VISDB Viral Integration Site DataBase

VIS ID

TVIS20004269

Fusion event

HPV-ETS2 integration

Validated

Yes

Detection method

WGS, RNA-seq, Whole-Exome sequencing, PCR

Data source

Curated

Sample type

Disease

Head and neck squamous cell carcinoma (HNSCC)

Quality evaluation

Perfect

Reported year

2014

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Gene

L2-L1

Start

5572

Integrated sequence

GGTCCTGATATACCCATTAATATAACTGACCAAGCTCCTTCATTAATTCCTATAGTTCCAGGGTCTCCACAATATACAATTATTGCTGATGCAGGTGACT| |TTTATTTACATCCTAGTTATTACATGTTACGAAAACGACGTAAACGTTTACCATATTTTTTTTCAGATGTCTCTTTGGCTGCCTAGTGAGGCCACTGTCT

Chromosome

chr21

Cytoband

q22.2

Reference genome

Start

End

40187057/38815133 (Hg38)

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-199a-3p ; hsa-mir-199a-5p ; hsa-mir-218-5p ; hsa-mir-877-5p ; hsa-mir-149-5p ; hsa-mir-18a-5p ; hsa-mir-196b-5p ; hsa-mir-455-5p ; hsa-mir-548t-3p ; hsa-mir-3646 ; hsa-mir-3662 ; hsa-mir-548aa ; hsa-mir-548ap-3p ; hsa-mir-548as-3p ; hsa-mir-548at-3p ; hsa-mir-548ay-3p ; hsa-mir-587 ; hsa-mir-1468-3p ; hsa-mir-548f-5p ; hsa-mir-548g-5p ; hsa-mir-548x-5p ; hsa-mir-548aj-5p ; hsa-mir-548aw ; hsa-mir-410-3p ; hsa-mir-582-5p ; hsa-mir-944 ; hsa-mir-607 ; hsa-mir-3671 ; hsa-mir-190a-3p ; hsa-mir-205-3p ; hsa-mir-338-5p

Nearest miRNA

hsa-let-7c/Upstream/3094325; hsa-mir-3197/Downstream/631877;

Nearest TSS

Nearest CpG islands

None/Target, chr21-CpG: 261/Upstream/8390, chr21-CpG: 21/Downstream/7587

Nearest cancer related gene

ETS2(TSG, No orient, 0)

Junction sequence