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 | Fusion Gene Summary |
| Fusion Gene ORF analysis |
| Fusion Genomic Features |
| Fusion Protein Features |
| Fusion Gene Sequence |
| Fusion Gene PPI analysis |
| Related Drugs |
| Related Diseases |
Fusion gene:BMP4-LRR1 (FusionGDB2 ID:HG652TG122769) |
Fusion Gene Summary for BMP4-LRR1 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: BMP4-LRR1 | Fusion gene ID: hg652tg122769 | Hgene | Tgene | Gene symbol | BMP4 | LRR1 | Gene ID | 652 | 122769 |
| Gene name | bone morphogenetic protein 4 | leucine rich repeat protein 1 | |
| Synonyms | BMP2B|BMP2B1|MCOPS6|OFC11|ZYME | 4-1BBLRR|LRR-1|PPIL5 | |
| Cytomap | ('BMP4')('LRR1') 14q22.2 | 14q21.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | bone morphogenetic protein 4bone morphogenetic protein 2B | leucine-rich repeat protein 14-1BB-mediated signaling moleculeLRR-repeat protein 1cyclophilin-like 5epididymis secretory sperm binding proteinpeptidylprolyl isomerase (cyclophilin)-like 5peptidylprolyl isomerase-like 5 | |
| Modification date | 20200329 | 20200313 | |
| UniProtAcc | . | . | |
| Ensembl transtripts involved in fusion gene | ENST00000245451, ENST00000558489, ENST00000417573, ENST00000558984, ENST00000559087, | ||
| Fusion gene scores | * DoF score | 2 X 2 X 2=8 | 4 X 3 X 2=24 |
| # samples | 2 | 4 | |
| ** MAII score | log2(2/8*10)=1.32192809488736 | log2(4/24*10)=0.736965594166206 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
| Context | PubMed: BMP4 [Title/Abstract] AND LRR1 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint | BMP4(54423268)-LRR1(50069088), # samples:1 | ||
| Anticipated loss of major functional domain due to fusion event. | |||
| * 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 | BMP4 | GO:0000122 | negative regulation of transcription by RNA polymerase II | 9187146 |
| Hgene | BMP4 | GO:0000186 | activation of MAPKK activity | 17600318|17992660 |
| Hgene | BMP4 | GO:0001649 | osteoblast differentiation | 17720811 |
| Hgene | BMP4 | GO:0001657 | ureteric bud development | 12141440 |
| Hgene | BMP4 | GO:0001658 | branching involved in ureteric bud morphogenesis | 12631064 |
| Hgene | BMP4 | GO:0001934 | positive regulation of protein phosphorylation | 14749725 |
| Hgene | BMP4 | GO:0001938 | positive regulation of endothelial cell proliferation | 17992660 |
| Hgene | BMP4 | GO:0002043 | blood vessel endothelial cell proliferation involved in sprouting angiogenesis | 18787191 |
| Hgene | BMP4 | GO:0002244 | hematopoietic progenitor cell differentiation | 15451575 |
| Hgene | BMP4 | GO:0003323 | type B pancreatic cell development | 11865031 |
| Hgene | BMP4 | GO:0003337 | mesenchymal to epithelial transition involved in metanephros morphogenesis | 10706139 |
| Hgene | BMP4 | GO:0007182 | common-partner SMAD protein phosphorylation | 20573232 |
| Hgene | BMP4 | GO:0008284 | positive regulation of cell proliferation | 15516325 |
| Hgene | BMP4 | GO:0008285 | negative regulation of cell proliferation | 9187146 |
| Hgene | BMP4 | GO:0009791 | post-embryonic development | 8674409 |
| Hgene | BMP4 | GO:0010453 | regulation of cell fate commitment | 18823971 |
| Hgene | BMP4 | GO:0010595 | positive regulation of endothelial cell migration | 17992660 |
| Hgene | BMP4 | GO:0010628 | positive regulation of gene expression | 24906886|28124060 |
| Hgene | BMP4 | GO:0010629 | negative regulation of gene expression | 28124060 |
| Hgene | BMP4 | GO:0010862 | positive regulation of pathway-restricted SMAD protein phosphorylation | 9389648|16816361|17244894|20559569 |
| Hgene | BMP4 | GO:0010942 | positive regulation of cell death | 8674409 |
| Hgene | BMP4 | GO:0021537 | telencephalon development | 9187146 |
| Hgene | BMP4 | GO:0030224 | monocyte differentiation | 21149635 |
| Hgene | BMP4 | GO:0030225 | macrophage differentiation | 21149635 |
| Hgene | BMP4 | GO:0030501 | positive regulation of bone mineralization | 14749725|18436533 |
| Hgene | BMP4 | GO:0030509 | BMP signaling pathway | 9389648|18436533 |
| Hgene | BMP4 | GO:0032092 | positive regulation of protein binding | 23610558 |
| Hgene | BMP4 | GO:0032967 | positive regulation of collagen biosynthetic process | 17720811 |
| Hgene | BMP4 | GO:0034504 | protein localization to nucleus | 17244894 |
| Hgene | BMP4 | GO:0042306 | regulation of protein import into nucleus | 22529382 |
| Hgene | BMP4 | GO:0042326 | negative regulation of phosphorylation | 17244894 |
| Hgene | BMP4 | GO:0043065 | positive regulation of apoptotic process | 9187146|10706139 |
| Hgene | BMP4 | GO:0043066 | negative regulation of apoptotic process | 17992660 |
