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Fusion gene ID: 19409 |
FusionGeneSummary for LAMC2_RABGAP1L |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: LAMC2_RABGAP1L | Fusion gene ID: 19409 | Hgene | Tgene | Gene symbol | LAMC2 | RABGAP1L | Gene ID | 3918 | 9910 |
| Gene name | laminin subunit gamma 2 | RAB GTPase activating protein 1 like | |
| Synonyms | B2T|BM600|CSF|EBR2|EBR2A|LAMB2T|LAMNB2 | HHL|TBC1D18 | |
| Cytomap | 1q25.3 | 1q25.1 | |
| Type of gene | protein-coding | protein-coding | |
| Description | laminin subunit gamma-2BM600-100kDaCSF 140 kDa subunitcell-scattering factor 140 kDa subunitepiligrin subunit gammakalinin subunit gammaladsin 140 kDa subunitlaminin B2t chainlaminin, gamma 2large adhesive scatter factor 140 kDa subunitnicein su | rab GTPase-activating protein 1-likeTBC1 domain family, member 18expressed in hematopoietic cells, heart, liver (HLL) | |
| Modification date | 20180522 | 20180523 | |
| UniProtAcc | Q13753 | Q5R372 | |
| Ensembl transtripts involved in fusion gene | ENST00000493293, ENST00000264144, ENST00000461729, | ENST00000367689, ENST00000357444, ENST00000251507, ENST00000325589, ENST00000367686, ENST00000367687, ENST00000347255, ENST00000489615, ENST00000478442, ENST00000486220, ENST00000392064, ENST00000367688, | |
| Fusion gene scores | * DoF score | 4 X 4 X 4=64 | 10 X 8 X 5=400 |
| # samples | 4 | 10 | |
| ** MAII score | log2(4/64*10)=-0.678071905112638 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(10/400*10)=-2 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: LAMC2 [Title/Abstract] AND RABGAP1L [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 |
| Tgene | RABGAP1L | GO:0032880 | regulation of protein localization | 16923123 |
| 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 | LD | OV | TCGA-24-1842-01A | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| * 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 |
| 5CDS-intron | ENST00000493293 | ENST00000367689 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000357444 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000251507 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000325589 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000367686 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000367687 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000347255 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000489615 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000478442 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000486220 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000392064 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000493293 | ENST00000367688 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000367689 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000357444 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000251507 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000325589 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000367686 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000367687 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000347255 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000489615 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000478442 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000486220 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000392064 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| 5CDS-intron | ENST00000264144 | ENST00000367688 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000367689 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000357444 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000251507 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000325589 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000367686 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000367687 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000347255 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000489615 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000478442 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000486220 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000392064 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
| intron-intron | ENST00000461729 | ENST00000367688 | LAMC2 | chr1 | 183205739 | + | RABGAP1L | chr1 | 174606513 | + |
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FusionProtFeatures for LAMC2_RABGAP1L |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| LAMC2 | RABGAP1L |
| Binding to cells via a high affinity receptor, lamininis thought to mediate the attachment, migration and organizationof cells into tissues during embryonic development by interactingwith other extracellular matrix components. Ladsin exerts cell-scattering activity toward a wide variety of cells, includingepithelial, endothelial, and fibroblastic cells.{ECO:0000269|PubMed:8265624}. |
| 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 LAMC2_RABGAP1L |
| 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 LAMC2_RABGAP1L |
| 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 |
| LAMC2 | COL7A1, SLA2, PDIA3, YY1, DTNBP1 | RABGAP1L | RABGAP1, MAP1LC3A, GABARAPL1, RAB13, RAB34, RAB36, SHMT2, NXF1, HOXC4, CCDC101, TUFT1, CORO1A, ARFGAP1, UQCC2, C9orf43, TSPAN2, WDFY3, ACAP1, DBN1, MECOM, RB1, MAPK8IP2, RNASEH2B, HMGXB4, PXDC1, TRIM11, EXOC1, VIPR2, DLK2, RFTN2, RFTN1, TRO, GGA1, CYB5A, ACOT7, MLF1, PKN3, NCKAP5L, TFPT, CCHCR1, YEATS4, GOLGA5, CLOCK, PSMD9, VPS53, DZIP3, GRIPAP1, RCOR1, HMG20A, CCDC132, CCDC93, OIP5, PHF21A, GIT2, PTRF, PHLDB3, HAUS6, RPRD1A, ARNTL, MAX, RABGEF1, NUF2, THAP11, VPS51, TSSC1, RABEP1, KDM1A, STRN |
| - 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 LAMC2_RABGAP1L |
| 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 LAMC2_RABGAP1L |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | LAMC2 | C0023890 | Liver Cirrhosis | 1 | CTD_human |
| Hgene | LAMC2 | C0268374 | Adult junctional epidermolysis bullosa (disorder) | 1 | CTD_human;ORPHANET |
| Tgene | RABGAP1L | C0023893 | Liver Cirrhosis, Experimental | 1 | CTD_human |
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