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VISDB
Viral Integration Site DataBase
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TVIS10018649
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018649
Fusion event
HBV-RNF24 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1819
Integrated sequence
TTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGC| |AACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTA
Host Sequence
Chromosome
chr20
Cytoband
p13
Reference genome
GRCh37.55
Start
3916585/3935938 (Hg38)
End
3916585/3935938 (Hg38)
Location type
Intron2
Target gene
RNF24
miRNAs that regulate target gene
hsa-mir-26b-5p
;
hsa-mir-4762-3p
;
hsa-mir-5585-5p
;
hsa-mir-548ax
;
hsa-mir-548ao-5p
;
hsa-mir-6513-5p
;
hsa-mir-887-5p
;
hsa-mir-3913-5p
;
hsa-mir-3122
;
hsa-mir-450a-1-3p
;
hsa-mir-6780a-5p
;
hsa-mir-6779-5p
;
hsa-mir-3689c
;
hsa-mir-3689b-3p
;
hsa-mir-3689a-3p
;
hsa-mir-30b-3p
;
hsa-mir-1273h-5p
;
hsa-mir-6788-5p
;
hsa-mir-30c-2-3p
;
hsa-mir-30c-1-3p
;
hsa-mir-7977
;
hsa-mir-6799-5p
;
hsa-mir-6883-5p
;
hsa-mir-6785-5p
;
hsa-mir-4728-5p
;
hsa-mir-149-3p
;
hsa-mir-7106-5p
;
hsa-mir-4736
;
hsa-mir-3665
;
hsa-mir-383-3p
;
hsa-mir-3922-5p
;
hsa-mir-940
;
hsa-mir-6893-5p
;
hsa-mir-6808-5p
;
hsa-mir-3714
;
hsa-mir-24-3p
;
hsa-mir-4284
;
hsa-mir-5693
;
hsa-mir-4683
;
hsa-mir-4786-5p
;
hsa-mir-4738-3p
;
hsa-mir-664a-5p
;
hsa-mir-4794
;
hsa-mir-8073
;
hsa-mir-221-5p
;
hsa-mir-6827-3p
;
hsa-mir-340-3p
;
hsa-mir-4793-5p
;
hsa-mir-4433a-3p
;
hsa-mir-4459
;
hsa-mir-4768-3p
;
hsa-mir-6888-5p
;
hsa-mir-6502-3p
;
hsa-mir-433-5p
;
hsa-mir-1199-5p
;
hsa-mir-340-5p
;
hsa-mir-3936
;
hsa-mir-4303
;
hsa-mir-4444
;
hsa-mir-615-5p
;
hsa-mir-6751-3p
;
hsa-mir-6807-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/18367; hsa-mir-1-1/Downstream/3435670;
Nearest TSS
ENST00000382410/Upstream/6716;
ENST00000493223/Downstream/38449;
Nearest CpG islands
None/Target,
chr20-CpG: 39/Upstream/46015
,
chr20-CpG: 105/Downstream/78988
Upstream sequence
AAGTATCAGTAAGGTTTGGCAAACAGCCGTGGTATCAGAATCCAAACAGGTAATTAAAACAGATTTATTTCTGTCTTATGTGCCCATAGTAAAAACTGCT
Downstream sequence
CTCCTTTCTCCCTACTTGCTTCCCTGTCCATTCCCAAGGatcctggttcaggccatcaccatttctagcctggactgttgatggctttgctgttactagt
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
Sample Information
×
Sample name
P170D
Sample type
Nontumor
Gender
Female
CpG Island Information
×
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