|
||||||
|
 | |
| |
| |
| |
| |
|
Fusion gene ID: 19747 |
FusionGeneSummary for LIN28B_USP45 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: LIN28B_USP45 | Fusion gene ID: 19747 | Hgene | Tgene | Gene symbol | LIN28B | USP45 | Gene ID | 389421 | 85015 |
| Gene name | lin-28 homolog B | ubiquitin specific peptidase 45 | |
| Synonyms | CSDD2 | - | |
| Cytomap | 6q16.3-q21 | 6q16.2 | |
| Type of gene | protein-coding | protein-coding | |
| Description | protein lin-28 homolog BLin-28.2lin-28B | ubiquitin carboxyl-terminal hydrolase 45deubiquitinating enzyme 45ubiquitin specific protease 45ubiquitin thioesterase 45ubiquitin thiolesterase 45ubiquitin-specific-processing protease 45 | |
| Modification date | 20180527 | 20180519 | |
| UniProtAcc | Q6ZN17 | Q70EL2 | |
| Ensembl transtripts involved in fusion gene | ENST00000345080, | ENST00000392738, ENST00000500704, ENST00000327681, ENST00000539675, ENST00000369233, ENST00000329966, ENST00000472914, ENST00000369232, ENST00000369231, | |
| Fusion gene scores | * DoF score | 1 X 1 X 1=1 | 1 X 1 X 1=1 |
| # samples | 1 | 1 | |
| ** MAII score | log2(1/1*10)=3.32192809488736 | log2(1/1*10)=3.32192809488736 | |
| Context | PubMed: LIN28B [Title/Abstract] AND USP45 [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 |
| Tgene | USP45 | GO:0016579 | protein deubiquitination | 14715245 |
| 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-E9-A248-01A | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| * 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 |
| Frame-shift | ENST00000345080 | ENST00000392738 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| Frame-shift | ENST00000345080 | ENST00000500704 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| Frame-shift | ENST00000345080 | ENST00000327681 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| 5CDS-intron | ENST00000345080 | ENST00000539675 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| 5CDS-intron | ENST00000345080 | ENST00000369233 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| 5CDS-intron | ENST00000345080 | ENST00000329966 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| 5CDS-intron | ENST00000345080 | ENST00000472914 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| 5CDS-intron | ENST00000345080 | ENST00000369232 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
| 5CDS-intron | ENST00000345080 | ENST00000369231 | LIN28B | chr6 | 105406161 | + | USP45 | chr6 | 99924106 | - |
Top |
FusionProtFeatures for LIN28B_USP45 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| LIN28B | USP45 |
| Suppressor of microRNA (miRNA) biogenesis, includingthat of let-7 and possibly of miR107, miR-143 and miR-200c. Bindsprimary let-7 transcripts (pri-let-7), including pri-let-7g andpri-let-7a-1, and sequester them in the nucleolus, away from themicroprocessor complex, hence preventing their processing intomature miRNA (PubMed:22118463). Does not act on pri-miR21(PubMed:22118463). The repression of let-7 expression is requiredfor normal development and contributes to maintain the pluripotentstate of embryonic stem cells by preventing let-7-mediateddifferentiation. When overexpressed, recruits ZCCHC11/TUT4uridylyltransferase to pre-let-7 transcripts, leading to theirterminal uridylation and degradation (PubMed:19703396). Thisactivity might not be relevant in vivo, as LIN28B-mediatedinhibition of let-7 miRNA maturation appears to be ZCCHC11-independent (PubMed:22118463). Interaction with target pre-miRNAsoccurs via an 5'-GGAG-3' motif in the pre-miRNA terminal loop.Mediates MYC-induced let-7 repression (By similarity). Whenoverexpressed, isoform 1 stimulates growth of the breastadenocarcinoma cell line MCF-7. Isoform 2 has no effect on cellgrowth. {ECO:0000250|UniProtKB:Q45KJ6,ECO:0000269|PubMed:16971064, ECO:0000269|PubMed:18951094,ECO:0000269|PubMed:19703396, ECO:0000269|PubMed:22118463}. |
| 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 |
| - 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 |
Top |
FusionGeneSequence for LIN28B_USP45 |
| 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. |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| * Fusion transcript sequences (Full-length transcript). |
Top |
FusionGenePPI for LIN28B_USP45 |
| 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 |
| LIN28B | USP36, COPS5, UBC, TRIM71, ELAVL2, FBL, KRR1, LARP4, NIFK, NCBP1, NHP2, NOP10, PHAX, PURB, PURA, ZCCHC3, PTCD1, SNRPG, RALY, NCBP2, SNRPB2, LARP7, RBM34, SNRPF, SNRPA, TRUB2, EIF4A3, HIST1H1A, NOL12, NSA2, RPL8, SURF2, RPL6, PRR11, ZC3HAV1 | USP45 | CDK1, FLNA, MYH9, MYH10, MYL6, PIK3CG, POLR2G, SAFB, SF3A2, RTCA, FARS2, RALY, CORO1C, RBMX, IGKV4-1, TMOD3, GLTSCR2, ZFR, SRBD1, YLPM1, MYL12B, PPP5C, RBM7, WIZ, SLX4, ERCC1, ERCC4 |
| - 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 LIN28B_USP45 |
| 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 LIN28B_USP45 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | LIN28B | C0027819 | Neuroblastoma | 2 | CTD_human;ORPHANET |
| Hgene | LIN28B | C0007621 | Neoplastic Cell Transformation | 1 | CTD_human |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
|