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Fusion gene ID: 32570 |
FusionGeneSummary for SAMD12_FDCSP |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: SAMD12_FDCSP | Fusion gene ID: 32570 | Hgene | Tgene | Gene symbol | SAMD12 | FDCSP | Gene ID | 401474 | 260436 |
| Gene name | sterile alpha motif domain containing 12 | follicular dendritic cell secreted protein | |
| Synonyms | - | C4orf7|FDC-SP | |
| Cytomap | 8q24.11-q24.12 | 4q13.3|4q13 | |
| Type of gene | protein-coding | protein-coding | |
| Description | sterile alpha motif domain-containing protein 12SAM domain-containing protein 12 | follicular dendritic cell secreted peptideFDC secreted protein | |
| Modification date | 20180521 | 20180329 | |
| UniProtAcc | Q8N8I0 | Q8NFU4 | |
| Ensembl transtripts involved in fusion gene | ENST00000409003, ENST00000314727, ENST00000527515, | ENST00000317987, | |
| Fusion gene scores | * DoF score | 13 X 6 X 6=468 | 1 X 1 X 1=1 |
| # samples | 14 | 1 | |
| ** MAII score | log2(14/468*10)=-1.74108170263844 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(1/1*10)=3.32192809488736 | |
| Context | PubMed: SAMD12 [Title/Abstract] AND FDCSP [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 |
| 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 | BRCA | TCGA-A2-A0T1-01A | SAMD12 | chr8 | 119592954 | - | FDCSP | chr4 | 71096912 | + |
| * 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 |
| In-frame | ENST00000409003 | ENST00000317987 | SAMD12 | chr8 | 119592954 | - | FDCSP | chr4 | 71096912 | + |
| In-frame | ENST00000314727 | ENST00000317987 | SAMD12 | chr8 | 119592954 | - | FDCSP | chr4 | 71096912 | + |
| intron-3CDS | ENST00000527515 | ENST00000317987 | SAMD12 | chr8 | 119592954 | - | FDCSP | chr4 | 71096912 | + |
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FusionProtFeatures for SAMD12_FDCSP |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| SAMD12 | FDCSP |
| Can bind to the surface of B-lymphoma cells, but not T-lymphoma cells, consistent with a function as a secreted mediatoracting upon B-cells. |
| 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 |
| Tgene | >FDCSP | chr8:119592954 | chr4:71096912 | ENST00000317987 | + | 0 | 5 | 45_82 | 0 | 104 | Compositional bias | Note=Pro-rich |
| Tgene | >FDCSP | chr8:119592954 | chr4:71096912 | ENST00000317987 | + | 0 | 5 | 75_83 | 0 | 104 | Region | Note=O-glycosylated at one site |
| - 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 |
| Hgene | >SAMD12 | chr8:119592954 | chr4:71096912 | ENST00000314727 | - | 2 | 4 | 77_143 | 64 | 202 | Domain | SAM |
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FusionGeneSequence for SAMD12_FDCSP |
| 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. |
