|
||||||
|
 | |
| |
| |
| |
| |
|
Fusion gene ID: 5837 |
FusionGeneSummary for CCDC28A_CLEC16A |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: CCDC28A_CLEC16A | Fusion gene ID: 5837 | Hgene | Tgene | Gene symbol | CCDC28A | CLEC16A | Gene ID | 25901 | 23274 |
| Gene name | coiled-coil domain containing 28A | C-type lectin domain containing 16A | |
| Synonyms | C6orf80|CCRL1AP | Gop-1|KIAA0350 | |
| Cytomap | 6q24.1 | 16p13.13 | |
| Type of gene | protein-coding | protein-coding | |
| Description | coiled-coil domain-containing protein 28Achemokine C-C motif receptor-like 1 adjacent | protein CLEC16AC-type lectin domain family 16 member A | |
| Modification date | 20180519 | 20180527 | |
| UniProtAcc | Q8IWP9 | Q2KHT3 | |
| Ensembl transtripts involved in fusion gene | ENST00000332797, | ENST00000409790, ENST00000409552, ENST00000465491, ENST00000381822, | |
| Fusion gene scores | * DoF score | 3 X 3 X 3=27 | 8 X 7 X 7=392 |
| # samples | 5 | 8 | |
| ** MAII score | log2(5/27*10)=0.888968687611256 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(8/392*10)=-2.29278174922785 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: CCDC28A [Title/Abstract] AND CLEC16A [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 | LUAD | TCGA-50-5049-01A | CCDC28A | chr6 | 139101122 | + | CLEC16A | chr16 | 11260245 | + |
| * 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 | ENST00000332797 | ENST00000409790 | CCDC28A | chr6 | 139101122 | + | CLEC16A | chr16 | 11260245 | + |
| 5CDS-intron | ENST00000332797 | ENST00000409552 | CCDC28A | chr6 | 139101122 | + | CLEC16A | chr16 | 11260245 | + |
| 5CDS-intron | ENST00000332797 | ENST00000465491 | CCDC28A | chr6 | 139101122 | + | CLEC16A | chr16 | 11260245 | + |
| 5CDS-5UTR | ENST00000332797 | ENST00000381822 | CCDC28A | chr6 | 139101122 | + | CLEC16A | chr16 | 11260245 | + |
Top |
FusionProtFeatures for CCDC28A_CLEC16A |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| CCDC28A | CLEC16A |
| Regulator of mitophagy through the upstream regulationof the RNF41/NRDP1-PRKN pathway. Mitophagy is a selective form ofautophagy necessary for mitochondrial quality control. TheRNF41/NRDP1-PRKN pathway regulates autophagosome-lysosome fusionduring late mitophagy. May protect RNF41/NRDP1 from proteosomaldegradation, RNF41/NRDP1 which regulates proteosomal degradationof PRKN. Plays a key role in beta cells functions by regulatingmitophagy/autophagy and mitochondrial health.{ECO:0000269|PubMed:24949970}. |
