VISDB Viral Integration Site DataBase

VIS ID

TVIS20004189

Fusion event

HPV-BAG4 integration

Validated

Yes

Detection method

APOT and sequencing

Data source

Curated

Sample type

Disease

Cervical carcinoma (CC)

Quality evaluation

Good

Reported year

2018

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Strand

-

Gene

L2

Start

4174

End

4363

Orient

-

Integrated sequence

TCATATATATTTTTTTTTTGTTTGTTTGTTTGTTTTTTAATAAACTGTTATCACTTAACAATGCGACACAAACGTTCTGCAAAACGCACAAAACGTGCATCGGCTACCCAACTTTATAAAACATGCAAACAGGCAGGTACATGTCCACCTGACATTATACCTAAGGTTGAAGGCAAAACTATTGCTGATC

Chromosome

chr8

Cytoband

p11.23

Reference genome

Start

End

38059439/38201921 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-96-5p ; hsa-mir-183-5p ; hsa-mir-26a-5p ; hsa-mir-452-5p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-646 ; hsa-mir-3653-3p ; hsa-mir-3674 ; hsa-mir-3935 ; hsa-mir-4490 ; hsa-mir-6838-5p ; hsa-mir-369-3p ; hsa-mir-625-3p ; hsa-mir-3123 ; hsa-mir-3925-5p ; hsa-mir-6832-5p ; hsa-mir-8084 ; hsa-mir-3606-5p ; hsa-mir-3942-5p ; hsa-mir-4703-5p ; hsa-mir-653-5p ; hsa-mir-466 ; hsa-mir-4274 ; hsa-mir-3941 ; hsa-mir-4643 ; hsa-mir-4672 ; hsa-mir-4704-3p ; hsa-mir-548ao-5p ; hsa-mir-5585-5p ; hsa-mir-548ax ; hsa-mir-8060 ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-548av-3p ; hsa-mir-590-3p ; hsa-mir-570-3p ; hsa-mir-4803 ; hsa-mir-133a-5p ; hsa-mir-370-3p ; hsa-mir-1976 ; hsa-mir-3692-5p ; hsa-mir-6893-3p ; hsa-mir-429 ; hsa-mir-200c-3p ; hsa-mir-200b-3p ; hsa-mir-548g-3p ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-let-7c-3p ; hsa-mir-488-3p ; hsa-mir-4781-3p ; hsa-mir-4789-3p ; hsa-mir-376a-2-5p ; hsa-mir-138-5p ; hsa-mir-6131 ; hsa-mir-7151-5p ; hsa-mir-921 ; hsa-mir-545-5p ; hsa-mir-8080 ; hsa-mir-7161-5p ; hsa-mir-548u ; hsa-mir-6818-3p ; hsa-mir-8068 ; hsa-mir-1266-3p ; hsa-mir-4793-5p ; hsa-mir-4776-3p ; hsa-mir-6875-3p ; hsa-mir-5006-5p ; hsa-mir-3972 ; hsa-mir-1202 ; hsa-mir-3121-5p ; hsa-mir-1-3p

Nearest miRNA

hsa-mir-124-1/Upstream/8244524; hsa-mir-10400/Downstream/3069127;

Nearest TSS

Nearest CpG islands

None/Target, chr8-CpG: 109/Upstream/24747, chr8-CpG: 118/Downstream/29296

Nearby gene

PLPP5(-61210) ; LSM1(+25142) ;

Upstream sequence

CCCGTGTCCCATCTCCTCCCCTGGACCCCCTTCCATGGTGTGACCAGATCAGCCTTGGGGCCGAATGAGAGCCACATCATTCTTGCCATTCATCGAGCGT

Downstream sequence

ATGTTGCTAAGGTGTCTGACCAATCTTCCAAGTTGATTAGCCTGCCATGTGCCAGGTGCAGTTTATGTGCTATGCAAGTATTAGGGCAGCATTTGAACTA

Target sequence

tatatatatttttttttttttttttttttttttttttAAGAAGCTGTTA