Basic Information
VIS ID
TVIS30002257
Fusion event
HIV-TTC8 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
chr14
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
89333427/88867083 (Hg38)
End
89333427/88867083 (Hg38)
Orient
-
Location type
Intronic
Target gene
TTC8
miRNAs that regulate target gene
hsa-mir-373-3p ; hsa-mir-124-3p ; hsa-mir-125a-3p ; hsa-mir-197-3p ; hsa-mir-155-5p ; hsa-mir-4524a-3p ; hsa-mir-138-2-3p ; hsa-mir-4795-3p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-340-5p ; hsa-mir-486-5p ; hsa-mir-4742-3p ; hsa-mir-126-5p ; hsa-mir-656-3p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-369-3p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-561-3p ; hsa-mir-605-5p ; hsa-mir-548at-5p
Nearest miRNA
hsa-mir-1260a/Upstream/11600793; hsa-mir-1185-1/Downstream/5081143;
Nearest TSS
ENST00000550708/Upstream/25598; ENST00000637466/Downstream/146303;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/42072, chr14-CpG: 111/Downstream/159708
Upstream sequence
aaagatataaaaaactaaaacaacagtgataagccatttttcactcaatcagatcagcaaagatgaagaagttctatgttatctagggttgccaagggtg
Downstream sequence
tagagaaacaagctccatgtatgaacatttggaagttgtttgcaattattgatgatattttaaaatgtgcatgctctttgacctggccatattacttcta
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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