|
||||||
|
 | |
| |
| |
| |
| |
|
Fusion gene ID: 35304 |
FusionGeneSummary for SNX30_CNTLN |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: SNX30_CNTLN | Fusion gene ID: 35304 | Hgene | Tgene | Gene symbol | SNX30 | CNTLN | Gene ID | 401548 | 54875 |
| Gene name | sorting nexin family member 30 | centlein | |
| Synonyms | ATG24A | C9orf101|C9orf39|bA340N12.1 | |
| Cytomap | 9q32 | 9p22.2 | |
| Type of gene | protein-coding | protein-coding | |
| Description | sorting nexin-30 | centleincentlein, centrosomal proteincentrosomal protein | |
| Modification date | 20180519 | 20180519 | |
| UniProtAcc | Q5VWJ9 | Q9NXG0 | |
| Ensembl transtripts involved in fusion gene | ENST00000374232, ENST00000604751, | ENST00000380647, ENST00000262360, ENST00000425824, ENST00000380641, ENST00000484374, | |
| Fusion gene scores | * DoF score | 9 X 7 X 11=693 | 4 X 4 X 4=64 |
| # samples | 14 | 5 | |
| ** MAII score | log2(14/693*10)=-2.30742852519225 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(5/64*10)=-0.356143810225275 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: SNX30 [Title/Abstract] AND CNTLN [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 | RV | HNSC | TCGA-DQ-7589-01A | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| * 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 | ENST00000374232 | ENST00000380647 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| In-frame | ENST00000374232 | ENST00000262360 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| In-frame | ENST00000374232 | ENST00000425824 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| 5CDS-intron | ENST00000374232 | ENST00000380641 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| 5CDS-intron | ENST00000374232 | ENST00000484374 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| intron-3CDS | ENST00000604751 | ENST00000380647 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| intron-3CDS | ENST00000604751 | ENST00000262360 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| intron-3CDS | ENST00000604751 | ENST00000425824 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| intron-intron | ENST00000604751 | ENST00000380641 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
| intron-intron | ENST00000604751 | ENST00000484374 | SNX30 | chr9 | 115513437 | + | CNTLN | chr9 | 17484293 | + |
Top |
FusionProtFeatures for SNX30_CNTLN |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| SNX30 | CNTLN |
| May be involved in several stages of intracellulartrafficking. {ECO:0000250}. | Required for centrosome cohesion and recruitment ofCEP68 to centrosomes. {ECO:0000269|PubMed:24554434}. |
| 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 | >CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380641 | + | 0 | 7 | 613_655 | -9 | 392 | Coiled coil | Ontology_term=ECO:0000255 |
| Tgene | >CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380641 | + | 0 | 7 | 681_793 | -9 | 392 | Coiled coil | Ontology_term=ECO:0000255 |
