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Fusion gene ID: 19901 |
FusionGeneSummary for LMNA_PTN |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: LMNA_PTN | Fusion gene ID: 19901 | Hgene | Tgene | Gene symbol | LMNA | PTN | Gene ID | 4000 | 5764 |
| Gene name | lamin A/C | pleiotrophin | |
| Synonyms | CDCD1|CDDC|CMD1A|CMT2B1|EMD2|FPL|FPLD|FPLD2|HGPS|IDC|LDP1|LFP|LGMD1B|LMN1|LMNC|LMNL1|MADA|PRO1 | HARP|HB-GAM|HBBM|HBGF-8|HBGF8|HBNF|HBNF-1|NEGF1|OSF-1 | |
| Cytomap | 1q22 | 7q33 | |
| Type of gene | protein-coding | protein-coding | |
| Description | lamin70 kDa laminlamin A/C-like 1mandibuloacral dysplasia type Aprelamin-A/Crenal carcinoma antigen NY-REN-32 | pleiotrophinheparin affin regulatory proteinheparin-binding brain mitogenheparin-binding growth factor 8heparin-binding growth-associated moleculeheparin-binding neurite outgrowth promoting factorheparin-binding neurite outgrowth-promoting factor 1 | |
| Modification date | 20180523 | 20180523 | |
| UniProtAcc | P02545 | P21246 | |
| Ensembl transtripts involved in fusion gene | ENST00000368301, ENST00000361308, ENST00000347559, ENST00000368300, ENST00000368299, ENST00000448611, ENST00000368297, ENST00000473598, ENST00000392353, ENST00000496738, | ENST00000348225, ENST00000393083, | |
| Fusion gene scores | * DoF score | 11 X 12 X 6=792 | 6 X 2 X 5=60 |
| # samples | 14 | 6 | |
| ** MAII score | log2(14/792*10)=-2.50007360313464 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(6/60*10)=0 | |
| Context | PubMed: LMNA [Title/Abstract] AND PTN [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) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | LMNA | GO:0090343 | positive regulation of cell aging | 20458013 |
| Tgene | PTN | GO:0008284 | positive regulation of cell proliferation | 1733956 |
| 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 type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | RV | BRCA | TCGA-A2-A3XU-01A | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| 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. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| Frame-shit | ENST00000368301 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| Frame-shit | ENST00000368301 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| Frame-shit | ENST00000361308 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| Frame-shit | ENST00000361308 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000347559 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000347559 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000368300 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000368300 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000368299 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000368299 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000448611 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000448611 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| Frame-shit | ENST00000368297 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| Frame-shit | ENST00000368297 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000473598 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| intron-3CDS | ENST00000473598 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| Frame-shit | ENST00000392353 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| Frame-shit | ENST00000392353 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| 3UTR-3CDS | ENST00000496738 | ENST00000348225 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