| >In-frame_SAMD12_ENST00000409003_chr8_119592954_-_FDCSP_ENST00000317987_chr4_71096912_+_150aa MAVEALHCGLNPRGIDHPAHAEGIKLQIEGEGVESQSIKNKNFQKVPDQKGTPKRLQAEAETAKMKKVLLLITAILAVAVGFPVSQDQER >In-frame_SAMD12_ENST00000314727_chr8_119592954_-_FDCSP_ENST00000317987_chr4_71096912_+_150aa MAVEALHCGLNPRGIDHPAHAEGIKLQIEGEGVESQSIKNKNFQKVPDQKGTPKRLQAEAETAKMKKVLLLITAILAVAVGFPVSQDQER |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| >In-frame_SAMD12_ENST00000409003_chr8_119592954_-_FDCSP_ENST00000317987_chr4_71096912_+_450nt ATGGCTGTGGAAGCTCTCCACTGTGGTTTGAATCCACGGGGTATTGATCACCCTGCCCATGCTGAAGGTATTAAACTGCAAATTGAAGGT GAAGGTGTGGAATCTCAATCCATTAAAAATAAAAATTTCCAGAAGGTGCCTGACCAGAAAGGAACTCCCAAGCGACTGCAGGCAGAAGCT GAGACGGCTAAGATGAAGAAAGTTCTCCTCCTGATCACAGCCATCTTGGCAGTGGCTGTTGGTTTCCCAGTCTCTCAAGACCAGGAACGA GAAAAAAGAAGTATCAGTGACAGCGATGAATTAGCTTCAGGGTTTTTTGTGTTCCCTTACCCATATCCATTTCGCCCACTTCCACCAATT CCATTTCCAAGATTTCCATGGTTTAGACGTAATTTTCCTATTCCAATACCTGAATCTGCCCCTACAACTCCCCTTCCTAGCGAAAAGTAA >In-frame_SAMD12_ENST00000314727_chr8_119592954_-_FDCSP_ENST00000317987_chr4_71096912_+_450nt ATGGCTGTGGAAGCTCTCCACTGTGGTTTGAATCCACGGGGTATTGATCACCCTGCCCATGCTGAAGGTATTAAACTGCAAATTGAAGGT GAAGGTGTGGAATCTCAATCCATTAAAAATAAAAATTTCCAGAAGGTGCCTGACCAGAAAGGAACTCCCAAGCGACTGCAGGCAGAAGCT GAGACGGCTAAGATGAAGAAAGTTCTCCTCCTGATCACAGCCATCTTGGCAGTGGCTGTTGGTTTCCCAGTCTCTCAAGACCAGGAACGA GAAAAAAGAAGTATCAGTGACAGCGATGAATTAGCTTCAGGGTTTTTTGTGTTCCCTTACCCATATCCATTTCGCCCACTTCCACCAATT CCATTTCCAAGATTTCCATGGTTTAGACGTAATTTTCCTATTCCAATACCTGAATCTGCCCCTACAACTCCCCTTCCTAGCGAAAAGTAA |
| * Fusion transcript sequences (Full-length transcript). |
| >In-frame_SAMD12_ENST00000409003_chr8_119592954_-_FDCSP_ENST00000317987_chr4_71096912_+_775nt GCGGCAGGTTGGTCCTGGAGCAGATAAGCGCAGAATATTTAGGCGAAAGCGAGAGGAAGGGGGGAGCGCGGGGCAGGAGGAGTACCTCGG CCAAGAAAATTATGCATGCGTTAGGGAAGCTCTGAGAGAATGGCTGTGGAAGCTCTCCACTGTGGTTTGAATCCACGGGGTATTGATCAC CCTGCCCATGCTGAAGGTATTAAACTGCAAATTGAAGGTGAAGGTGTGGAATCTCAATCCATTAAAAATAAAAATTTCCAGAAGGTGCCT GACCAGAAAGGAACTCCCAAGCGACTGCAGGCAGAAGCTGAGACGGCTAAGATGAAGAAAGTTCTCCTCCTGATCACAGCCATCTTGGCA GTGGCTGTTGGTTTCCCAGTCTCTCAAGACCAGGAACGAGAAAAAAGAAGTATCAGTGACAGCGATGAATTAGCTTCAGGGTTTTTTGTG TTCCCTTACCCATATCCATTTCGCCCACTTCCACCAATTCCATTTCCAAGATTTCCATGGTTTAGACGTAATTTTCCTATTCCAATACCT GAATCTGCCCCTACAACTCCCCTTCCTAGCGAAAAGTAAACAAGAAGGAAAAGTCACGATAAACCTGGTCACCTGAAATTGAAATTGAGC CACTTCCTTGAAGAATCAAAATTCCTGTTAATAAAAGAAAAACAAATGTAATTGAAATAGCACACAGCATTCTCTAGTCAATATCTTTAG >In-frame_SAMD12_ENST00000314727_chr8_119592954_-_FDCSP_ENST00000317987_chr4_71096912_+_783nt GCGTGACCGCGGCAGGTTGGTCCTGGAGCAGATAAGCGCAGAATATTTAGGCGAAAGCGAGAGGAAGGGGGGAGCGCGGGGCAGGAGGAG TACCTCGGCCAAGAAAATTATGCATGCGTTAGGGAAGCTCTGAGAGAATGGCTGTGGAAGCTCTCCACTGTGGTTTGAATCCACGGGGTA TTGATCACCCTGCCCATGCTGAAGGTATTAAACTGCAAATTGAAGGTGAAGGTGTGGAATCTCAATCCATTAAAAATAAAAATTTCCAGA AGGTGCCTGACCAGAAAGGAACTCCCAAGCGACTGCAGGCAGAAGCTGAGACGGCTAAGATGAAGAAAGTTCTCCTCCTGATCACAGCCA TCTTGGCAGTGGCTGTTGGTTTCCCAGTCTCTCAAGACCAGGAACGAGAAAAAAGAAGTATCAGTGACAGCGATGAATTAGCTTCAGGGT TTTTTGTGTTCCCTTACCCATATCCATTTCGCCCACTTCCACCAATTCCATTTCCAAGATTTCCATGGTTTAGACGTAATTTTCCTATTC CAATACCTGAATCTGCCCCTACAACTCCCCTTCCTAGCGAAAAGTAAACAAGAAGGAAAAGTCACGATAAACCTGGTCACCTGAAATTGA AATTGAGCCACTTCCTTGAAGAATCAAAATTCCTGTTAATAAAAGAAAAACAAATGTAATTGAAATAGCACACAGCATTCTCTAGTCAAT |
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FusionGenePPI for SAMD12_FDCSP |
| 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 |
| SAMD12 | FDCSP |
| - 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 SAMD12_FDCSP |
| 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 SAMD12_FDCSP |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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