VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10000104

Fusion event

HBV-MRPL44 integration

Validated

Yes

Detection method

invPCR

Data source

Curated

Sample type

Cell line

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Perfect

Reported year

2018

PubMed ID

29437961

Virus Sequence

Virus name

HBV

Reference genome

U95551.1

End

1808

Integrated sequence

TTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCAC| |CAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGAC

Host Sequence

Chromosome

chr2

Cytoband

q36.1

Reference genome

GRCh38.p7

Start

223964261 (Hg38)

End

223964261 (Hg38)

Orient

-

Location type

Intronic

Target gene

MRPL44

miRNAs that regulate target gene

hsa-mir-128-3p ; hsa-mir-101-3p ; hsa-mir-607 ; hsa-mir-6868-3p ; hsa-mir-452-3p ; hsa-mir-205-5p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-3973 ; hsa-mir-1237-5p ; hsa-mir-1294 ; hsa-mir-149-3p ; hsa-mir-1908-5p ; hsa-mir-3180-3p ; hsa-mir-3180 ; hsa-mir-3196 ; hsa-mir-328-5p ; hsa-mir-3689d ; hsa-mir-377-5p ; hsa-mir-4271 ; hsa-mir-4316 ; hsa-mir-4321 ; hsa-mir-4488 ; hsa-mir-4537 ; hsa-mir-455-3p ; hsa-mir-4677-3p ; hsa-mir-4697-5p ; hsa-mir-4706 ; hsa-mir-4716-3p ; hsa-mir-4725-3p ; hsa-mir-4728-5p ; hsa-mir-4749-5p ; hsa-mir-4781-5p ; hsa-mir-6086 ; hsa-mir-6134 ; hsa-mir-625-5p ; hsa-mir-6499-3p ; hsa-mir-649 ; hsa-mir-6516-5p ; hsa-mir-663a ; hsa-mir-6777-5p ; hsa-mir-6780b-5p ; hsa-mir-6785-5p ; hsa-mir-6787-5p ; hsa-mir-6794-5p ; hsa-mir-6816-5p ; hsa-mir-6825-5p ; hsa-mir-6851-5p ; hsa-mir-6880-5p ; hsa-mir-6883-5p ; hsa-mir-6885-5p ; hsa-mir-6889-5p ; hsa-mir-7847-3p ; hsa-mir-7854-3p

Nearest miRNA

hsa-mir-10b/Upstream/4057696; hsa-mir-1244-1/Downstream/1046200;

Nearest TSS

ENST00000437798/Upstream/6857; ENST00000620050/Downstream/3445;

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/6403, chr2-CpG: 154/Downstream/74243

Downstream sequence

GAGGCTGTAGGCATAAATTGGTCTGCGCAC

Junction sequence

CACGAACAAGTCAACATTTGTACTTCTACAGAGGCTGTAGGCATAAATTGGTCTGCGCAC

* Color: Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence

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).