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VISDB
Viral Integration Site DataBase
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TVIS10019637
Proximate region of VIS (GRCh38)
VIS
Enhancer
Enhancer/Promoter
Promoter
Gene
60539266
58969038
60522120
59743254
59747300
59708413
59711962
59750737
59752176
59722715
59723891
59707284
59708004
59749787
59750106
59708075
59708344
59754152
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019637
Fusion event
HBV-PDE4D integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28622513
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1813
Integrated sequence
AGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCA| |CCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGA
Host Sequence
Chromosome
chr5
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
59049978/59754152 (Hg38)
End
59049978/59754152 (Hg38)
Location type
Intron14
Fragile sites / regions
FRA5H
Target gene
PDE4D
miRNAs that regulate target gene
hsa-mir-335-5p
;
hsa-mir-340-5p
;
hsa-mir-7-5p
;
hsa-mir-103a-3p
;
hsa-mir-19b-3p
;
hsa-mir-18a-5p
;
hsa-mir-16-5p
;
hsa-mir-3148
;
hsa-mir-4668-5p
;
hsa-mir-4457
;
hsa-mir-5590-3p
;
hsa-mir-142-5p
;
hsa-mir-6783-5p
;
hsa-mir-6838-5p
;
hsa-mir-497-5p
;
hsa-mir-424-5p
;
hsa-mir-195-5p
;
hsa-mir-15b-5p
;
hsa-mir-15a-5p
;
hsa-mir-6835-3p
;
hsa-mir-548z
;
hsa-mir-548h-3p
;
hsa-mir-548d-3p
;
hsa-mir-548bb-3p
;
hsa-mir-7158-3p
;
hsa-mir-548ac
;
hsa-mir-31-3p
;
hsa-mir-302f
;
hsa-mir-4760-3p
;
hsa-mir-4282
;
hsa-mir-18b-5p
;
hsa-mir-4735-3p
;
hsa-mir-4439
;
hsa-mir-3136-5p
;
hsa-mir-6857-3p
;
hsa-mir-6855-3p
;
hsa-mir-4513
;
hsa-mir-4502
;
hsa-mir-4682
;
hsa-mir-1324
;
hsa-mir-4422
;
hsa-mir-3611
;
hsa-mir-4325
;
hsa-mir-4266
;
hsa-mir-642b-3p
;
hsa-mir-642a-3p
;
hsa-mir-6080
;
hsa-mir-6888-5p
;
hsa-mir-3120-3p
;
hsa-mir-3646
;
hsa-mir-424-3p
;
hsa-mir-199a-5p
;
hsa-mir-139-5p
Nearest miRNA
hsa-mir-10397/Upstream/50449; hsa-mir-103a-1/Downstream/12415315;
Nearest TSS
ENST00000502646/Upstream/167653;
ENST00000502993/Downstream/14357;
Nearest CpG islands
None/Target,
chr5-CpG: 87/Upstream/714098
,
chr5-CpG: 47/Downstream/139067
Upstream sequence
ATTTATCAACTAGGCTTGCTGGGAACTCACCAGAGGAAATTACAGAGGACTACAGCATGAAAGACTGAAGTCAGACTGGAAACAGACTTCCAGGCAATCA
Downstream sequence
aaccccctctctaccaaaaatataaaaattaggcgggtatggtgttgcatgcctgtaatcctagctactcaggaggctgaggcaggagaattgcttgaac
Reference
Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13
Sample Information
×
Sample name
TCGA-DD-A116-11A
Sample type
Nontumor
Age
68
Gender
Male
CpG Island Information
×
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