| 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 | >CLEC16A | chr6:139101122 | chr16:11260245 | ENST00000381822 | + | 0 | 4 | 892_933 | -74 | 141 | Compositional bias | Note=Ser-rich |
| Tgene | >CLEC16A | chr6:139101122 | chr16:11260245 | ENST00000409552 | + | 0 | 21 | 892_933 | -46 | 907 | Compositional bias | Note=Ser-rich |
| Tgene | >CLEC16A | chr6:139101122 | chr16:11260245 | ENST00000409790 | + | 21 | 24 | 892_933 | 880 | 1054 | Compositional bias | Note=Ser-rich |
| Tgene | >CLEC16A | chr6:139101122 | chr16:11260245 | ENST00000381822 | + | 0 | 4 | 51_198 | -74 | 141 | Domain | FPL |
| Tgene | >CLEC16A | chr6:139101122 | chr16:11260245 | ENST00000409552 | + | 0 | 21 | 51_198 | -46 | 907 | Domain | FPL |
| - 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 | >CCDC28A | chr6:139101122 | chr16:11260245 | ENST00000332797 | + | 3 | 6 | 234_263 | 197 | 275 | Coiled coil | Ontology_term=ECO:0000255 |
| Tgene | CLEC16A | chr6:139101122 | chr16:11260245 | ENST00000409790 | + | 21 | 24 | 51_198 | 880 | 1054 | Domain | FPL |
Top |
FusionGeneSequence for CCDC28A_CLEC16A |
| 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_CCDC28A_ENST00000332797_chr6_139101122_+_CLEC16A_ENST00000409790_chr16_11260245_+_371aa MPRAEPRATLGEQEKAGLPLGAWRLYLLRHFRKQTELRRSGSRDVTGALLVAAAVASEAVGSLRVAEGGPNTLLLQVLRSWPWCNKELKT MEERKVKRRSPKSFSAHCTQVVNAKKNAIPVSKSTGFSNPASQSTSQRPKLKRVMKEKTKPQGGEGKGAQSTPIQHSFLTDVSDVQEMER GLLSLLNDFHSGKLQAFGFAVAQCINQHSSPSLSSQSPPSASGSPSGSGSTSHCDSGGTSSSSTPSTAQSPADAPMSPELPKPHLPDQLV IVNETEADSKPSKNVARSAAVETASLSPSLVPARQPTISLLCEDTADTLSVESLTLVPPVDPHSLRSLTGMPPLSTPAAACTEPVGEEAA |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| >In-frame_CCDC28A_ENST00000332797_chr6_139101122_+_CLEC16A_ENST00000409790_chr16_11260245_+_1113nt ATGCCGAGGGCGGAGCCAAGAGCGACACTGGGGGAGCAGGAAAAGGCGGGGCTTCCGCTTGGGGCATGGAGGCTGTACCTCTTACGTCAC TTCCGTAAACAAACGGAGCTGCGGAGGAGCGGGTCCCGGGATGTGACCGGGGCTCTGCTTGTGGCTGCGGCGGTGGCTTCTGAGGCTGTC GGGTCTTTGCGGGTTGCGGAAGGGGGCCCCAATACCCTTCTTCTTCAGGTCTTAAGAAGCTGGCCGTGGTGCAATAAGGAACTTAAAACA