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VISDB
Viral Integration Site DataBase
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TVIS10006052
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006052
Fusion event
HBV-KMT2B integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1897
Orient
+
Integrated sequence
TCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGG| |GGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCCTCGACA
Host Sequence
Chromosome
chr19
Cytoband
q13.12
Reference genome
GRCh37/hg19
Start
36213863/35722961 (Hg38)
End
36213863/35722961 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
FRA19A
Target gene
KMT2B
miRNAs that regulate target gene
hsa-mir-7515
;
hsa-mir-302a-5p
;
hsa-mir-3154
;
hsa-mir-6782-3p
;
hsa-mir-519c-3p
;
hsa-mir-519b-3p
;
hsa-mir-519a-3p
;
hsa-mir-5692a
;
hsa-mir-548t-5p
;
hsa-mir-548az-5p
;
hsa-mir-526b-3p
;
hsa-mir-519d-3p
;
hsa-mir-93-5p
;
hsa-mir-20a-5p
;
hsa-mir-17-5p
;
hsa-mir-106b-5p
;
hsa-mir-106a-5p
;
hsa-mir-20b-5p
;
hsa-mir-153-3p
;
hsa-mir-1224-3p
;
hsa-mir-1294
;
hsa-mir-1914-3p
;
hsa-mir-214-3p
;
hsa-mir-31-5p
;
hsa-mir-3184-5p
;
hsa-mir-3619-5p
;
hsa-mir-3689d
;
hsa-mir-423-5p
;
hsa-mir-4316
;
hsa-mir-4426
;
hsa-mir-4440
;
hsa-mir-4459
;
hsa-mir-4647
;
hsa-mir-4662b
;
hsa-mir-4688
;
hsa-mir-4722-5p
;
hsa-mir-5194
;
hsa-mir-6085
;
hsa-mir-6165
;
hsa-mir-6734-5p
;
hsa-mir-6738-5p
;
hsa-mir-6743-5p
;
hsa-mir-6789-5p
;
hsa-mir-6813-5p
;
hsa-mir-6851-5p
;
hsa-mir-761
;
hsa-mir-7704
;
hsa-mir-885-3p
Nearest miRNA
hsa-mir-10395/Upstream/377334; hsa-let-7e/Downstream/3686662;
Nearest TSS
ENST00000633603/Upstream/2059;
ENST00000592092/Downstream/10297;
Nearest CpG islands
None/Target,
chr19-CpG: 112/Upstream/2937
,
chr19-CpG: 24/Downstream/765
Upstream sequence
GCAACTTCATTTGGGGGCACCAGGAACCTGGCGCTGTGAGAAAGCGAGAGCCAGGTTGTGGGAAAGCAGGGAAGTGAGGTAGAAGCCTGGTGGCTTTGTG
Downstream sequence
GCTCCATCCCCTCCTCCCTGCCTGCTGCAATAGATACATCATCGGCGTCCGAGACTGAGAGTGTCCCGTCACGGTCCCGGCGGGGAAAGGTGGAGGCAGC
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
Sample Information
×
Sample name
RK188_NT
Sample type
Nontumor
Age
54
Gender
Male
CpG Island Information
×
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