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Fusion Protein:CIT-LYZ |
Fusion Protein Summary |
 Fusion gene summary |
| Fusion partner gene information | Fusion gene name: CIT-LYZ | FusionPDB ID: 16870 | FusionGDB2.0 ID: 16870 | Hgene | Tgene | Gene symbol | CIT | LYZ | Gene ID | 79947 | 4069 |
| Gene name | dehydrodolichyl diphosphate synthase subunit | lysozyme | |
| Synonyms | CIT|CPT|DEDSM|DS|HDS|RP59|hCIT | LYZF1|LZM | |
| Cytomap | 1p36.11 | 12q15 | |
| Type of gene | protein-coding | protein-coding | |
| Description | dehydrodolichyl diphosphate synthase complex subunit DHDDScis-IPTasecis-isoprenyltransferasecis-prenyl transferasecis-prenyltransferase subunit hCITdedol-PP synthasedehydrodolichyl diphosphate syntase complex subunit DHDDSepididymis tissue protein | lysozyme C1,4-beta-N-acetylmuramidase Cc-type lysozymelysozyme F1 | |
| Modification date | 20200313 | 20200313 | |
| UniProtAcc | Q96RK1 | P61626 | |
| Ensembl transtripts involved in fusion gene | ENST ids | ENST00000261833, ENST00000392521, ENST00000537607, | ENST00000261267, ENST00000549690, ENST00000548839, |
| Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 9 X 9 X 6=486 | 51 X 27 X 13=17901 |
| # samples | 9 | 60 | |
| ** MAII score | log2(9/486*10)=-2.43295940727611 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(60/17901*10)=-4.89893387178018 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context (manual curation of fusion genes in FusionPDB) | PubMed: CIT [Title/Abstract] AND LYZ [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | CIT(120260624)-LYZ(69743888), # samples:2 | ||
| Anticipated loss of major functional domain due to fusion event. | CIT-LYZ 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. CIT-LYZ 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. CIT-LYZ 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. CIT-LYZ 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. CIT-LYZ seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF. CIT-LYZ seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF. CIT-LYZ seems lost the major protein functional domain in Hgene partner, which is a kinase due to the frame-shifted 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 |
| Hgene | CIT | GO:0006489 | dolichyl diphosphate biosynthetic process | 28842490 |
| Tgene | LYZ | GO:0031640 | killing of cells of other organism | 9727055 |
| Tgene | LYZ | GO:0042742 | defense response to bacterium | 21093056 |
| Tgene | LYZ | GO:0050830 | defense response to Gram-positive bacterium | 21093056 |
| Fusion gene breakpoints across CIT (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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| Fusion gene breakpoints across LYZ (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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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 |
| ChimerDB4 | SARC | TCGA-3B-A9HO-01A | CIT | chr12 | 120260624 | - | LYZ | chr12 | 69743888 | + |
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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) |
| ENST00000392521 | CIT | chr12 | 120260624 | - | ENST00000548839 | LYZ | chr12 | 69743888 | + | 1566 | 1167 | 26 | 1345 | 439 |
| ENST00000261833 | CIT | chr12 | 120260624 | - | ENST00000548839 | LYZ | chr12 | 69743888 | + | 1563 | 1164 | 23 | 1342 | 439 |
| 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 |
| ENST00000392521 | ENST00000548839 | CIT | chr12 | 120260624 | - | LYZ | chr12 | 69743888 | + | 0.001351784 | 0.9986482 |
| ENST00000261833 | ENST00000548839 | CIT | chr12 | 120260624 | - | LYZ | chr12 | 69743888 | + | 0.001356238 | 0.9986438 |
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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 >16870_16870_1_CIT-LYZ_CIT_chr12_120260624_ENST00000261833_LYZ_chr12_69743888_ENST00000548839_length(amino acids)=439AA_BP=381 MGVRRAASGEMLKFKYGARNPLDAGAAEPIASRASRLNLFFQGKPPFMTQQQMSPLSREGILDALFVLFEECSQPALMKIKHVSNFVRKY SDTIAELQELQPSAKDFEVRSLVGCGHFAEVQVVREKATGDIYAMKVMKKKALLAQEQVSFFEEERNILSRSTSPWIPQLQYAFQDKNHL YLVMEYQPGGDLLSLLNRYEDQLDENLIQFYLAELILAVHSVHLMGYVHRDIKPENILVDRTGHIKLVDFGSAAKMNSNKMVNAKLPIGT PDYMAPEVLTVMNGDGKGTYGLDCDWWSVGVIAYEMIYGRSPFAEGTSARTFNNIMNFQRFLKFPDDPKVSSDFLDLIQSLLCGQKERLK -------------------------------------------------------------- >16870_16870_2_CIT-LYZ_CIT_chr12_120260624_ENST00000392521_LYZ_chr12_69743888_ENST00000548839_length(amino acids)=439AA_BP=381 MGVRRAASGEMLKFKYGARNPLDAGAAEPIASRASRLNLFFQGKPPFMTQQQMSPLSREGILDALFVLFEECSQPALMKIKHVSNFVRKY SDTIAELQELQPSAKDFEVRSLVGCGHFAEVQVVREKATGDIYAMKVMKKKALLAQEQVSFFEEERNILSRSTSPWIPQLQYAFQDKNHL YLVMEYQPGGDLLSLLNRYEDQLDENLIQFYLAELILAVHSVHLMGYVHRDIKPENILVDRTGHIKLVDFGSAAKMNSNKMVNAKLPIGT PDYMAPEVLTVMNGDGKGTYGLDCDWWSVGVIAYEMIYGRSPFAEGTSARTFNNIMNFQRFLKFPDDPKVSSDFLDLIQSLLCGQKERLK -------------------------------------------------------------- |
