Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017257
Fusion event
HBV-SHISA6 integration
Validated
No
Detection method
Capture-NGS platform
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2019
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
B
Reference genome
Start
1661
End
1751
Integrated sequence
GGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGA
Host Sequence
Chromosome
chr17
Cytoband
p12
Reference genome
Start
End
11383394/11480077 (Hg38)
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-620 ; hsa-mir-1270 ; hsa-mir-5196-5p ; hsa-mir-6797-5p ; hsa-mir-4747-5p ; hsa-mir-1249-5p ; hsa-mir-4683 ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-4708-5p ; hsa-mir-9500 ; hsa-mir-4459 ; hsa-mir-4779 ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-491-5p ; hsa-mir-7847-3p ; hsa-mir-92a-2-5p ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-7106-5p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-766-5p ; hsa-mir-3665 ; hsa-mir-6134 ; hsa-mir-3928-3p ; hsa-mir-6777-5p ; hsa-mir-6889-5p ; hsa-mir-194-3p ; hsa-mir-5693 ; hsa-mir-2278 ; hsa-mir-6875-3p ; hsa-mir-6502-5p ; hsa-mir-1301-5p ; hsa-mir-4778-3p ; hsa-mir-26a-2-3p ; hsa-mir-26a-1-3p ; hsa-mir-6731-3p ; hsa-mir-499b-5p ; hsa-mir-4494 ; hsa-mir-506-5p ; hsa-mir-892c-5p ; hsa-mir-3680-5p ; hsa-mir-6741-3p ; hsa-mir-6867-3p ; hsa-mir-6749-3p ; hsa-mir-6826-3p ; hsa-mir-1298-5p ; hsa-mir-7110-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-4469 ; hsa-mir-205-5p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-5193 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-6795-3p ; hsa-mir-6887-3p ; hsa-mir-502-5p ; hsa-mir-1915-5p ; hsa-mir-6841-3p
Nearest miRNA
hsa-mir-1253/Upstream/3292975; hsa-mir-10226/Downstream/601822;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/237880, chr17-CpG: 32/Downstream/77677
Upstream sequence
ttcatcatctttctcacatctgggtctgtttctatagattgagttttctcctggttataggtcaacttcatgtcatgcttggtaatttgtgattgacgtc
Downstream sequence
gttttattcttttaataccttaggtatttcacttcacgctcttcttgcttgcatggtttctgagaagtcagatgtgattcttacctttgttcctctacag
Target sequence
gcaacgaattccctcaatttttgtttgtccaagaaagtctttatttctccttcacttctgaaggataatttcacaggatacaggattctaggttggtg
Reference
Li, C. L., et al.Androgen Receptor Enhances Hepatic Telomerase Reverse Transcriptase Gene Transcription After Hepatitis B Virus Integration or Point Mutation in Promoter Region. Hepatology,2019, 69(2): 498-512.