| Hgene | BMP4 | GO:0043407 | negative regulation of MAP kinase activity | 17244894 |
| Hgene | BMP4 | GO:0045606 | positive regulation of epidermal cell differentiation | 18823971 |
| Hgene | BMP4 | GO:0045662 | negative regulation of myoblast differentiation | 14749725 |
| Hgene | BMP4 | GO:0045669 | positive regulation of osteoblast differentiation | 14749725|18436533 |
| Hgene | BMP4 | GO:0045778 | positive regulation of ossification | 14749725 |
| Hgene | BMP4 | GO:0045786 | negative regulation of cell cycle | 11502704 |
| Hgene | BMP4 | GO:0045839 | negative regulation of mitotic nuclear division | 17244894 |
| Hgene | BMP4 | GO:0045843 | negative regulation of striated muscle tissue development | 14749725 |
| Hgene | BMP4 | GO:0045892 | negative regulation of transcription, DNA-templated | 10706139|12631064|17244894 |
| Hgene | BMP4 | GO:0045893 | positive regulation of transcription, DNA-templated | 10021330|17600318|17992660 |
| Hgene | BMP4 | GO:0045944 | positive regulation of transcription by RNA polymerase II | 9187146|15516325 |
| Hgene | BMP4 | GO:0048286 | lung alveolus development | 8674409 |
| Hgene | BMP4 | GO:0048392 | intermediate mesodermal cell differentiation | 10021330 |
| Hgene | BMP4 | GO:0048661 | positive regulation of smooth muscle cell proliferation | 10706139|17600318 |
| Hgene | BMP4 | GO:0048754 | branching morphogenesis of an epithelial tube | 10706139 |
| Hgene | BMP4 | GO:0050679 | positive regulation of epithelial cell proliferation | 11865031 |
| Hgene | BMP4 | GO:0060391 | positive regulation of SMAD protein signal transduction | 9389648 |
| Hgene | BMP4 | GO:0060393 | regulation of pathway-restricted SMAD protein phosphorylation | 18787191 |
| Hgene | BMP4 | GO:0060395 | SMAD protein signal transduction | 17244894 |
| Hgene | BMP4 | GO:0060425 | lung morphogenesis | 8674409 |
| Hgene | BMP4 | GO:0060433 | bronchus development | 8674409 |
| Hgene | BMP4 | GO:0060438 | trachea development | 8674409 |
| Hgene | BMP4 | GO:0060441 | epithelial tube branching involved in lung morphogenesis | 8674409 |
| Hgene | BMP4 | GO:0060502 | epithelial cell proliferation involved in lung morphogenesis | 8674409 |
| Hgene | BMP4 | GO:0060503 | bud dilation involved in lung branching | 8674409 |
| Hgene | BMP4 | GO:0060548 | negative regulation of cell death | 12631064 |
| Hgene | BMP4 | GO:0061036 | positive regulation of cartilage development | 3201241 |
| Hgene | BMP4 | GO:0061155 | pulmonary artery endothelial tube morphogenesis | 17992660 |
| Hgene | BMP4 | GO:0071893 | BMP signaling pathway involved in nephric duct formation | 10021330 |
| Hgene | BMP4 | GO:0072097 | negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway | 10706139|17118062 |
| Hgene | BMP4 | GO:0072101 | specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway | 10706139|17118062 |
| Hgene | BMP4 | GO:0072125 | negative regulation of glomerular mesangial cell proliferation | 17244894 |
| Hgene | BMP4 | GO:0072200 | negative regulation of mesenchymal cell proliferation involved in ureter development | 12399320 |
| Hgene | BMP4 | GO:0090184 | positive regulation of kidney development | 10021330 |
| Hgene | BMP4 | GO:0090191 | negative regulation of branching involved in ureteric bud morphogenesis | 12141440|17118062 |
| Hgene | BMP4 | GO:0090194 | negative regulation of glomerulus development | 12141440 |
| Hgene | BMP4 | GO:1902894 | negative regulation of pri-miRNA transcription by RNA polymerase II | 28124060 |
| Hgene | BMP4 | GO:1903800 | positive regulation of production of miRNAs involved in gene silencing by miRNA | 18548003 |
| Hgene | BMP4 | GO:2000005 | negative regulation of metanephric S-shaped body morphogenesis | 12141440 |
| Hgene | BMP4 | GO:2000007 | negative regulation of metanephric comma-shaped body morphogenesis | 12141440 |
| Fusion gene information * 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. |
| Source | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| ChimerDB4 | STAD | TCGA-HU-8244-01A | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
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Fusion Gene ORF analysis for BMP4-LRR1 |
| 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 |
