Basic Information
VIS ID
TVIS30009276
Fusion event
HIV-GARS 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
chr7
Cytoband
p14.3
Reference genome
GRCh37/hg19
Start
30647810/30608194 (Hg38)
End
30647810/30608194 (Hg38)
Orient
-
Location type
Intronic
Target gene
GARS
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-93-5p ; hsa-let-7c-5p
Nearest miRNA
hsa-mir-1183/Upstream/318304; hsa-mir-10399/Downstream/2124787;
Nearest TSS
ENST00000635602/Upstream/13310; ENST00000484093/Downstream/6062;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/12752, chr7-CpG: 105/Downstream/73562
Upstream sequence
atttaggttatttcccatctttaacattacagataatgctgcattgaataatcttgtgcttatatcttttcatgtttttgctattgtgtctttgggatag
Downstream sequence
atgcctagaaatgggacaaaggataaatacaaatatagtaatgttagatattgccagattccctttcccaggggttTTGCTTTCTATCTGTATTGGCAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate