainLaminin IV type A 2
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651380_1419594.03123.0DomainLaminin EGF-like 14%3B second part
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651420_1468594.03123.0DomainLaminin EGF-like 15
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651469_1526594.03123.0DomainLaminin EGF-like 16
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651527_1573594.03123.0DomainLaminin EGF-like 17
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511652145_2328594.03123.0DomainLaminin G-like 1
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511652340_2521594.03123.0DomainLaminin G-like 2
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511652526_2710594.03123.0DomainLaminin G-like 3
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511652763_2934594.03123.0DomainLaminin G-like 4
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511652939_3110594.03123.0DomainLaminin G-like 5
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165724_756594.03123.0DomainLaminin EGF-like 5%3B second part
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165757_806594.03123.0DomainLaminin EGF-like 6
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165807_864594.03123.0DomainLaminin EGF-like 7
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165865_917594.03123.0DomainLaminin EGF-like 8
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165918_966594.03123.0DomainLaminin EGF-like 9
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165967_1013594.03123.0DomainLaminin EGF-like 10
TgeneLAMA2chr12:96429139chr6:129571257ENST0000042186511651574_2144594.03123.0RegionNote=Domain II and I

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000228740-119135_13753.0612.0RegionSubstrate binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000228740-119267_27253.0612.0RegionSubstrate binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000228740-119362_36553.0612.0RegionInhibitor ARM1 binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000228740-119564_56653.0612.0RegionSubstrate binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000413268-118135_1370489.6666666666667RegionSubstrate binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000413268-118267_2720489.6666666666667RegionSubstrate binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000413268-118362_3650489.6666666666667RegionInhibitor ARM1 binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000413268-118564_5660489.6666666666667RegionSubstrate binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000552789-119135_1370588.0RegionSubstrate binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000552789-119267_2720588.0RegionSubstrate binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000552789-119362_3650588.0RegionInhibitor ARM1 binding
HgeneLTA4Hchr12:96429139chr6:129571257ENST00000552789-119564_5660588.0RegionSubstrate binding
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165287_343594.03123.0DomainLaminin EGF-like 1
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165344_413594.03123.0DomainLaminin EGF-like 2
TgeneLAMA2chr12:96429139chr6:129571257ENST00000421865116535_286594.03123.0DomainLaminin N-terminal
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165414_468594.03123.0DomainLaminin EGF-like 3
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165469_517594.03123.0DomainLaminin EGF-like 4
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165518_527594.03123.0DomainLaminin EGF-like 5%3B first part
TgeneLAMA2chr12:96429139chr6:129571257ENST000004218651165531_723594.03123.0DomainLaminin IV type A 1


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
LTA4H
LAMA2


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to LTA4H-LAMA2


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to LTA4H-LAMA2


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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