Basic Information
VIS ID
TVIS30004622
Fusion event
HIV-SDF2 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
q11.2
Reference genome
GRCh37/hg19
Start
26981399/28654381 (Hg38)
End
26981399/28654381 (Hg38)
Orient
+
Location type
Intronic
Target gene
SDF2
miRNAs that regulate target gene
hsa-mir-132-3p
Nearest miRNA
hsa-mir-1180/Upstream/293647; hsa-mir-10226/Downstream/206988;
Nearest TSS
ENST00000595228/Upstream/8927; ENST00000577713/Downstream/954;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/8918, chr17-CpG: 50/Downstream/7322
Upstream sequence
gaccctgtttaaaaacaaaaaaCAGTGACACAAAAGCAAATCTATTTTCCTAATGTAACTAGTTAGCATCATTAAAAAAAAAAAAAACACTGCAAGTTGG
Downstream sequence
AAAACATTGGGTTTCTTTATTGCAGAATATCAGAACTTATGATATGCTGATGTATACCCAGTCTGTCTGTCCTTCCCATTTCTTGATTTGGTTTAGTTGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate