Basic Information
VIS ID
TVIS30004935
Fusion event
HIV-ATG5 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
106650209/106202334 (Hg38)
End
106650209/106202334 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
ATG5
miRNAs that regulate target gene
hsa-mir-181a-5p ; hsa-mir-30d-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-9-5p ; hsa-mir-299-5p ; hsa-mir-224-3p ; hsa-mir-34a-5p ; hsa-mir-30e-5p
Nearest miRNA
hsa-mir-10398/Upstream/7077638; hsa-mir-1202/Downstream/581791;
Nearest TSS
ENST00000381078/Upstream/103394; ENST00000487681/Downstream/95;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/115824, chr6-CpG: 56/Downstream/122978
Upstream sequence
actgtgaaaaatgtttaacatgataaattcaggtaaatctaattctgaggaaacagacaaatccaaagttgggtgggacattctaaagataattggctgg
Downstream sequence
gacccttcaaaaacttaaagacattaaaaagcaaacaacacaaaaagatatcaacaaaagcattttttctcagtatctcttaaagagactaacaaagcaa
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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