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VISDB
Viral Integration Site DataBase
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TVIS10017889
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017889
Fusion event
HBV-RABGAP1L integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26867494
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
DQ089769.1
Region type
core protein;X protein;
Start
1824
Integrated sequence
AAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTGGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTT| |TCACCTCTGCCTAATCATCTCATGTTCATGTCCCACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAA
Host Sequence
Chromosome
chr1
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
174586709/174617571 (Hg38)
End
174586709/174617571 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1G
Target gene
RABGAP1L
miRNAs that regulate target gene
hsa-mir-1-3p
;
hsa-mir-4504
;
hsa-mir-4778-3p
;
hsa-mir-676-5p
;
hsa-mir-4714-3p
;
hsa-mir-34c-3p
;
hsa-mir-7161-3p
;
hsa-mir-3156-5p
;
hsa-mir-6848-3p
;
hsa-mir-6843-3p
;
hsa-mir-3187-3p
;
hsa-mir-4435
;
hsa-mir-588
;
hsa-mir-4701-5p
;
hsa-mir-548s
;
hsa-mir-378a-5p
;
hsa-mir-6802-5p
;
hsa-mir-6800-5p
;
hsa-mir-6131
;
hsa-mir-4755-3p
;
hsa-mir-6759-3p
;
hsa-mir-3663-5p
;
hsa-mir-3653-5p
;
hsa-mir-372-5p
;
hsa-mir-371a-5p
;
hsa-mir-616-5p
;
hsa-mir-373-5p
;
hsa-mir-371b-5p
;
hsa-mir-4781-3p
;
hsa-mir-5089-5p
;
hsa-mir-6807-5p
;
hsa-mir-5589-5p
;
hsa-mir-4731-5p
;
hsa-mir-6778-3p
;
hsa-mir-6506-5p
;
hsa-mir-619-5p
;
hsa-mir-150-5p
;
hsa-mir-1224-3p
;
hsa-mir-186-3p
;
hsa-mir-520h
;
hsa-mir-520g-3p
;
hsa-mir-6504-3p
;
hsa-mir-512-3p
;
hsa-mir-576-3p
;
hsa-mir-520e
;
hsa-mir-520d-3p
;
hsa-mir-520c-3p
;
hsa-mir-520b
;
hsa-mir-520a-3p
;
hsa-mir-373-3p
;
hsa-mir-372-3p
;
hsa-mir-302e
;
hsa-mir-302d-3p
;
hsa-mir-302c-3p
;
hsa-mir-302b-3p
;
hsa-mir-302a-3p
;
hsa-mir-93-5p
;
hsa-mir-526b-3p
;
hsa-mir-519d-3p
;
hsa-mir-20b-5p
;
hsa-mir-20a-5p
;
hsa-mir-17-5p
;
hsa-mir-106b-5p
;
hsa-mir-106a-5p
;
hsa-mir-1297
;
hsa-mir-1343-3p
;
hsa-mir-1976
;
hsa-mir-23a-5p
;
hsa-mir-23b-5p
;
hsa-mir-26a-5p
;
hsa-mir-26b-5p
;
hsa-mir-4279
;
hsa-mir-4465
;
hsa-mir-4722-3p
;
hsa-mir-4740-3p
;
hsa-mir-6513-3p
;
hsa-mir-660-3p
;
hsa-mir-6727-3p
;
hsa-mir-6742-3p
;
hsa-mir-6747-3p
;
hsa-mir-6783-3p
;
hsa-mir-6791-3p
;
hsa-mir-6829-3p
;
hsa-mir-6836-3p
;
hsa-mir-6852-5p
;
hsa-mir-8062
;
hsa-mir-939-3p
Nearest miRNA
hsa-mir-101-1/Upstream/2472927; hsa-mir-1182/Downstream/1350799;
Nearest TSS
ENST00000473358/Upstream/169460;
ENST00000474375/Downstream/19807;
Nearest CpG islands
None/Target,
chr1-CpG: 111/Upstream/457662
,
chr1-CpG: 121/Downstream/381782
Upstream sequence
TGAGAGTAAAAACAGACCACATGCAAACTGATCCTTCTTTTTCCCTTCCTCCTTACGCCCTAGGAAATGTTCTGTGAAGGTCAAGTGTGCAAACAGACAT
Downstream sequence
TCCAGAGAGCCTGATCCACATCCAGCAGCAGAGCCCACTTGTGGCTGCAGCTTTATGCCAAATTATATTGCAGACTGAACAGACGTTTATCTATCCCATT
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.
Sample Information
×
Sample name
105NT
Sample type
Nontumor
Gender
Female
CpG Island Information
×
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