ATGGAAGAGCGGAAAGTGAAGAGGAGGAGTCCTAAGTCTTTTAGTGCCCACTGTACTCAGGTTGTCAATGCCAAAAAAAATGCCATTCCA GTGAGTAAAAGCACAGGGTTTTCAAATCCTGCATCACAGTCAACTTCACAGCGACCAAAGTTAAAAAGAGTGATGAAAGAAAAGACCAAA CCTCAGGGTGGAGAGGGCAAAGGCGCTCAGTCAACTCCGATCCAGCACTCCTTCCTCACTGATGTCTCAGATGTTCAGGAGATGGAGAGA GGGCTGCTCAGTCTTTTGAATGATTTCCACTCTGGAAAACTTCAAGCATTTGGCTTCGCCGTGGCCCAGTGCATAAACCAGCACAGCTCC CCGTCCCTGTCCTCACAGTCGCCACCCTCCGCCAGCGGGAGCCCCAGCGGCAGCGGGAGCACCAGCCACTGCGACTCTGGAGGCACCAGC TCGTCCTCCACCCCCTCCACAGCCCAGAGTCCAGCAGATGCCCCCATGAGTCCAGAACTGCCTAAGCCTCACCTTCCTGACCAGTTGGTA ATCGTCAACGAAACGGAAGCAGACTCTAAGCCCAGCAAGAACGTGGCCAGGAGCGCAGCCGTGGAGACAGCCAGCCTGTCCCCCAGCCTC GTCCCTGCCCGGCAGCCCACCATTTCCCTGCTCTGCGAGGACACGGCTGACACGCTGAGCGTCGAATCGCTGACCCTTGTCCCCCCAGTT GACCCCCACAGCCTCCGCAGCCTCACCGGCATGCCCCCGCTGTCCACGCCGGCTGCCGCCTGCACAGAGCCCGTGGGCGAAGAGGCTGCA |
| * Fusion transcript sequences (Full-length transcript). |
| >In-frame_CCDC28A_ENST00000332797_chr6_139101122_+_CLEC16A_ENST00000409790_chr16_11260245_+_4767nt GGCGGAGTAGCTTCCGGAAAGGGTACTGCATTTCCCGTTTCTACCTCCACTGCACCCGCTTATTGCGTCTTGCTCCTGGGTCACAGAGCC TAAAACGACACACCCAACACGCCCGCCGGAGTTACAGCTAAAGGAAGGACAGGGGAAGCAATGAAATGCCGAGGGCGGAGCCAAGAGCGA CACTGGGGGAGCAGGAAAAGGCGGGGCTTCCGCTTGGGGCATGGAGGCTGTACCTCTTACGTCACTTCCGTAAACAAACGGAGCTGCGGA GGAGCGGGTCCCGGGATGTGACCGGGGCTCTGCTTGTGGCTGCGGCGGTGGCTTCTGAGGCTGTCGGGTCTTTGCGGGTTGCGGAAGGGG GCCCCAATACCCTTCTTCTTCAGGTCTTAAGAAGCTGGCCGTGGTGCAATAAGGAACTTAAAACAATGGAAGAGCGGAAAGTGAAGAGGA GGAGTCCTAAGTCTTTTAGTGCCCACTGTACTCAGGTTGTCAATGCCAAAAAAAATGCCATTCCAGTGAGTAAAAGCACAGGGTTTTCAA ATCCTGCATCACAGTCAACTTCACAGCGACCAAAGTTAAAAAGAGTGATGAAAGAAAAGACCAAACCTCAGGGTGGAGAGGGCAAAGGCG CTCAGTCAACTCCGATCCAGCACTCCTTCCTCACTGATGTCTCAGATGTTCAGGAGATGGAGAGAGGGCTGCTCAGTCTTTTGAATGATT TCCACTCTGGAAAACTTCAAGCATTTGGCTTCGCCGTGGCCCAGTGCATAAACCAGCACAGCTCCCCGTCCCTGTCCTCACAGTCGCCAC CCTCCGCCAGCGGGAGCCCCAGCGGCAGCGGGAGCACCAGCCACTGCGACTCTGGAGGCACCAGCTCGTCCTCCACCCCCTCCACAGCCC AGAGTCCAGCAGATGCCCCCATGAGTCCAGAACTGCCTAAGCCTCACCTTCCTGACCAGTTGGTAATCGTCAACGAAACGGAAGCAGACT CTAAGCCCAGCAAGAACGTGGCCAGGAGCGCAGCCGTGGAGACAGCCAGCCTGTCCCCCAGCCTCGTCCCTGCCCGGCAGCCCACCATTT CCCTGCTCTGCGAGGACACGGCTGACACGCTGAGCGTCGAATCGCTGACCCTTGTCCCCCCAGTTGACCCCCACAGCCTCCGCAGCCTCA CCGGCATGCCCCCGCTGTCCACGCCGGCTGCCGCCTGCACAGAGCCCGTGGGCGAAGAGGCTGCATGTGCTGAGCCTGTGGGCACCGCTG