Basic Information
VIS ID
TVIS30004676
Fusion event
HIV-CCDC57 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
chr17
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
80141280/82183404 (Hg38)
End
80141280/82183404 (Hg38)
Orient
-
Location type
Intronic
Target gene
CCDC57
miRNAs that regulate target gene
hsa-mir-92a-3p
Nearest miRNA
hsa-mir-10226/Upstream/489535; hsa-mir-4525/Downstream/53264;
Nearest TSS
ENST00000595228/Upstream/7740; ENST00000581303/Downstream/1768;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/55947, chr17-CpG: 119/Downstream/29042
Upstream sequence
TGAGGACATGAACAATCAGACAAGACAGACGAGGAGATTCTTTGTttttgttttcctttttgcagagatggggtctcactatgttaaccaggctggtctc
Downstream sequence
caactcctgggttccagcaatcctcctgcttctgcctccctaagtgctgggattataggtgtgagccaccacgcttggcAAGAGGAGATTCTTAGTGCAG
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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