| 5UTR-3CDS | ENST00000245451 | ENST00000298288 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| 5UTR-3CDS | ENST00000245451 | ENST00000318317 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| 5UTR-3CDS | ENST00000558489 | ENST00000298288 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| 5UTR-3CDS | ENST00000558489 | ENST00000318317 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| 5UTR-intron | ENST00000245451 | ENST00000557531 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| 5UTR-intron | ENST00000558489 | ENST00000557531 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-3CDS | ENST00000417573 | ENST00000298288 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-3CDS | ENST00000417573 | ENST00000318317 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-3CDS | ENST00000558984 | ENST00000298288 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-3CDS | ENST00000558984 | ENST00000318317 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-3CDS | ENST00000559087 | ENST00000298288 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-3CDS | ENST00000559087 | ENST00000318317 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-intron | ENST00000417573 | ENST00000557531 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-intron | ENST00000558984 | ENST00000557531 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| intron-intron | ENST00000559087 | ENST00000557531 | BMP4 | chr14 | 54423268 | - | LRR1 | chr14 | 50069088 | + |
| ORFfinder result based on the fusion transcript sequence of in-frame fusion genes. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
| DeepORF 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. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
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Fusion Genomic Features for BMP4-LRR1 |
| FusionAI 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. |
| Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | 1-p | p (fusion gene breakpoint) |
| BMP4 | chr14 | 54423267 | - | LRR1 | chr14 | 50069087 | + | 0.017497765 | 0.9825022 |
| BMP4 | chr14 | 54423267 | - | LRR1 | chr14 | 50069087 | + | 0.017497765 | 0.9825022 |
| Distribution 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 BMP4-LRR1 |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:54423268/:50069088) - 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. |
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| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| . | . |
| FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}. | FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}. |
| 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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Fusion Gene Sequence for BMP4-LRR1 |
| 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 BMP4-LRR1 |
| 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 |
| - 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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Related Drugs for BMP4-LRR1 |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.8 2021-05-08) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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Related Diseases for BMP4-LRR1 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | BMP4 | C1864689 | MICROPHTHALMIA, SYNDROMIC 6 (disorder) | 4 | CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT |
| Hgene | BMP4 | C2677434 | OROFACIAL CLEFT 11 | 3 | CTD_human;GENOMICS_ENGLAND;UNIPROT |
| Hgene | BMP4 | C0003872 | Arthritis, Psoriatic | 1 | CTD_human |
| Hgene | BMP4 | C0003873 | Rheumatoid Arthritis | 1 | CTD_human |
| Hgene | BMP4 | C0006142 | Malignant neoplasm of breast | 1 | CTD_human |
| Hgene | BMP4 | C0009402 | Colorectal Carcinoma | 1 | CTD_human |
| Hgene | BMP4 | C0009404 | Colorectal Neoplasms | 1 | CTD_human |
| Hgene | BMP4 | C0019284 | Diaphragmatic Hernia | 1 | CTD_human |
| Hgene | BMP4 | C0029408 | Degenerative polyarthritis | 1 | CTD_human |
| Hgene | BMP4 | C0033375 | Prolactinoma | 1 | CTD_human |
| Hgene | BMP4 | C0042842 | Vitamin A Deficiency | 1 | CTD_human |
| Hgene | BMP4 | C0086743 | Osteoarthrosis Deformans | 1 | CTD_human |
| Hgene | BMP4 | C0152427 | Polydactyly | 1 | GENOMICS_ENGLAND |
| Hgene | BMP4 | C0158646 | Cleft palate with cleft lip | 1 | ORPHANET |
| Hgene | BMP4 | C0266294 | Unilateral agenesis of kidney | 1 | ORPHANET |
| Hgene | BMP4 | C0344452 | Microprolactinoma | 1 | CTD_human |
| Hgene | BMP4 | C0344453 | Macroprolactinoma | 1 | CTD_human |
| Hgene | BMP4 | C0678222 | Breast Carcinoma | 1 | CTD_human |
| Hgene | BMP4 | C1257931 | Mammary Neoplasms, Human | 1 | CTD_human |
| Hgene | BMP4 | C1306214 | ACTH-Secreting Pituitary Adenoma | 1 | CTD_human |
| Hgene | BMP4 | C1458155 | Mammary Neoplasms | 1 | CTD_human |
| Hgene | BMP4 | C1968949 | Cakut | 1 | GENOMICS_ENGLAND |
| Hgene | BMP4 | C4704874 | Mammary Carcinoma, Human | 1 | CTD_human |
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