Basic Information
VIS ID
TVIS30010961
Fusion event
HIV-HDAC2 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
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
114264116/113942952 (Hg38)
End
114264116/113942952 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
HDAC2
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-1-3p ; hsa-mir-149-5p ; hsa-let-7f-5p ; hsa-mir-92a-3p ; hsa-mir-455-3p
Nearest miRNA
hsa-mir-10398/Upstream/7158732; hsa-mir-1202/Downstream/5126095;
Nearest TSS
ENST00000381078/Upstream/38814; ENST00000521888/Downstream/6371;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/82441, chr6-CpG: 128/Downstream/27295
Upstream sequence
AATCCCCTCCTAGCTTTCCTCAGAGTTTTTAATGTTTTCTTCAATTTCTGAACAAAATCCATTATTTGACCTTTTTCAAAATGGCAAAACTGGTCTAAGG
Downstream sequence
ATATGTAACTCTTCTTTGTGTTTTCTCCCATTAAATAAGCTTTAGGTAGCTAAAAATTACCTTAGAAGTTCAGTTCTGACCATGCACTACCAATAGATTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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