VISDB - VIS Detail

Basic Information

VIS ID

TVIS30000472

Fusion event

HIV-NNT 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

2016

PubMed ID

26912621

Virus Sequence

Virus name

HIV

Reference genome

K03455.1

Host Sequence

Chromosome

chr5

Cytoband

p12

Reference genome

GRCh37/hg19

Start

43686749/43686647 (Hg38)

End

43686749/43686647 (Hg38)

Orient

Location type

Intronic

Target gene

NNT

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-34a-5p ; hsa-mir-106b-5p ; hsa-mir-125a-5p ; hsa-mir-125b-5p ; hsa-mir-29b-3p ; hsa-mir-511-5p ; hsa-mir-1229-5p ; hsa-mir-1225-5p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-4711-3p ; hsa-mir-6830-3p ; hsa-mir-503-3p ; hsa-mir-107 ; hsa-mir-103a-3p ; hsa-mir-3121-5p ; hsa-mir-501-5p ; hsa-mir-646 ; hsa-mir-503-5p ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-500a-5p ; hsa-mir-4672 ; hsa-mir-4789-3p ; hsa-mir-6768-5p ; hsa-mir-8485 ; hsa-mir-1305 ; hsa-mir-4518 ; hsa-mir-1266-5p ; hsa-mir-3664-3p ; hsa-mir-4692 ; hsa-mir-4514 ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-4742-5p ; hsa-mir-5582-5p ; hsa-mir-7161-3p ; hsa-mir-216b-5p ; hsa-mir-216a-5p ; hsa-mir-7156-5p ; hsa-mir-4273 ; hsa-mir-592 ; hsa-mir-3156-3p ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-188-3p ; hsa-mir-2117 ; hsa-mir-4669 ; hsa-mir-3657 ; hsa-mir-581 ; hsa-mir-6758-3p ; hsa-mir-1224-3p ; hsa-mir-4289 ; hsa-mir-3691-3p ; hsa-mir-6513-3p ; hsa-mir-4255 ; hsa-mir-1295b-5p ; hsa-mir-1912 ; hsa-mir-3130-5p ; hsa-mir-4482-5p

Nearest miRNA

hsa-mir-10397/Upstream/5129086; hsa-mir-103a-1/Downstream/10264857;

Nearest TSS

ENST00000502646/Upstream/8868; ENST00000508829/Downstream/187720;

Nearest CpG islands

None/Target, chr5-CpG: 87/Upstream/83099, chr5-CpG: 69/Downstream/1122298

Upstream sequence

TGGCATTACAAGATAAAAATTAGAAAAGCAACCCAGTAAGTGTTGACATTAAATCAACATTTGTTTTAATGTGAAAATGTATGCTTCTTTGTATTAAGTG

Downstream sequence

ATTATTAAAAATATGCATTTATTTGAAAAACAGATGAACATTTATATTATTATACAAAAATGTATTTGAACAGGATAATTGCTGTGTacatttattgaac

Reference

Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.