Basic Information
VIS ID
TVIS30008074
Fusion event
HIV-HLCS 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
chr21
Cytoband
q22.13
Reference genome
GRCh37/hg19
Start
38244173/36871873 (Hg38)
End
38244173/36871873 (Hg38)
Orient
-
Location type
Intronic
Target gene
HLCS
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-6749-3p ; hsa-mir-203b-3p ; hsa-mir-642a-5p ; hsa-mir-4539 ; hsa-mir-146a-3p ; hsa-mir-4469 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-5196-3p ; hsa-mir-8485 ; hsa-mir-4767 ; hsa-mir-6870-3p ; hsa-mir-5193 ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-1224-3p ; hsa-mir-3691-3p ; hsa-mir-1306-5p ; hsa-mir-587 ; hsa-mir-6836-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-6747-3p ; hsa-mir-6832-3p ; hsa-mir-3620-3p ; hsa-mir-6752-3p
Nearest miRNA
hsa-let-7c/Upstream/1151065; hsa-mir-3197/Downstream/2575137;
Nearest TSS
ENST00000624081/Upstream/159307; ENST00000430068/Downstream/58544;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/123432, chr21-CpG: 105/Downstream/94211
Upstream sequence
acaactcaataataaaatgacaagtaccccaacttcaaaatgggcaaaagatttgaacaacatttcacaaattaagaatgccagcagtgtaataggtaca
Downstream sequence
ataagtataatcatcctcaacaatatctgttttcaggaaaatgcagattgaaagcacagtgagatacaactgcacacccaccagaccagttgaaagtaaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate