VISDB - VIS Detail

Basic Information

VIS ID

TVIS30008830

Fusion event

HIV-PPIP5K2 integration

Validated

Detection method

QiaQuick PCR and Sequencing

Data source

download(RID)

Sample type

Cell line

Disease

HIV-infected disease (HID)

Quality evaluation

Normal

Reported year

2013

PubMed ID

23953889

Virus Sequence

Virus name

HIV

Reference genome

Not given

Host Sequence

Chromosome

chr5

Cytoband

q21.1

Reference genome

GRCh37/hg19

Start

102503982/103168278 (Hg38)

End

102503982/103168278 (Hg38)

Orient

Location type

Exonic

Fragile sites / regions

FRA5F

Target gene

PPIP5K2

miRNAs that regulate target gene

hsa-mir-578 ; hsa-mir-6807-5p ; hsa-mir-526b-5p ; hsa-mir-1233-3p ; hsa-mir-1225-3p ; hsa-mir-5189-3p ; hsa-mir-4714-3p ; hsa-mir-1277-5p ; hsa-mir-5011-5p ; hsa-mir-190a-3p ; hsa-mir-340-5p ; hsa-mir-503-3p ; hsa-mir-4252 ; hsa-mir-6861-5p ; hsa-mir-186-3p ; hsa-mir-885-5p ; hsa-mir-3159 ; hsa-mir-541-5p ; hsa-mir-551b-5p ; hsa-mir-670-3p ; hsa-mir-6833-5p ; hsa-mir-4752 ; hsa-mir-644a ; hsa-mir-3190-3p ; hsa-mir-8053 ; hsa-mir-6717-5p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-145-3p ; hsa-mir-4289 ; hsa-mir-4302 ; hsa-mir-4482-3p ; hsa-mir-7159-3p ; hsa-mir-374a-3p ; hsa-mir-4291 ; hsa-mir-3160-5p ; hsa-mir-26a-2-3p ; hsa-mir-26a-1-3p ; hsa-mir-6731-3p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-506-5p ; hsa-mir-892c-5p ; hsa-mir-136-3p ; hsa-mir-4762-3p ; hsa-mir-545-3p ; hsa-mir-3613-3p ; hsa-mir-548p ; hsa-mir-548e-5p ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-6838-5p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p

Nearest miRNA

hsa-mir-10397/Upstream/2351713; hsa-mir-103a-1/Downstream/7345551;

Nearest TSS

ENST00000502646/Upstream/90; ENST00000508935/Downstream/4976;

Nearest CpG islands

None/Target, chr5-CpG: 87/Upstream/47992, chr5-CpG: 107/Downstream/90456

Upstream sequence

CCTGACATATATGACTGTATAAAATATGATGTCCAGCATAATGGTTCCTTGAAATTAGAAAACACAATGGAATTATATAGGCTTTCGAAGGCATTAGCAG

Downstream sequence

ATATTGTTATCCCTCAGGTAAGTCATTCTTAAGAATCAATTTCTTATAATATTGAAAAAATACTTTTAAAATGTCTGTTGGTGGATAAAAAGGTAGTTGG

Reference

Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.