Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014489
Fusion event
HBV-RGS6 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
S protein|Polymerase|large S protein|middle S protein|
Start
581
Orient
+
Integrated sequence
TAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGACCTGCATGACTACTGCTCAAGGAACCTCTATGTATCCCTCCTGTTGCTGTACCAAACC| |TTCGGACGGAAATTGCACCTGTATTCCCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTA
Host Sequence
Chromosome
chr14
Cytoband
q24.2
Reference genome
Start
End
72603022/72136305 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-6727-5p ; hsa-mir-185-3p ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-762 ; hsa-mir-4498 ; hsa-mir-5001-5p ; hsa-mir-4492 ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-4731-5p ; hsa-mir-4480 ; hsa-mir-8089 ; hsa-mir-4700-5p ; hsa-mir-4667-5p ; hsa-mir-6775-5p ; hsa-mir-4508 ; hsa-mir-5090 ; hsa-mir-3691-3p ; hsa-mir-6838-3p ; hsa-mir-6895-5p ; hsa-mir-5571-3p ; hsa-mir-3162-5p ; hsa-mir-7106-5p ; hsa-mir-1289 ; hsa-mir-765 ; hsa-mir-135a-3p ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-6760-5p ; hsa-mir-4747-3p ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-642a-5p ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-938 ; hsa-mir-1233-3p ; hsa-mir-3182 ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-3192-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-877-3p ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-501-5p ; hsa-mir-129-2-3p ; hsa-mir-129-1-3p ; hsa-mir-500a-5p ; hsa-mir-629-3p ; hsa-mir-874-3p ; hsa-mir-3157-3p ; hsa-mir-4279 ; hsa-mir-6794-3p ; hsa-mir-513a-5p ; hsa-mir-4290 ; hsa-mir-130b-5p ; hsa-mir-205-5p ; hsa-mir-4639-3p ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-128-3p ; hsa-mir-216a-3p ; hsa-mir-3681-3p
Nearest miRNA
hsa-mir-208a/Upstream/4694375; hsa-mir-1185-1/Downstream/380515;
Nearest CpG islands
Upstream sequence
TTACACTCCCACTATCACCCAAAGAAGAGACACTCTCTATATTGATAACTAGAAAGAAGGAACTGAGACTGTTGTCCAAGGACATCTTATCTTTAGCATA
Downstream sequence
GAGCGAATATGTGGTTTATGGTAGGTGTTCAACAAACTTAAAAAAAAAAACTtgtattagtctgctctcatgctgctgaataaagacatatcgaagactg
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.