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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/chr12:120260624/chr12:69743888) - 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 |
| CIT | LYZ |
| FUNCTION: Acts as transcriptional coactivator for TFAP2/AP-2. Enhances estrogen-dependent transactivation mediated by estrogen receptors. May function as an inhibitor of transactivation by HIF1A by disrupting HIF1A interaction with CREBBP. May be involved in regulation of gene expression during development and differentiation of blood cells, endothelial cells and mammary epithelial cells. {ECO:0000269|PubMed:11744733, ECO:0000269|PubMed:15342390}. | FUNCTION: Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. |
| 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 |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 97_360 | 370.3333333333333 | 2028.0 | Domain | Protein kinase |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 97_360 | 370.3333333333333 | 2070.0 | Domain | Protein kinase |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 103_111 | 370.3333333333333 | 2028.0 | Nucleotide binding | ATP |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 103_111 | 370.3333333333333 | 2070.0 | Nucleotide binding | ATP |
| - 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 | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 453_1297 | 370.3333333333333 | 2028.0 | Coiled coil | Ontology_term=ECO:0000255 |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 453_1297 | 370.3333333333333 | 2070.0 | Coiled coil | Ontology_term=ECO:0000255 |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 1443_1563 | 370.3333333333333 | 2028.0 | Domain | PH |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 1591_1881 | 370.3333333333333 | 2028.0 | Domain | CNH |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 361_431 | 370.3333333333333 | 2028.0 | Domain | AGC-kinase C-terminal |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 1443_1563 | 370.3333333333333 | 2070.0 | Domain | PH |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 1591_1881 | 370.3333333333333 | 2070.0 | Domain | CNH |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 361_431 | 370.3333333333333 | 2070.0 | Domain | AGC-kinase C-terminal |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 1953_1958 | 370.3333333333333 | 2028.0 | Motif | SH3-binding |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 1953_1958 | 370.3333333333333 | 2070.0 | Motif | SH3-binding |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 1362_1411 | 370.3333333333333 | 2028.0 | Zinc finger | Phorbol-ester/DAG-type |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 1362_1411 | 370.3333333333333 | 2070.0 | Zinc finger | Phorbol-ester/DAG-type |
| Tgene | LYZ | chr12:120260624 | chr12:69743888 | ENST00000261267 | 0 | 4 | 19_148 | 45.333333333333336 | 149.0 | Domain | C-type lysozyme |
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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 |
| CIT | |
| LYZ |
| - 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 |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000261833 | - | 9 | 47 | 1091_1302 | 370.3333333333333 | 2028.0 | Rho/Rac |
| Hgene | CIT | chr12:120260624 | chr12:69743888 | ENST00000392521 | - | 9 | 48 | 1091_1302 | 370.3333333333333 | 2070.0 | Rho/Rac |
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Related Drugs to CIT-LYZ |
| Drugs used for this fusion-positive patient. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Drug | Source | PMID |
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Related Diseases to CIT-LYZ |
| 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 |
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