| Tgene | >CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380641 | + | 0 | 7 | 95_126 | -9 | 392 | Coiled coil | Ontology_term=ECO:0000255 |
| Tgene | >CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380641 | + | 0 | 7 | 980_1311 | -9 | 392 | Coiled coil | Ontology_term=ECO:0000255 |
| Tgene | >CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380641 | + | 0 | 7 | 1398_1405 | -9 | 392 | Compositional bias | Note=Poly-Ser |
| Tgene | >CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380647 | + | 22 | 26 | 1398_1405 | 1285 | 1407 | Compositional bias | Note=Poly-Ser |
| - 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 | >SNX30 | chr9:115513437 | chr9:17484293 | ENST00000374232 | + | 1 | 9 | 89_210 | 52 | 438 | Domain | PX |
| Tgene | CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380647 | + | 22 | 26 | 613_655 | 1285 | 1407 | Coiled coil | Ontology_term=ECO:0000255 |
| Tgene | CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380647 | + | 22 | 26 | 681_793 | 1285 | 1407 | Coiled coil | Ontology_term=ECO:0000255 |
| Tgene | CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380647 | + | 22 | 26 | 95_126 | 1285 | 1407 | Coiled coil | Ontology_term=ECO:0000255 |
| Tgene | CNTLN | chr9:115513437 | chr9:17484293 | ENST00000380647 | + | 22 | 26 | 980_1311 | 1285 | 1407 | Coiled coil | Ontology_term=ECO:0000255 |
Top |
FusionGeneSequence for SNX30_CNTLN |
| 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_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000380647_chr9_17484293_+_174aa MAGGPPKALPSTGPHSLRDMPHPLAGSSSEEAVGGDSTPSPDLLMARSFGDKALAKELQNDVHVVRRQIRELKKMKKNRDACKTSTHKAQ >In-frame_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000262360_chr9_17484293_+_173aa MAGGPPKALPSTGPHSLRDMPHPLAGSSSEEAVGGDSTPSPDLLMARSFGDKALAKELQNDVHVVRRQIRELKKMKKNRDACKTSTHKAQ >In-frame_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000425824_chr9_17484293_+_174aa MAGGPPKALPSTGPHSLRDMPHPLAGSSSEEAVGGDSTPSPDLLMARSFGDKALAKELQNDVHVVRRQIRELKKMKKNRDACKTSTHKAQ |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| >In-frame_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000380647_chr9_17484293_+_522nt ATGGCGGGCGGGCCCCCCAAGGCCCTGCCGTCCACGGGGCCCCACTCCCTGCGCGACATGCCGCACCCGCTGGCCGGCTCCAGCAGCGAG GAGGCCGTGGGTGGTGACAGCACGCCCAGCCCGGACCTGCTGATGGCCCGCAGCTTCGGTGACAAGGCTTTGGCCAAAGAGTTGCAAAAT GATGTCCATGTGGTAAGGCGACAAATAAGAGAGCTTAAAAAAATGAAGAAAAACAGGGACGCCTGTAAAACCTCAACCCATAAAGCCCAG ACCTTGGCAGCTTCTATCCTGAACATTTCACGGTCAGATTTAGAGGAAATATTAGACACAGAAGATCAAGTGGAAATTGAAAAAACAAAA ATTGATGCTGAAAATGACAAGGAATGGATGTTGTACATTCAGAAACTTCTTGAAGGACAGCTTCCTTTTGCCTCATATTTACTAGAAGCA >In-frame_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000262360_chr9_17484293_+_519nt ATGGCGGGCGGGCCCCCCAAGGCCCTGCCGTCCACGGGGCCCCACTCCCTGCGCGACATGCCGCACCCGCTGGCCGGCTCCAGCAGCGAG GAGGCCGTGGGTGGTGACAGCACGCCCAGCCCGGACCTGCTGATGGCCCGCAGCTTCGGTGACAAGGCTTTGGCCAAAGAGTTGCAAAAT GATGTCCATGTGGTAAGGCGACAAATAAGAGAGCTTAAAAAAATGAAGAAAAACAGGGACGCCTGTAAAACCTCAACCCATAAAGCCCAG