VISDB - VIS Detail

Basic Information

VIS ID

TVIS20002728

Fusion event

HPV-VMP1 integration

Validated

Detection method

HIVID

Data source

Curated

Sample type

Tumor

Disease

Not given

Quality evaluation

Normal

Reported year

2015

PubMed ID

25581428

Virus Sequence

Virus name

HPV

Subtype

HPV16

Reference genome

NC_001526.2

Host Sequence

Chromosome

chr17

Cytoband

q23.1

Reference genome

GRCh37/hg19

Start

57917005/59839644 (Hg38)

End

57917005/59839644 (Hg38)

Location type

Intronic

Target gene

VMP1

miRNAs that regulate target gene

hsa-mir-210-3p ; hsa-mir-1-3p ; hsa-mir-16-5p ; hsa-mir-296-3p ; hsa-mir-25-3p ; hsa-mir-4776-3p ; hsa-mir-744-3p ; hsa-mir-4659b-5p ; hsa-mir-4659a-5p ; hsa-mir-5590-5p ; hsa-mir-7159-5p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-4694-5p ; hsa-mir-5186 ; hsa-mir-7978 ; hsa-mir-181a-3p ; hsa-mir-5685 ; hsa-mir-4690-3p ; hsa-mir-1324 ; hsa-mir-4709-5p ; hsa-mir-4272 ; hsa-mir-6856-3p ; hsa-mir-513b-3p ; hsa-mir-505-3p ; hsa-mir-421 ; hsa-mir-3161 ; hsa-mir-622 ; hsa-mir-4761-5p ; hsa-mir-624-3p ; hsa-mir-132-3p ; hsa-mir-212-3p ; hsa-mir-4482-3p ; hsa-mir-7159-3p ; hsa-mir-138-2-3p ; hsa-mir-4282 ; hsa-mir-4698 ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-555 ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-6845-3p ; hsa-mir-3925-3p ; hsa-mir-766-3p ; hsa-mir-5680 ; hsa-mir-4506 ; hsa-mir-150-3p

Nearest miRNA

hsa-mir-10226/Upstream/473490; hsa-mir-1250/Downstream/1622;

Nearest TSS

ENST00000595228/Upstream/1693; ENST00000477179/Downstream/39118;

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/131897, chr17-CpG: 73/Downstream/53037

Upstream sequence

ttcaggtttgaaacactctttttgtaggatctgcaagtggatatttggaccactctttggccttccttcgaaacgggtacatcttcaaataaaatctaga

Downstream sequence

CTTTTCATTTTTAATTCTTTAGGTTTTGTAAGTTACACACTTCAAGCATTATAGATGATCCTCTTTTTACTACTGAACTAATGAAGCCTTTTTCATTGCA

Reference

Hu, Z., et al. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism. Nat Genet,2015, 47(2): 158-163.