| UTHEALTH HOME ABOUT SBMI A-Z WEBMAIL INSIDE THE UNIVERSITY |
|
|||||||
|
Fusion Protein:RBM10-CTC1 |
Fusion Protein Summary |
 Fusion gene summary |
| Fusion partner gene information | Fusion gene name: RBM10-CTC1 | FusionPDB ID: 72742 | FusionGDB2.0 ID: 72742 | Hgene | Tgene | Gene symbol | RBM10 | CTC1 | Gene ID | 8241 | 80169 |
| Gene name | RNA binding motif protein 10 | CST telomere replication complex component 1 | |
| Synonyms | DXS8237E|GPATC9|GPATCH9|S1-1|TARPS|ZRANB5 | AAF-132|AAF132|C17orf68|CRMCC|tmp494178 | |
| Cytomap | Xp11.3 | 17p13.1 | |
| Type of gene | protein-coding | protein-coding | |
| Description | RNA-binding protein 10RNA-binding protein S1-1epididymis secretory sperm binding proteing patch domain-containing protein 9 | CST complex subunit CTC1CST telomere maintenance complex component 1CTS telomere maintenance complex component 1HBV DNAPTP1-transactivated protein Balpha accessory factor 132conserved telomere capping protein 1 | |
| Modification date | 20200313 | 20200313 | |
| UniProtAcc | . | Q2NKJ3 | |
| Ensembl transtripts involved in fusion gene | ENST ids | ENST00000329236, ENST00000345781, ENST00000377604, ENST00000478410, | ENST00000581671, ENST00000315684, |
| Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 17 X 8 X 9=1224 | 2 X 2 X 1=4 |
| # samples | 18 | 2 | |
| ** MAII score | log2(18/1224*10)=-2.76553474636298 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(2/4*10)=2.32192809488736 | |
| Context (manual curation of fusion genes in FusionPDB) | PubMed: RBM10 [Title/Abstract] AND CTC1 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | RBM10(47006898)-CTC1(8135355), # samples:1 | ||
| Anticipated loss of major functional domain due to fusion event. | RBM10-CTC1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. RBM10-CTC1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. | ||
| * 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 | CTC1 | GO:0032211 | negative regulation of telomere maintenance via telomerase | 22763445 |
| Fusion gene breakpoints across RBM10 (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
 |
| Fusion gene breakpoints across CTC1 (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
 |
Top |
Fusion Gene Sample Information |
| Fusion gene information from FusionGDB2.0. |
| Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0) * 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 |
| ChiTaRS5.0 | N/A | DA827897 | RBM10 | chrX | 47006898 | + | CTC1 | chr17 | 8135355 | - |
Top |
Fusion ORF Analysis |
| Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB. |
| 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) |
| ENST00000377604 | RBM10 | chrX | 47006898 | + | ENST00000315684 | CTC1 | chr17 | 8135355 | - | 2525 | 759 | 424 | 945 | 173 |
| ENST00000329236 | RBM10 | chrX | 47006898 | + | ENST00000315684 | CTC1 | chr17 | 8135355 | - | 2162 | 396 | 61 | 582 | 173 |
| ENST00000345781 | RBM10 | chrX | 47006898 | + | ENST00000315684 | CTC1 | chr17 | 8135355 | - | 2115 | 349 | 14 | 535 | 173 |
| 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 |
| ENST00000377604 | ENST00000315684 | RBM10 | chrX | 47006898 | + | CTC1 | chr17 | 8135355 | - | 0.20527028 | 0.79472977 |
| ENST00000329236 | ENST00000315684 | RBM10 | chrX | 47006898 | + | CTC1 | chr17 | 8135355 | - | 0.20330566 | 0.79669434 |
| ENST00000345781 | ENST00000315684 | RBM10 | chrX | 47006898 | + | CTC1 | chr17 | 8135355 | - | 0.17421596 | 0.825784 |
Top |
Fusion Amino Acid Sequences |
| For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones. |
| >FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP >72742_72742_1_RBM10-CTC1_RBM10_chrX_47006898_ENST00000329236_CTC1_chr17_8135355_ENST00000315684_length(amino acids)=173AA_BP= MGVGGSEFPWEGSALGASPLPPICLQSRTWLLRAPAPAELGELEEVAAGRGDVWEPFLDSPGREESLQEASPRLADHGSSSGGGWEVKRS -------------------------------------------------------------- >72742_72742_2_RBM10-CTC1_RBM10_chrX_47006898_ENST00000345781_CTC1_chr17_8135355_ENST00000315684_length(amino acids)=173AA_BP= MGVGGSEFPWEGSALGASPLPPICLQSRTWLLRAPAPAELGELEEVAAGRGDVWEPFLDSPGREESLQEASPRLADHGSSSGGGWEVKRS -------------------------------------------------------------- >72742_72742_3_RBM10-CTC1_RBM10_chrX_47006898_ENST00000377604_CTC1_chr17_8135355_ENST00000315684_length(amino acids)=173AA_BP= MGVGGSEFPWEGSALGASPLPPICLQSRTWLLRAPAPAELGELEEVAAGRGDVWEPFLDSPGREESLQEASPRLADHGSSSGGGWEVKRS -------------------------------------------------------------- |
Top |
Fusion Protein Functional Features |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chrX:47006898/chr17:8135355) - 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. |
 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| . | CTC1 |
| FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes. | FUNCTION: Component of the CST complex proposed to act as a specialized replication factor promoting DNA replication under conditions of replication stress or natural replication barriers such as the telomere duplex. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity by themselves. Initially the CST complex has been proposed to protect telomeres from DNA degradation (PubMed:19854130). However, the CST complex has been shown to be involved in several aspects of telomere replication. The CST complex inhibits telomerase and is involved in telomere length homeostasis; it is proposed to bind to newly telomerase-synthesized 3' overhangs and to terminate telomerase action implicating the association with the ACD:POT1 complex thus interfering with its telomerase stimulation activity. The CST complex is also proposed to be involved in fill-in synthesis of the telomeric C-strand probably implicating recruitment and activation of DNA polymerase alpha (PubMed:22763445). The CST complex facilitates recovery from many forms of exogenous DNA damage; seems to be involved in the re-initiation of DNA replication at repaired forks and/or dormant origins (PubMed:25483097). Involved in telomere maintenance (PubMed:19854131, PubMed:22863775). Involved in genome stability (PubMed:22863775). May be in involved in telomeric C-strand fill-in during late S/G2 phase (By similarity). {ECO:0000250|UniProtKB:Q5SUQ9, ECO:0000269|PubMed:19854130, ECO:0000269|PubMed:19854131, ECO:0000269|PubMed:22763445, ECO:0000269|PubMed:22863775, ECO:0000269|PubMed:25483097}. |
| 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. |
| - 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 |
| - 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 | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000329236 | + | 2 | 23 | 113_125 | 5.666666666666667 | 853.0 | Compositional bias | Note=Poly-Glu |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000329236 | + | 2 | 23 | 561_607 | 5.666666666666667 | 853.0 | Compositional bias | Note=Tyr-rich |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000329236 | + | 2 | 23 | 80_87 | 5.666666666666667 | 853.0 | Compositional bias | Note=Poly-Arg |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000345781 | + | 2 | 23 | 113_125 | 5.666666666666667 | 854.0 | Compositional bias | Note=Poly-Glu |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000345781 | + | 2 | 23 | 561_607 | 5.666666666666667 | 854.0 | Compositional bias | Note=Tyr-rich |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000345781 | + | 2 | 23 | 80_87 | 5.666666666666667 | 854.0 | Compositional bias | Note=Poly-Arg |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000377604 | + | 2 | 24 | 113_125 | 5.666666666666667 | 931.0 | Compositional bias | Note=Poly-Glu |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000377604 | + | 2 | 24 | 561_607 | 5.666666666666667 | 931.0 | Compositional bias | Note=Tyr-rich |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000377604 | + | 2 | 24 | 80_87 | 5.666666666666667 | 931.0 | Compositional bias | Note=Poly-Arg |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000329236 | + | 2 | 23 | 129_209 | 5.666666666666667 | 853.0 | Domain | RRM 1 |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000329236 | + | 2 | 23 | 300_384 | 5.666666666666667 | 853.0 | Domain | RRM 2 |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000329236 | + | 2 | 23 | 858_904 | 5.666666666666667 | 853.0 | Domain | G-patch |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000345781 | + | 2 | 23 | 129_209 | 5.666666666666667 | 854.0 | Domain | RRM 1 |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000345781 | + | 2 | 23 | 300_384 | 5.666666666666667 | 854.0 | Domain | RRM 2 |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000345781 | + | 2 | 23 | 858_904 | 5.666666666666667 | 854.0 | Domain | G-patch |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000377604 | + | 2 | 24 | 129_209 | 5.666666666666667 | 931.0 | Domain | RRM 1 |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000377604 | + | 2 | 24 | 300_384 | 5.666666666666667 | 931.0 | Domain | RRM 2 |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000377604 | + | 2 | 24 | 858_904 | 5.666666666666667 | 931.0 | Domain | G-patch |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000329236 | + | 2 | 23 | 212_242 | 5.666666666666667 | 853.0 | Zinc finger | RanBP2-type |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000329236 | + | 2 | 23 | 759_784 | 5.666666666666667 | 853.0 | Zinc finger | C2H2-type%3B atypical |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000345781 | + | 2 | 23 | 212_242 | 5.666666666666667 | 854.0 | Zinc finger | RanBP2-type |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000345781 | + | 2 | 23 | 759_784 | 5.666666666666667 | 854.0 | Zinc finger | C2H2-type%3B atypical |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000377604 | + | 2 | 24 | 212_242 | 5.666666666666667 | 931.0 | Zinc finger | RanBP2-type |
| Hgene | RBM10 | chrX:47006898 | chr17:8135355 | ENST00000377604 | + | 2 | 24 | 759_784 | 5.666666666666667 | 931.0 | Zinc finger | C2H2-type%3B atypical |
Top |
Fusion Protein-Protein Interaction |
| 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 from validated records (BIOGRID-3.4.160) |
| Gene | PPI interactors |
| Protein-protein interactors based on sequence similarity (STRING) |
| Gene | STRING network |
| RBM10 | |
| CTC1 |
| - Retained interactions in fusion protein (protein functional feature from UniProt). |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost interactions due to fusion (protein functional feature from UniProt). |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
Top |
Related Drugs to RBM10-CTC1 |
| Drugs used for this fusion-positive patient. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Drug | Source | PMID |
Top |
Related Diseases to RBM10-CTC1 |
| Diseases that have this fusion gene. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Disease | Source | PMID |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2021-Present -The University of Texas Health Science Center at Houston (UTHealth)
Web File Viewing | Emergency Information |Campus Carry|Site Policies