VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10007483

Fusion event

HBV-FOXP2 integration

Validated

No

Detection method

NGS

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

30271481

Virus Sequence

Virus name

HBV

Reference genome

NC_003977

Region type

Polymerase|large S protein|

Start

3154

Orient

-

Integrated sequence

AGGCTCAGGGCATACTACAAACTTTGCCAGCAAATCCGCCTCCTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAG| |AAACACTCATCCTCAGGCCATGCAGTGG

Host Sequence

Chromosome

chr7

Cytoband

q31.1

Reference genome

GRCh37/hg19

Start

114228831/114588776 (Hg38)

End

114228831/114588776 (Hg38)

Orient

+

Location type

Intronic

Target gene

FOXP2

miRNAs that regulate target gene

hsa-mir-95-5p ; hsa-mir-3613-3p ; hsa-mir-548p ; hsa-mir-4422 ; hsa-mir-6835-3p ; hsa-mir-190a-5p ; hsa-mir-1273h-3p ; hsa-mir-129-5p ; hsa-mir-2467-3p ; hsa-mir-3678-3p ; hsa-mir-3680-3p ; hsa-mir-450b-5p ; hsa-mir-507 ; hsa-mir-557 ; hsa-mir-6516-5p

Nearest miRNA

hsa-mir-10525/Upstream/12117245; hsa-mir-10399/Downstream/64569;

Nearest TSS

ENST00000635602/Upstream/162261; ENST00000638397/Downstream/41078;

Nearest CpG islands

None/Target, chr7-CpG: 39/Upstream/501036, chr7-CpG: 61/Downstream/333339

Upstream sequence

AAGTAGGAGTGTTAACAAGTTTTAAGGGAAATACCAATAAAGAATTaaaaaagaaactgtttcaattccaaagtaggcaggaaagaaaaaacaggcaaag

Downstream sequence

TAAACTAAACCAGAGCAATGTCTTCTTCCTGCCAACTAACTGATTGCTTCCACTGATTTCCTGCAGCATTTATTATGTGAAAAATACtgcttctatttct

Reference

Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.