ACCTTGGCAGCTTCTATCCTGAACATTTCACGGTCAGATTTAGAGGAAATATTAGACACAGAAGATCAAGTGGAAATTGAAAAAACAAAA ATTGATGCTGAAAATGACAAGGAATGGATGTTGTACATTCAGAAACTTCTTGAAGGACAGAGTCTTGCTCTGTCTCCCAGGCTGAAGTGC >In-frame_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000425824_chr9_17484293_+_522nt ATGGCGGGCGGGCCCCCCAAGGCCCTGCCGTCCACGGGGCCCCACTCCCTGCGCGACATGCCGCACCCGCTGGCCGGCTCCAGCAGCGAG GAGGCCGTGGGTGGTGACAGCACGCCCAGCCCGGACCTGCTGATGGCCCGCAGCTTCGGTGACAAGGCTTTGGCCAAAGAGTTGCAAAAT GATGTCCATGTGGTAAGGCGACAAATAAGAGAGCTTAAAAAAATGAAGAAAAACAGGGACGCCTGTAAAACCTCAACCCATAAAGCCCAG ACCTTGGCAGCTTCTATCCTGAACATTTCACGGTCAGATTTAGAGGAAATATTAGACACAGAAGATCAAGTGGAAATTGAAAAAACAAAA ATTGATGCTGAAAATGACAAGGAATGGATGTTGTACATTCAGAAACTTCTTGAAGGACAGCTTCCTTTTGCCTCATATTTACTAGAAGCA |
| * Fusion transcript sequences (Full-length transcript). |
| >In-frame_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000380647_chr9_17484293_+_1957nt GCCGGCAGAGACCAGCCGGCGGGTGGCGGCGGCCCCCAGCACGGCCGGTGCAAGGCCTCGGGTTAAGCGGCGGCCGAGCGGGGCTCGGCC CGGGGTGCTCGGGGAGCTCGCCGCGGCGGGCAGCAGGAGGAAGCGGCGGCGGCGCGTCCCGAGCGGTGCGCGCCATGGCGGGCGGGCCCC CCAAGGCCCTGCCGTCCACGGGGCCCCACTCCCTGCGCGACATGCCGCACCCGCTGGCCGGCTCCAGCAGCGAGGAGGCCGTGGGTGGTG ACAGCACGCCCAGCCCGGACCTGCTGATGGCCCGCAGCTTCGGTGACAAGGCTTTGGCCAAAGAGTTGCAAAATGATGTCCATGTGGTAA GGCGACAAATAAGAGAGCTTAAAAAAATGAAGAAAAACAGGGACGCCTGTAAAACCTCAACCCATAAAGCCCAGACCTTGGCAGCTTCTA TCCTGAACATTTCACGGTCAGATTTAGAGGAAATATTAGACACAGAAGATCAAGTGGAAATTGAAAAAACAAAAATTGATGCTGAAAATG ACAAGGAATGGATGTTGTACATTCAGAAACTTCTTGAAGGACAGCTTCCTTTTGCCTCATATTTACTAGAAGCAGTACTGGAAAAAATAA ATGAAAAAAAGAAACTAGTTGAAGGATATTTCACAATTATGAAAGATATTAGATGATATTAAAATGGAGAGCTTTATTGCAAATGTGAAA ACTTTTTATGTGGTGTGATTGGAATACATGCATTGCAATCCTGACACGGTATCTGCTCCAACTATCAATAGTCAGGTTCAATACCAAAAT AAGAAGTCTCTGAAAATAATTAATTGCTGAACAAGTGAAACTAATTAAGTACATAGCCATTTAAAAGGAAATAGTGTAGCATCTGATGGT CGAATACAAATATTGCCACAAATCAGTGCAAACTTAAAAATGATTTTCCTTCTAGTGCATTAAAAGAAACTGAGCAGGCTTGGTACACAC AAATTGGCCTGAGCATAAGAAGAAAAAGTATCAACTAAGGATTTAATGTTTTACGTTTCATGAAGAAACTAGACTTTTTACATAAAACTG CTATAGATGGCCATAAGTGGTCCAGGGAGCAACAGATTTGTAGTATGAGCAAATATAAAATGAAGCATCATAACTTGAGCATTTATTGAA ATAAATTGTGTGGTCCAATTGAATCTGTTCTCATTGATGTGCTGGTTTATGTAGGAGATACTGTGTATTTCTACAACTCTTTGGCAAAAA CAAAAACATTTTCTTCTTCTCTCTCTTAACTTCACAATACTATACGTTGTGTAGTCATATAAATTTGCAGGGAACCACAAACCCAATGTA TAAAATTAGGCTCTATTTAACAGAACTACTACTGTGGTCAGCTAATTTAAGTTACATTCTTAACCATGATGTCATCCTTATTTAGATTCC TGGACATTCCCACCTCATTTCACCTCTTCACCGTGTTCCTGCCATACCCTTTTTGGTTCCTCTAATTCACCATACTGGTGCCTGCCTCCC ACATTTGCCCTTGGTCTTCTCTCTTTCTAGAATACTCTGCACTCAACTTTCCTCATGGCTGGCTCCTTGTCATCATTCAGCTCCACCTTC CCCGGTCCCTCAGAGACACATTCTCTGACCAGCTTACTATTTTATTTCCTCATAGCACAAAATTATCTATCTGTTCATGTATTTGTTTTC TTGTTTATTTTCTTCTTTTCCCTCTTTAGTATGTAGGTCCCATGAGATTAAGGCAAGGGTTGGCAGATTATAGCCTGCAGGGCGAATCTG GCCTGCCACCTGTTTTGTATGGCCCACAAGCTAAGAATGGTTTTTGCCTTATTAAATGGTTTTTAAAAAATCAAAAGGAGAATAATATTT >In-frame_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000262360_chr9_17484293_+_683nt GCCGGCAGAGACCAGCCGGCGGGTGGCGGCGGCCCCCAGCACGGCCGGTGCAAGGCCTCGGGTTAAGCGGCGGCCGAGCGGGGCTCGGCC