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Fusion gene ID: 33052 |
FusionGeneSummary for SEC24B_MALAT1 |
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Fusion gene information | Fusion gene name: SEC24B_MALAT1 | Fusion gene ID: 33052 | Hgene | Tgene | Gene symbol | SEC24B | MALAT1 | Gene ID | 10427 | 378938 |
Gene name | SEC24 homolog B, COPII coat complex component | metastasis associated lung adenocarcinoma transcript 1 | |
Synonyms | SEC24 | HCN|LINC00047|NCRNA00047|NEAT2|PRO2853 | |
Cytomap | 4q25 | 11q13.1 | |
Type of gene | protein-coding | ncRNA | |
Description | protein transport protein Sec24BSEC24 related gene family, member Bsecretory protein 24 | hepcarcinlong intergenic non-protein coding RNA 47metastasis associated lung adenocarcinoma transcript 1 (non-protein coding)nuclear enriched abundant transcript 2nuclear paraspeckle assembly transcript 2 (non-protein coding) | |
Modification date | 20180519 | 20180527 | |
UniProtAcc | O95487 | ||
Ensembl transtripts involved in fusion gene | ENST00000504968, ENST00000399100, ENST00000265175, | ENST00000534336, | |
Fusion gene scores | * DoF score | 2 X 2 X 1=4 | 71 X 110 X 1=7810 |
# samples | 2 | 126 | |
** MAII score | log2(2/4*10)=2.32192809488736 | log2(126/7810*10)=-2.63189881464206 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Context | PubMed: SEC24B [Title/Abstract] AND MALAT1 [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) |
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Partner | Gene | GO ID | GO term | PubMed ID |
Hgene | SEC24B | GO:0090110 | cargo loading into COPII-coated vesicle | 17499046|18843296 |
![]() (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 |
ChiTaRS3.1 | AV726458 | SEC24B | chr4 | 110384622 | + | MALAT1 | chr11 | 65270650 | + |
* LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
![]() * 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 |
5CDS-3UTR | ENST00000504968 | ENST00000534336 | SEC24B | chr4 | 110384622 | + | MALAT1 | chr11 | 65270650 | + |
5CDS-3UTR | ENST00000399100 | ENST00000534336 | SEC24B | chr4 | 110384622 | + | MALAT1 | chr11 | 65270650 | + |
5CDS-3UTR | ENST00000265175 | ENST00000534336 | SEC24B | chr4 | 110384622 | + | MALAT1 | chr11 | 65270650 | + |
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FusionProtFeatures for SEC24B_MALAT1 |
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Hgene | Tgene |
SEC24B | MALAT1 |
Component of the coat protein complex II (COPII) whichpromotes the formation of transport vesicles from the endoplasmicreticulum (ER). The coat has two main functions, the physicaldeformation of the endoplasmic reticulum membrane into vesiclesand the selection of cargo molecules for their transport to theGolgi complex (PubMed:17499046, PubMed:20427317, PubMed:18843296).Plays a central role in cargo selection within the COPII complexand together with SEC24A may have a different specificity comparedto SEC24C and SEC24D. May package preferentially cargos withcytoplasmic DxE or LxxLE motifs and may also recognizeconformational epitopes (PubMed:17499046, PubMed:18843296).{ECO:0000269|PubMed:17499046, ECO:0000269|PubMed:18843296,ECO:0000269|PubMed:20427317}. | Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}. |
![]() * 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 |
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FusionGeneSequence for SEC24B_MALAT1 |
![]() (nt: nucleotides, aa: amino acids) |
* Fusion amino acid sequences. |
* Fusion transcript sequences (only coding sequence (CDS) region). |
* Fusion transcript sequences (Full-length transcript). |
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FusionGenePPI for SEC24B_MALAT1 |
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Hgene | Hgene's interactors | Tgene | Tgene's interactors |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for SEC24B_MALAT1 |
![]() (DrugBank Version 5.1.0 2018-04-02) |
Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for SEC24B_MALAT1 |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Tgene | MALAT1 | C0023893 | Liver Cirrhosis, Experimental | 1 | CTD_human |
Tgene | MALAT1 | C0023903 | Liver neoplasms | 1 | CTD_human |
Tgene | MALAT1 | C0027626 | Neoplasm Invasiveness | 1 | CTD_human |
Tgene | MALAT1 | C0027627 | Neoplasm Metastasis | 1 | CTD_human |
Tgene | MALAT1 | C0032460 | Polycystic Ovary Syndrome | 1 | CTD_human |
Tgene | MALAT1 | C0236663 | Alcohol withdrawal syndrome | 1 | PSYGENET |
Tgene | MALAT1 | C0279626 | Squamous cell carcinoma of esophagus | 1 | CTD_human |