VISDB - VIS Detail

Basic Information

VIS ID

TVIS30003519

Fusion event

HIV-DAG1 integration

Validated

No

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

chr3

Cytoband

p21.31

Reference genome

GRCh37/hg19

Start

49551518/49514085 (Hg38)

End

49551518/49514085 (Hg38)

Orient

+

Location type

Intronic

Target gene

DAG1

miRNAs that regulate target gene

hsa-mir-29a-3p ; hsa-mir-155-5p ; hsa-mir-30a-5p ; hsa-mir-1229-3p ; hsa-mir-423-5p ; hsa-mir-18a-3p ; hsa-mir-222-3p ; hsa-mir-3676-3p ; hsa-mir-142-3p

Nearest miRNA

hsa-mir-12127/Upstream/239899; hsa-let-7g/Downstream/292052;

Nearest TSS

ENST00000440867/Upstream/3861; ENST00000467456/Downstream/40255;

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/43228, chr3-CpG: 39/Downstream/25729

Upstream sequence

TGTTGTATTTGGCAGAGAGATGTTTAACAGGCTTATTTACCAAGGGGGTGAAGAGATTTTACTGAGAAAACAGGATTTTATCTGAGCATATTTATCTGTG

Downstream sequence

GAAAGCAGACCATTTAGTAGCTGATGAGCTTGTAGAAAAACAGATGAAGATGTGTGACTCTTCGTTCCAGTCTTAACCACCGGGATTATATGGGTTGGGG

Reference

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