AGGACTGAGTCAGTGCCGGGGCCTCCCTTTGTGTGTGTGGCCCCGCTGGTAGGGACCCCAGTGCCGCTGACTGGCAAGACACACTGGGAG CACCCACCATTCTGTGCGGCCCCCAGCAGCCATCTCAACCACCTATCCCTGCGCTCCCTTGAATGGGAAGAAGCCCCACGTTGTCCTTGA ATTCCTTTTTCACTTTGCATCTCTTCACGTGCAGGCTGGGACCAGCGGAGACACCGCGGCGAATGCAGATGACTGCACCGGCCACTCAGG GAGCTGCCTGGGCTCCGTGTCTCTGAGCCCCGGGTGGCAGGACCCACCGGCACCTCTTTCTTCCTCTGTCATATGGCTCCTCTGTCACCA GCCCCAGTGTGCACAGAAGAATTGGACCAGGTCACTGTACGTAGAAATTTGTAGAAAAGCAGACTTAGATAAACATCTCCTTTGGATATT TATTTCCGCTTTTGGCAGCAGGTGAACATTTATTTTTAAAACTTCTATTTAAAAGAAGTCCAAAAACATCAACACTAAGGTTTGATGTCA TGTGAAAAGTGTAATAATAACAGTTAAGATTTCATGATCATTTTCACTGGACCTTTCCTGATATTTTGTTTCAGAGTTCTTAGTGTGGCT TTTTCCATTTATTTAAGTGATTCTTTGTTACTCACTAACTCTGCAAGCCTGTGGAATAATGAAGTACCTTCCTGGAAAGTTTGGATTATT TTTTAAACAAAAACAAGGGAGATACATGTATTCTCAGGTACACACAGAGCTGAGAGGGCTGAATGGTTTTCTGCTATAGCAGCCGAGAGG CCTCCCATCATGGAAAGATTTCTCCAGGAAAAGGAGGAATGTAGCCAGCTCCCCACTCAGGACGCTTCCTCATTTCTCTTCACCAAAACC AAACAGAGACAGCTTCCAGCACCTTCTTCAGTGTTACCATCTCTAAGAAGGAACCAGTTGGGACCGTGAAGACTCCCGACCCTGTGGCCA TGATGGAAATCAAAGGAAGACACCCTCTACGTCACCTGCCCTCGACTGTGTGTGCCCACATGTGCCGAGAGATGGCCCAGAGCCAGTTCC CCTCCAGCTGCAAGGGCATGGTGTCCCCAGAGCTCTGAGTCTGTCACTCTCCCTCTGCTACTGCTGCTGATCTGAATATGGAAACCCCAT GGTTCCCTTCCCCATTCGGACTGGGTGTGTACAAGCAAGGACCCAGATGCATCAGACACAGCCCCCAAGATGTTCCTTTCTACTCGGCCA GCTCGGGAGCCAGACACAGCACTCACAGCCCAGGCCGTGATCCACCCTCCCCAAGTCCACCAGGGCCAGCGGCCCCTCACCTCTCTGGTC ACTGGTGAGACCTTCCACAACTTTCCTCCAGACCTGCCAGCAGATGTGCCCACCAGGGGCATTAGGTATCCGCCGGAGCCTGGCCATAGG GTAGTCTCGGGAGCCGCGCTGAGATCTTTTGCCACCTGCATTTTAGAAGAACATGGTCTCTGTCTCCTCGGCCCAGCCAGCTGTCCCGGC AAGGCCTGCCGAGGGCAGTTTTCAACCTCATGAAGGAAACACAGTCCTGCCAAGGAGGGGGAGTGGCGCCCATGGGGACAGGCCTCAGTC CTTAGAAGCCCTCTGGGTAGCTGTGCCCACCCAGCCTTCATGGCTGCAGGTACAAGGACCTTTGCTTCCATAGAGAAAACGCACAGCTCA GAAAGGGGGCCACATGGGCAGAAACCCAAAGGAAGGACAAACCACGACCACCGTGGCCATCTGCAGAATCCCTGGAAGAGAAGGAAGGCA GGGTGGAGCGGGGGGAAGACCATCATGGAGAGAAGGACCACAGCATCAGGAGACGGGACACGCCACACCCAGCAGGCAGCCTGTGTGTTG CTTAATTTTTTAAGAGCAAGAGGGGTAGAGAGGATCAAGCTGGCCCTGGCTGGAGATGGCTAGCCCCTGAGACATGCACTTCTGGTTTTG AAATGACTCTGTCTGTGGGGCAGCAGAAACTAGAGAAGGCAAGTGGCTGCCCCACCCCAAGGCGTGACCAGGAGGAACAGCCTGCAGCTC ACTCCATGCCACACGGGTGGGCCACCAGCCTGCTGTCAGAAGTCTCTGGGCTCCAACTGGTCTTGTAACCACTGAGCACTGAAGGAGAGA