| 3UTR-3CDS | ENST00000496738 | ENST00000393083 | LMNA | chr1 | 156107656 | + | PTN | chr7 | 136938384 | - |
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FusionProtFeatures for LMNA_PTN |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| LMNA | PTN |
| Secreted growth factor that induces neurite outgrowthand which is mitogenic for fibroblasts, epithelial, andendothelial cells (PubMed:1768439, PubMed:1733956). Bindsanaplastic lymphoma kinase (ALK) which induces MAPK pathwayactivation, an important step in the anti-apoptotic signaling ofPTN and regulation of cell proliferation (PubMed:11278720). Bindsto cell-surface target proteins via their chondroitin sulfategroups (PubMed:26896299). Down-regulates PTPRZ1 activity(PubMed:16814777). {ECO:0000269|PubMed:11278720,ECO:0000269|PubMed:16814777, ECO:0000269|PubMed:1768439,ECO:0000269|PubMed:26896299}. |
| Retention 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 . * 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. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for LMNA_PTN |
| 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 LMNA_PTN |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| LMNA | LMNB1, SREBF1, NARF, EMD, KAT5, TMPO, ZNF239, SYNE1, RB1, ALOX12, PRKCA, TOR1A, TOR1AIP1, FYCO1, BANF1, RBBP4, ING1, CTNNB1, SRRM1, SRRM2, MORF4L1, MORF4L2, MRGBP, H2AFX, MYC, UCHL5, YWHAQ, MME, CTCF, SVIL, PRKDC, STAC, SIRT7, ISG15, PPP1CC, CDK2, PCBP1, EGF, LMNA, UBE2I, PCGF2, MRPS26, FLNA, UNC13D, SF3B3, WDR18, HNRNPM, SLC25A6, PMS2, SLC25A5, NONO, GZMB, GZMA, VCP, MLIP, FN1, VCAM1, CDH1, ITGA4, URB2, PHB, LEMD3, FAM169A, LBR, TMEM201, NUMA1, ANLN, LMNB2, NUP153, NUP50, AHCTF1, POM121, TPR, NUP98, NUP155, RANBP2, NUP133, RANGAP1, MCM3AP, NUP214, HIST1H4G, SAP30BP, SCML2, HP1BP3, ZBTB33, TOX4, TRIM28, FHL1, NELFE, ZNF280C, H2AFY, GTF2A1, BAZ1B, ORC2, GTF2F2, CHD8, SUPT5H, RUVBL1, SMARCA5, PML, TOP2A, MTDH, THRAP3, CXorf56, TAGLN2, TMEM230, ARPIN, C9orf78, PDAP1, CCDC47, DNAJC1, WDR70, RNF113A, YKT6, VRK2, CISD2, CTTN, LRRC59, CD2AP, EIF5, PCMT1, SRPRB, ACE, ALDH3A2, PDLIM3, FASN, CDKAL1, HNRNPA1, DDX46, HNRNPA0, DDX42, SUGP1, HNRNPA2B1, PAPOLA, RBM10, FUS, GPATCH1, SF1, U2SURP, DGCR14, HNRNPR, TFIP11, DDX3X, PPM1G, CPSF6, PDCD5, PCNP, TPX2, WWOX, MKI67, MASTL, HCFC1, CRK, SDCBP, PGRMC2, CRKL, HN1L, GPKOW, FAM192A, NPLOC4, PARP1, MRE11A, MDC1, XRCC6, RIF1, BRIP1, TIPRL, UBE2M, SENP1, USP15, SENP6, NCL, GNL2, CDK16, FBXO6, PARK2, KCTD12, KIAA0196, KPNA6, EEF1D, GMPPB, PSMD10, ZW10, ROCK2, TP53, RAPGEF2, DUSP13, KRTAP10-7, KRTAP10-3, ENO1, SHMT2, MOV10, NXF1, C17orf49, CUL7, OBSL1, CCDC8, EED, SIRT6, ILK, IRAK1, LIMK2, MAST3, ABCE1, USP7, DYNLT1, RPA1, NTRK1, SCARNA22, ANKRA2, RFXANK, STX5, HERC2, SRPK2, CLK1, CC2D2A, HIST1H3E, PPME1, MCM2, MCM5, SNW1, CDC5L, SMURF1, BMI1, CA5A, EGFR, SUN2, CYLD, SPTA1, EIF2AK2, DLST, PDHA1, SDHA, SOD1, TRIM25, G3BP1, ANXA6, APOA2, APOD, AQP1, AQP3, ASGR1, ATP6V0C, BCL2L2, BNIP2, BNIP3, BNIP3L, BYSL, C5, CACNG1, CCNG1, MS4A1, SCARB2, ENTPD3, CD72, CD81, CD52, CETN3, CLCN7, COL8A2, CRY2, CYB561, F2RL1, FCER1A, FCER1G, FDFT1, GALNT2, GJB2, GJB5, GPR25, GRM2, HCK, HMOX1, HMOX2, IFIT2, IGFBP5, ITGAM, KCNK1, KPNA1, KPNA3, KPNA4, KRT6A, LAMB1, LCP2, SMAD1, MAL, MEOX1, MFAP1, MGST3, MIP, MUTYH, NAB2, NEU1, NINJ2, NKG7, SERPINE1, PCNA, PIK3R2, PKD2, FXYD3, PLP1, PLP2, PMP22, PNLIPRP1, CTSA, PRNP, PTPN9, RHAG, RTN1, SFTPC, SIAH1, SLC1A1, SLC2A5, SLC7A1, SLN, SPN, STX3, STX4, VAMP1, VAMP2, SYPL1, TAP1, TCEA2, TCEB3, TDO2, TFRC, THBD, TSPAN7, TNF, UPK1B, ZNF3, ZNF69, ZNF138, TRIM26, SLC30A2, SLC30A3, MALL, STX7, CHST1, AOC3, EIF3G, VAMP4, TNFSF12, CDS2, TNFRSF10C, TMEM11, NAT8, PIAS2, CLDN10, USP2, SYNGR1, PTPLA, ZMYM6, VAMP3, ITM2B, STX8, CXCL14, SEC22B, GOSR2, ZSCAN12, RANBP9, TSPAN2, LINC01587, ALG3, STX6, RTN3, ABCA9, BTN2A2, WFDC2, FAM3C, CREB3, VTI1B, SLC35A1, RABAC1, SLU7, SLMO1, VAMP5, MTHFD2, FAXDC2, USP20, STARD3, MAPRE2, CYB561D2, C14orf1, PNKP, ACOT7, MGLL, CLCA4, SACM1L, ARL6IP1, LEPROTL1, LPAR3, STX12, APOL2, IFFO1, UNC50, LRP10, OSTF1, SEC22A, FETUB, LAT, SERP1, ARHGEF16, TMEM14A, TMEM208, EMR2, CLEC4A, DERL2, GOLT1B, PLLP, SBDS, INSIG2, CLEC1A, SPG21, AIG1, SCARA3, TMEM14C, FXYD6, C11orf24, SMIM11, YIPF1, GIN1, PAQR5, CLN6, PARPBP, TMEM51, WDYHV1, FAIM, SLC38A7, TMEM140, CSGALNACT2, DDX43, UBE2Q1, LIMS2, USE1, DBNDD2, UNC45A, TMEM234, RPRM, TMPRSS4, TRIM39, KCNK13, GPR108, DUS3L, SMCO4, DDX24, AGTRAP, RTN4, NIPAL3, ZNF490, CXCL16, SELK, SENP2, TNMD, EDDM3B, LMBR1, RGS18, C5orf28, SPANXD, SPANXC, C16orf58, SLC13A3, VKORC1, ALG8, TMEM109, DERL1, FA2H, TMEM243, TMEM43, C17orf62, C3orf52, ZC2HC1C, TM4SF20, CYBRD1, GOLGA2P10, ADAM33, TSGA10, CYB5B, CFHR5, VMP1, TMEM14B, MARVELD1, TMEM222, SLC41A2, FAM161A, DNAJC30, TMEM107, JAGN1, PERM1, GPR128, SLC35B4, MFSD5, COX14, TMEM128, TMEM60, AQP10, FATE1, CCDC120, TMEM41A, ZNF439, MYADM, REEP6, SYCE1, ORMDL1, ORMDL3, TMEM203, CMTM7, KIF12, TMEM54, SLC35A4, OSBPL8, C1QTNF1, CMTM5, CMTM3, CLDND2, ZNF440, IZUMO2, C20orf141, TMEM42, TRAM1L1, DEFB127, UBQLNL, CWF19L2, TMEM86A, TMEM120B, TMEM199, CCDC155, ZNF569, SYT6, CNIH3, RMDN2, SH3RF2, TMEM65, TMEM74, ZDHHC15, SGMS2, SLC30A8, TCEANC, FAM9B, PPAPDC1A, OSTCP1, TSNARE1, AQPEP, ZNF25, TMEM218, MMD2, LHFPL5, ZDHHC24, NALCN, BRICD5, VSTM1, YIPF6, TSPAN33, STAC2, SLC35B2, SFT2D2, SERP2, C2orf82, C4orf3, CENPP, ANKRD20A5P, BRCA1, EFTUD2, LUC7L3, NPM1, PRPF19, RNPS1, SRSF1, SRSF3, SRSF4, TRA2B, ALYREF, U2AF2, MYO1C, DKC1, FBL, GAR1, NHP2, NOP58, SFPQ, MATR3, HNRNPU, HIST1H1A, HIST1H1B, HIST1H1C, HIST1H2BB, HIST1H3A, HIST2H2AB, HIST1H4H, H2AFZ, TTN, DDX23, DDX5, DHX15, HNRNPA1L2, HNRNPA3, HNRNPC, HNRNPH1, HNRNPK, PRPF6, RALY, SF3B1, SNRNP40, SNRPD1, SNRPD2, SNRPD3, YBX1, ACIN1, DDX18, DDX21, ILF2, ILF3, MYBBP1A, NOP2, NOP56, RPF2, RPL5, RPL6, RPL11, RPS3A, RPS6, RPS7, RPS25, RSL1D1, SRSF5, SRSF9, TOP1, UBTF, CD2BP2, CSNK2A1, ELAVL1, HNRNPL, PHB2, RPS2, SAP18, SSRP1, URI1, TP53BP1 | PTN | APOBEC3G, CGA, DFNA5, HSPBAP1, TAF1D, MKKS, PLXNB2, SUPT7L, WFDC2, ATRX, BMI1, BTBD2, CAAP1, CACNB4, CDH10, CDK5RAP2, COX6C, DUSP12, EVA1A, FTL, BLOC1S1, GLYAT, GTF2F1, ITSN2, MLLT3, MYCBP, NAP1L5, CRCT1, PMF1, PSMB10, RIT1, RBM23, SNCAIP, STC2, TAC3, TBRG4, TXNDC9, ARL15, ATP5C1, CAPZB, CCDC53, CRELD1, DNAJB11, EIF3F, SLC25A36, GPD1, GSTP1, LAMA4, LUC7L2, MAD2L1BP, P4HB, UTP3, SAT1, SSR1, TP53BP2, ARIH2, GIPC2, GNB2L1, HGH1, PPP2CA, PSMD11, PTPRS, RPLP1, SGSM2, TOMM20, UBQLN4, PSMD2, CHD3, SGTA, BCCIP, ALK, PTPRZ1, CTNNB1, NUDT21, GSK3B, MRPL44, C7orf25, BCL2L1, PFDN1, GADD45A, C11orf58, BARD1, KPNB1, GADD45G, FEZ1, PTN, PIAS4, GPRASP2, BAG6, TSC22D1, CYP2E1, UBQLN1, NEK6, PTPRB |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for LMNA_PTN |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for LMNA_PTN |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | LMNA | C0410190 | Autosomal Dominant Emery-Dreifuss Muscular Dystrophy (disorder) | 19 | ORPHANET;UNIPROT |
| Hgene | LMNA | C1449563 | Cardiomyopathy, Familial Idiopathic | 17 | ORPHANET;UNIPROT |
| Hgene | LMNA | C0033300 | Progeria | 14 | CTD_human;ORPHANET;UNIPROT |
| Hgene | LMNA | C1720860 | Familial Partial Lipodystrophy, Type 2 | 10 | ORPHANET;UNIPROT |
| Hgene | LMNA | C1834653 | MUSCULAR DYSTROPHY, LIMB-GIRDLE, TYPE 1B (disorder) | 7 | CTD_human;ORPHANET;UNIPROT |
| Hgene | LMNA | C0432291 | Mandibuloacral dysostosis | 5 | CTD_human;ORPHANET;UNIPROT |
| Hgene | LMNA | C0271694 | Familial partial lipodystrophy | 4 | CTD_human |
| Hgene | LMNA | C0007193 | Cardiomyopathy, Dilated | 3 | CTD_human;HPO |
| Hgene | LMNA | C0796031 | Malouf syndrome | 3 | ORPHANET;UNIPROT |
| Hgene | LMNA | C2750035 | Emery-Dreifuss Muscular Dystrophy 3 | 2 | UNIPROT |
| Hgene | LMNA | C2750785 | MUSCULAR DYSTROPHY, CONGENITAL, LMNA-RELATED (disorder) | 2 | CTD_human;ORPHANET;UNIPROT |
| Hgene | LMNA | C0016508 | Congenital Foot Deformity | 1 | CTD_human |
| Hgene | LMNA | C0018566 | Congenital Hand Deformities | 1 | CTD_human |
| Hgene | LMNA | C0018794 | Heart Block | 1 | CTD_human |
| Hgene | LMNA | C0032460 | Polycystic Ovary Syndrome | 1 | CTD_human;HPO |
| Hgene | LMNA | C0036420 | Localized scleroderma | 1 | CTD_human |
| Hgene | LMNA | C0037188 | Sinoatrial Block | 1 | CTD_human |
| Hgene | LMNA | C0042514 | Tachycardia, Ventricular | 1 | CTD_human |
| Hgene | LMNA | C0085298 | Sudden Cardiac Death | 1 | CTD_human;HPO |
| Hgene | LMNA | C0152013 | Adenocarcinoma of lung (disorder) | 1 | CTD_human |
| Hgene | LMNA | C0376634 | Craniofacial Abnormalities | 1 | CTD_human |
| Hgene | LMNA | C0410189 | Muscular Dystrophy, Emery-Dreifuss | 1 | CTD_human |
| Hgene | LMNA | C0686353 | Muscular Dystrophies, Limb-Girdle | 1 | CTD_human;HPO |
| Hgene | LMNA | C1136321 | HIV-Associated Lipodystrophy Syndrome | 1 | CTD_human |
| Hgene | LMNA | C1854154 | Charcot-Marie-Tooth disease, Type 2B1 | 1 | CTD_human;ORPHANET;UNIPROT |
| Tgene | PTN | C0023893 | Liver Cirrhosis, Experimental | 1 | CTD_human |
| Tgene | PTN | C0024667 | Animal Mammary Neoplasms | 1 | CTD_human |
| Tgene | PTN | C0024668 | Mammary Neoplasms, Experimental | 1 | CTD_human |
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