VISDB Viral Integration Site DataBase

VIS ID

TVIS20004079

Fusion event

HPV-RUNX1 integration

Validated

No

Detection method

RNA-Seq

Data source

Curated

Sample type

Disease

Head and neck squamous cell carcinoma (HNSCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HPV

Subtype

HPV33

Reference genome

Not given

Gene

E2

Start

1933

Chromosome

chr21

Cytoband

q22.12

Reference genome

Start

End

36470866/35098569 (Hg38)

Location type

Intron7

Target gene

miRNAs that regulate target gene

hsa-mir-27a-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-106a-5p ; hsa-mir-423-5p ; hsa-mir-675-5p ; hsa-mir-8485 ; hsa-mir-221-3p ; hsa-mir-7111-3p ; hsa-mir-4792 ; hsa-mir-6721-5p ; hsa-mir-6860 ; hsa-mir-612 ; hsa-mir-5189-5p ; hsa-mir-3187-5p ; hsa-mir-1285-3p ; hsa-mir-939-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-6791-5p ; hsa-mir-4292 ; hsa-mir-4308 ; hsa-mir-4762-5p ; hsa-mir-605-5p ; hsa-mir-551b-5p ; hsa-mir-4417 ; hsa-mir-4467 ; hsa-mir-6853-5p ; hsa-mir-8072 ; hsa-mir-4530 ; hsa-mir-3960 ; hsa-mir-922 ; hsa-mir-4789-3p ; hsa-mir-335-3p ; hsa-mir-5096 ; hsa-mir-377-3p ; hsa-mir-6885-3p ; hsa-mir-4446-5p ; hsa-mir-7152-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-3180-5p ; hsa-mir-4639-5p ; hsa-mir-4497 ; hsa-mir-642a-5p ; hsa-mir-513a-5p ; hsa-mir-3160-5p ; hsa-mir-1266-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-141-5p ; hsa-mir-2115-3p ; hsa-mir-1179 ; hsa-mir-27b-3p ; hsa-mir-128-3p ; hsa-mir-216a-3p ; hsa-mir-3681-3p ; hsa-mir-18a-5p ; hsa-mir-215-5p ; hsa-mir-9-5p ; hsa-mir-101-3p ; hsa-mir-144-5p ; hsa-mir-181a-5p ; hsa-mir-378a-3p

Nearest miRNA

hsa-let-7c/Upstream/1547841; hsa-mir-3197/Downstream/622146;

Nearest TSS

Nearest CpG islands

None/Target, chr21-CpG: 261/Upstream/71607, chr21-CpG: 42/Downstream/788324

Nearest cancer related gene

RUNX1(OG, No orient, 0)

Upstream sequence

GTAATTATACAAGTTATATTTTATCCAAGTTTATATCCATCAATTTTTATCTAAGTTTATATCCATCAGGTACATCaaaataaaaatattttaattaCCT

Downstream sequence

CTTGAAATAATTTGTCCAAGTCAATAAGTGGCATGAATTACATCACTGAGGCCATAACAAGGATACACAAACATGGCAGAATCACACAGATTGTTTGTCT