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VISDB
Viral Integration Site DataBase
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TVIS10015134
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015134
Fusion event
HBV-RAI1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
HBVgp1 Polymerase;HBVgp2 pre-S2/S;HBVgp2
Start
775
Orient
-
Integrated sequence
AGTTTACTAGTGCCATTTGTTCAGTGGTTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACA| |GCATCTTGAGTCCCTTTTTACCGCTGTTACCAATTTTCTTTTGTCTTTGGGTATACATTTAAACCCTAACAAAACAAAGAGATGGGGTTACTCTCTAAAT
Host Sequence
Chromosome
chr17
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
17634877/17731563 (Hg38)
End
17634877/17731563 (Hg38)
Orient
+
Location type
Intronic
Target gene
RAI1
miRNAs that regulate target gene
hsa-mir-744-5p
;
hsa-mir-769-3p
;
hsa-mir-504-5p
;
hsa-let-7b-5p
;
hsa-mir-3687
;
hsa-mir-190a-3p
;
hsa-mir-374a-5p
;
hsa-mir-4704-5p
;
hsa-mir-4789-5p
;
hsa-mir-5007-3p
;
hsa-mir-5011-5p
;
hsa-mir-7150
;
hsa-mir-8052
;
hsa-mir-3199
;
hsa-mir-4736
;
hsa-mir-4763-3p
;
hsa-mir-1207-5p
;
hsa-mir-4515
;
hsa-mir-184
;
hsa-mir-5004-5p
;
hsa-mir-6868-5p
;
hsa-mir-4462
;
hsa-mir-211-3p
;
hsa-mir-3937
;
hsa-mir-1197
;
hsa-mir-3924
;
hsa-mir-656-3p
;
hsa-mir-5580-3p
;
hsa-mir-6749-3p
;
hsa-mir-4303
;
hsa-mir-128-2-5p
;
hsa-mir-128-1-5p
;
hsa-mir-6751-3p
;
hsa-mir-1199-5p
;
hsa-mir-150-5p
;
hsa-mir-4532
;
hsa-mir-6784-5p
;
hsa-mir-106a-3p
;
hsa-mir-1225-3p
;
hsa-mir-1233-3p
;
hsa-mir-2681-5p
;
hsa-mir-4427
;
hsa-mir-452-5p
;
hsa-mir-4676-3p
;
hsa-mir-4680-3p
;
hsa-mir-4762-3p
;
hsa-mir-5187-3p
;
hsa-mir-892c-3p
;
hsa-mir-943
Nearest miRNA
hsa-mir-1253/Upstream/1449475; hsa-mir-10226/Downstream/81917;
Nearest TSS
ENST00000595228/Upstream/49068;
ENST00000395774/Downstream/39258;
Nearest CpG islands
None/Target,
chr17-CpG: 26/Upstream/6377
,
chr17-CpG: 38/Downstream/20581
Upstream sequence
CTGAGGCCAAAAAGGAGTCTGGGCCTTGACTGCTTGAAGGGTTTTATCTTGAAGGCAGTGGGAAAAGATGGGTGCTCTGGGCAGTGAGCACCGCTGGAGC
Downstream sequence
AAAGTCTCGGCAGTGGGAACACACAGGGACAATGAGGAGAGGCTTAAGAGGATCAGAAGAGGACCCAGGTGGGGCCTCAGTTTCCTCCCTGAGAACTCCT
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
Sample Information
×
Sample name
274T
Sample type
Tumor
Gender
Female
CpG Island Information
×
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