VISDB - VIS Detail

Basic Information

VIS ID

TVIS20001126

Fusion event

HPV-PPFIBP1 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

Reference genome

NC_001526.2;HQ537777.1

Host Sequence

Chromosome

chr12

Cytoband

p11.22

Reference genome

GRCh37/hg19

Start

27804742/27651809 (Hg38)

End

27804742/27651809 (Hg38)

Location type

Intronic

Target gene

PPFIBP1

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-155-5p ; hsa-mir-6818-3p ; hsa-mir-548aw ; hsa-mir-4684-5p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-6732-3p ; hsa-mir-548c-3p ; hsa-mir-125b-2-3p ; hsa-mir-1273h-5p ; hsa-mir-1288-5p ; hsa-mir-149-3p ; hsa-mir-196a-3p ; hsa-mir-30b-3p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3122 ; hsa-mir-3197 ; hsa-mir-340-3p ; hsa-mir-3613-3p ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-371a-5p ; hsa-mir-371b-5p ; hsa-mir-372-5p ; hsa-mir-373-5p ; hsa-mir-3913-5p ; hsa-mir-3929 ; hsa-mir-3974 ; hsa-mir-4419b ; hsa-mir-4432 ; hsa-mir-4433a-3p ; hsa-mir-4444 ; hsa-mir-4457 ; hsa-mir-4459 ; hsa-mir-4478 ; hsa-mir-450a-1-3p ; hsa-mir-451b ; hsa-mir-4649-3p ; hsa-mir-4696 ; hsa-mir-4728-5p ; hsa-mir-4768-3p ; hsa-mir-485-5p ; hsa-mir-513b-5p ; hsa-mir-6087 ; hsa-mir-616-5p ; hsa-mir-624-3p ; hsa-mir-6501-3p ; hsa-mir-6513-5p ; hsa-mir-665 ; hsa-mir-6765-5p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6785-5p ; hsa-mir-6788-5p ; hsa-mir-6799-5p ; hsa-mir-6827-3p ; hsa-mir-6883-5p ; hsa-mir-6884-5p ; hsa-mir-7106-5p ; hsa-mir-7112-5p ; hsa-mir-7160-5p ; hsa-mir-887-5p

Nearest miRNA

hsa-mir-1244-3/Upstream/1777730; hsa-let-7i/Downstream/14671891;

Nearest TSS

ENST00000382841/Upstream/52461; ENST00000534917/Downstream/2577;

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/318066, chr12-CpG: 39/Downstream/58891

Upstream sequence

TTTTTAATACCTTGTGGTCTGATTATGTTTTCTTATTGTTAAAGGTTTCGGCATTTTCATTAGCAAACAACATTGACtattatataaaataaataaattG

Downstream sequence

TAGGACATTAAAGGATTTGATTCCTTTCACTCAGTTTTGAGGTCACACTACTGAGCTTAGTTGTAATTAGTTGTAAATCACTTTTGTCAAATTAGATGTA

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.