Basic Information
VIS ID
TVIS10006833
Fusion event
HBV-LINC01900 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2015
PubMed ID
25815780
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1742
Host Sequence
Chromosome
chr18
Cytoband
q11.2
Reference genome
GRCh38/hg38
Start
22003616 (Hg38)
End
22003724 (Hg38)
Orient
+
Location type
Intronic
Target gene
LINC01900
Nearest miRNA
hsa-mir-1-2/Upstream/174528; hsa-mir-122/Downstream/929625;
Nearest TSS
ENST00000575820/Upstream/22495; ENST00000585185/Downstream/6572;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/106474, chr18-CpG: 549/Downstream/161251
Upstream sequence
TGTACGTGTGTTTTGTGTGTGACTTTCTCCCAAGTTCCAAGTTCCATCTCCAAGTGAGATGGAATTCAGAACCCCTTTTGCCTTGAAGACACTATCATAA
Downstream sequence
gaggctgaggcgggtggatcaccaggtcaagagttcaagaccagcctgaccaacatggtgaaaccccatctctactaaaaatacaaaaaaatttaaccag
Target sequence
GTTGATTTCCCACGATAGCCTTTGTAATTTTACTTCAAGCATAATCCACAAGTAAAACATAATTTGggacagacgaggtggttcacgcctgtaatcccagcactttgg
Reference
Zhang, X., et al. DNA methylation consistency implicates the primary tumor cell origin of recurrent hepatocellular carcinoma. Epigenomics,2015, 7(4): 581-592.
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