Basic Information
VIS ID
TVIS30007614
Fusion event
HIV-HADHB 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
chr2
Cytoband
p23.3
Reference genome
GRCh37/hg19
Start
26505795/26282927 (Hg38)
End
26505795/26282927 (Hg38)
Orient
-
Location type
Intronic
Target gene
HADHB
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-193b-3p ; hsa-mir-1229-3p ; hsa-mir-99a-5p ; hsa-mir-33a-5p ; hsa-mir-633 ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-4720-3p ; hsa-mir-4708-3p ; hsa-mir-4493 ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301b-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-4717-5p ; hsa-mir-3154 ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-4753-5p
Nearest miRNA
hsa-mir-1301/Upstream/954206; hsa-mir-10b/Downstream/1713440;
Nearest TSS
ENST00000437798/Upstream/21906; ENST00000462301/Downstream/25620;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/37388, chr2-CpG: 87/Downstream/62613
Upstream sequence
GCTGGTTAACATTTCAGACTGATGGTGCATCTGCAATGTTAATCATGGCGGAGGAAAAGGCTCTGGCCATGGGTTATAAGCCGAAGGCATATTTGAGGTA
Downstream sequence
AAGTAAATGTTCAAACAAATCATCTCTGATTTCTTTATTTTATTACCAAAGCTCACCTCTCTATTTTTTTACCTAGGGATTTTATGTATGTGTCTCAGGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate