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VISDB
Viral Integration Site DataBase
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TVIS10003308
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003308
Fusion event
HBV-RAP1A integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27703150
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr1
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
112258402/111715780 (Hg38)
End
112258402/111715780 (Hg38)
Location type
Intronic
Target gene
RAP1A
miRNAs that regulate target gene
hsa-mir-337-3p
;
hsa-let-7e-5p
;
hsa-mir-3591-5p
;
hsa-mir-1273e
;
hsa-mir-4473
;
hsa-mir-4671-3p
;
hsa-mir-636
;
hsa-mir-135a-3p
;
hsa-mir-302c-3p
;
hsa-mir-512-3p
;
hsa-mir-520f-3p
;
hsa-mir-4470
;
hsa-mir-759
;
hsa-mir-4761-5p
;
hsa-mir-5000-5p
;
hsa-mir-4735-3p
;
hsa-mir-18b-5p
;
hsa-mir-18a-5p
;
hsa-mir-551b-5p
;
hsa-mir-4799-5p
;
hsa-mir-8059
;
hsa-mir-4471
;
hsa-mir-6837-3p
;
hsa-mir-6754-3p
;
hsa-mir-412-3p
;
hsa-mir-6715a-3p
;
hsa-mir-5692c
;
hsa-mir-5692b
;
hsa-mir-6822-5p
;
hsa-mir-6750-5p
;
hsa-mir-1277-5p
;
hsa-mir-10a-3p
;
hsa-mir-19a-3p
;
hsa-mir-19b-3p
;
hsa-mir-203a-3p
;
hsa-mir-203a-5p
;
hsa-mir-1268a
;
hsa-mir-1268b
;
hsa-mir-1272
;
hsa-mir-340-3p
;
hsa-mir-4486
;
hsa-mir-4684-5p
;
hsa-mir-548c-3p
;
hsa-mir-585-3p
;
hsa-mir-6771-3p
;
hsa-mir-6827-3p
Nearest miRNA
hsa-mir-101-1/Upstream/2116813; hsa-mir-11399/Downstream/745990;
Nearest TSS
ENST00000473358/Upstream/88311;
ENST00000524894/Downstream/23473;
Nearest CpG islands
None/Target,
chr1-CpG: 111/Upstream/95565
,
chr1-CpG: 163/Downstream/22650
Nearby gene
RAP1A
(-2301) ;
INKA2
(+6284) ;
Nearest cancer related gene
RAP1A
(OG, No orient, 0)
Upstream sequence
CTCCTCACTGAAATATTCTTCTTCTTTGAGGTTATAATGTACTTGGAAAAGTTAATACTTATAGAAAATAATGATCTTTATTACCAACTTTATTAAAACA
Downstream sequence
GGCTTGGAACATTTTTCTCCATAGAAGAATAGTAATAAGACATTCTACatttcctggacatggccagtttaaaatattttgccccattacccttgtagat
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Sample Information
×
Sample name
085411T
Sample type
Tumor
Gender
Female
CpG Island Information
×
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