CGGGGTGCTCGGGGAGCTCGCCGCGGCGGGCAGCAGGAGGAAGCGGCGGCGGCGCGTCCCGAGCGGTGCGCGCCATGGCGGGCGGGCCCC CCAAGGCCCTGCCGTCCACGGGGCCCCACTCCCTGCGCGACATGCCGCACCCGCTGGCCGGCTCCAGCAGCGAGGAGGCCGTGGGTGGTG ACAGCACGCCCAGCCCGGACCTGCTGATGGCCCGCAGCTTCGGTGACAAGGCTTTGGCCAAAGAGTTGCAAAATGATGTCCATGTGGTAA GGCGACAAATAAGAGAGCTTAAAAAAATGAAGAAAAACAGGGACGCCTGTAAAACCTCAACCCATAAAGCCCAGACCTTGGCAGCTTCTA TCCTGAACATTTCACGGTCAGATTTAGAGGAAATATTAGACACAGAAGATCAAGTGGAAATTGAAAAAACAAAAATTGATGCTGAAAATG ACAAGGAATGGATGTTGTACATTCAGAAACTTCTTGAAGGACAGAGTCTTGCTCTGTCTCCCAGGCTGAAGTGCAATGGCGCAATCGTGG >In-frame_SNX30_ENST00000374232_chr9_115513437_+_CNTLN_ENST00000425824_chr9_17484293_+_1951nt GCCGGCAGAGACCAGCCGGCGGGTGGCGGCGGCCCCCAGCACGGCCGGTGCAAGGCCTCGGGTTAAGCGGCGGCCGAGCGGGGCTCGGCC CGGGGTGCTCGGGGAGCTCGCCGCGGCGGGCAGCAGGAGGAAGCGGCGGCGGCGCGTCCCGAGCGGTGCGCGCCATGGCGGGCGGGCCCC CCAAGGCCCTGCCGTCCACGGGGCCCCACTCCCTGCGCGACATGCCGCACCCGCTGGCCGGCTCCAGCAGCGAGGAGGCCGTGGGTGGTG ACAGCACGCCCAGCCCGGACCTGCTGATGGCCCGCAGCTTCGGTGACAAGGCTTTGGCCAAAGAGTTGCAAAATGATGTCCATGTGGTAA GGCGACAAATAAGAGAGCTTAAAAAAATGAAGAAAAACAGGGACGCCTGTAAAACCTCAACCCATAAAGCCCAGACCTTGGCAGCTTCTA TCCTGAACATTTCACGGTCAGATTTAGAGGAAATATTAGACACAGAAGATCAAGTGGAAATTGAAAAAACAAAAATTGATGCTGAAAATG ACAAGGAATGGATGTTGTACATTCAGAAACTTCTTGAAGGACAGCTTCCTTTTGCCTCATATTTACTAGAAGCAGTACTGGAAAAAATAA ATGAAAAAAAGAAACTAGTTGAAGGATATTTCACAATTATGAAAGATATTAGATGATATTAAAATGGAGAGCTTTATTGCAAATGTGAAA ACTTTTTATGTGGTGTGATTGGAATACATGCATTGCAATCCTGACACGGTATCTGCTCCAACTATCAATAGTCAGGTTCAATACCAAAAT AAGAAGTCTCTGAAAATAATTAATTGCTGAACAAGTGAAACTAATTAAGTACATAGCCATTTAAAAGGAAATAGTGTAGCATCTGATGGT CGAATACAAATATTGCCACAAATCAGTGCAAACTTAAAAATGATTTTCCTTCTAGTGCATTAAAAGAAACTGAGCAGGCTTGGTACACAC AAATTGGCCTGAGCATAAGAAGAAAAAGTATCAACTAAGGATTTAATGTTTTACGTTTCATGAAGAAACTAGACTTTTTACATAAAACTG CTATAGATGGCCATAAGTGGTCCAGGGAGCAACAGATTTGTAGTATGAGCAAATATAAAATGAAGCATCATAACTTGAGCATTTATTGAA ATAAATTGTGTGGTCCAATTGAATCTGTTCTCATTGATGTGCTGGTTTATGTAGGAGATACTGTGTATTTCTACAACTCTTTGGCAAAAA CAAAAACATTTTCTTCTTCTCTCTCTTAACTTCACAATACTATACGTTGTGTAGTCATATAAATTTGCAGGGAACCACAAACCCAATGTA TAAAATTAGGCTCTATTTAACAGAACTACTACTGTGGTCAGCTAATTTAAGTTACATTCTTAACCATGATGTCATCCTTATTTAGATTCC TGGACATTCCCACCTCATTTCACCTCTTCACCGTGTTCCTGCCATACCCTTTTTGGTTCCTCTAATTCACCATACTGGTGCCTGCCTCCC ACATTTGCCCTTGGTCTTCTCTCTTTCTAGAATACTCTGCACTCAACTTTCCTCATGGCTGGCTCCTTGTCATCATTCAGCTCCACCTTC CCCGGTCCCTCAGAGACACATTCTCTGACCAGCTTACTATTTTATTTCCTCATAGCACAAAATTATCTATCTGTTCATGTATTTGTTTTC TTGTTTATTTTCTTCTTTTCCCTCTTTAGTATGTAGGTCCCATGAGATTAAGGCAAGGGTTGGCAGATTATAGCCTGCAGGGCGAATCTG GCCTGCCACCTGTTTTGTATGGCCCACAAGCTAAGAATGGTTTTTGCCTTATTAAATGGTTTTTAAAAAATCAAAAGGAGAATAATATTT |
Top |
FusionGenePPI for SNX30_CNTLN |
| 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 |
| SNX30 | KHDRBS1, ADAM15, FGFR1OP, SNX4 | CNTLN | SP1, BRCA1, HDAC6, TPM1, C9orf41, PRSS12, GOPC |
| - 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 SNX30_CNTLN |
| 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 SNX30_CNTLN |
| 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)
|