GGTCTTGGTCAGGGCTGGACAGCATGCCCGGGAGGACCAGCAGAGGATTAAAGGTGACTGGGAGGACCAGCGGAGGATAAAAGACACTGC TCAGGGCAGGGCTTCTACCCTGCATCCCTGGCCAAGAAAAGGGCAGTCCCCATGTGGGCTTGCAGGGTCACTCTCAGGGGCCTCTTTCAG CTGGGGCTGGCAACTTGCGTCTGGGGGACACCTCCAGGTGTGTGGGGTGAGGATTTCCTATAACCAGGGCTCCCAGAAGCTTTGCTTATG TAAGGAGGTCTGGGAGCCAGCCCATTGGAGGCCACCAGCCATTTTGGCTTCAAAGGACCCCACCTCACCCAGGTCTCAGCGGCAGTGGGC ACAGCTATGTCTTCAGGAGCTCCCGTCAAACCTCATAGCTGGGGCGCTCCCAGACAGGCCAGTCCAGACAGGACACGCTGGGCCCCTGGC ATCCAGAGGAAGAGCCAGGAGTGTGGGAAGGCCCACAGTGGGGGCTGTGGCTTCTGACACTCAGGTCATAGCCTCAGAGGTCTGAGGTCA GCCCCCACAGACCCATCCGGCCCGCCCCCCAAGTCCCTGCAGAGAGCACTTAGAGTTATGGCCCAGGCCCTGGTCCACCCTTCCCCTGTG CACCTCCGGCTGGGTTTGCCAAGTCAGGGAGCAGGGCTGGCCGCAGGAACTCCCAAACCTTGGCTTTGAATATTGTTGTGGAGGTGTGCT CGTCCCTTTCTGGACGTGCAAGGTACCTGTCCCAGCAGGTCAGATGGGGCCAGCTGAGGCGCTCCCCCAGGCAGGAAGGGCCAGCCTTCA CCATCGCGTGGGATTGGGAGGAGGGGCCTCCGTGAGCAGCCCCTCCTCTGCCGCTGTCCCAGCCCAGTCCCTCTCCCGGAGCCTTGGCAG CCTCCCACAACCCAGACACTTGCGTTCACAAGCAACCTAAGGGGCAGGTGAAGAAGCGCAGCCCTGCCAGACGCGCTAGATTCCTCTAAG GTCTCTGAGATGCACCGTTTTTTAAAAAGGCGTGGGGTGAACTGATTTTGATCTTCTTGTCTAGATGCAATAAATAAATCTGAAGCATTT AATGTAGTCATCTTGACATTGGGCCTACACTGTACGAGTTCCTTATGTTTCCTTGAGCTAAAAATATGTAAATAATTTTTGTCCCAGTGA GAACCGAGGGTTAGAAAACCTCGATGCCTCTGAGCCTCGGGACCGCTCTAGGGAAGTACCTGCTTTCGCCAGCATGACTCATGCTTCGTG |
Top |
FusionGenePPI for CCDC28A_CLEC16A |
| 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 |
| CCDC28A | ELAVL1, SRPK2, ICA1, KIFC3, MYOG, TRIM54, KRTAP9-2, XPO1, CDC25A, CDC25B, EYA2, EYA3, PTPDC1 | CLEC16A | WRAP73, RNF41, TSSC1, RAB39B |
| - 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 |
Top |
RelatedDrugs for CCDC28A_CLEC16A |
| 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 |
Top |
RelatedDiseases for CCDC28A_CLEC16A |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Tgene | CLEC16A | C0011854 | Diabetes Mellitus, Insulin-Dependent | 2 | CTD_human |
| Tgene | CLEC16A | C0026769 | Multiple Sclerosis | 2 | CTD_human |
| Tgene | CLEC16A | C0162538 | Immunoglobulin A deficiency (disorder) | 2 | CTD_human |
| Tgene | CLEC16A | C0001403 | Addison Disease | 1 | CTD_human |
| Tgene | CLEC16A | C0023892 | Biliary cirrhosis | 1 | CTD_human |
| Tgene | CLEC16A | C0024141 | Lupus Erythematosus, Systemic | 1 | CTD_human |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
|