Basic Information
VIS ID
TVIS30012238
Fusion event
HIV-SPECC1 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
p11.2
Reference genome
GRCh37/hg19
Start
20174372/20271059 (Hg38)
End
20174372/20271059 (Hg38)
Orient
+
Location type
Intronic
Target gene
SPECC1
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-186-5p ; hsa-mir-10a-5p ; hsa-mir-3613-3p ; hsa-mir-3976 ; hsa-mir-5007-5p ; hsa-mir-4717-3p ; hsa-mir-6871-5p ; hsa-mir-449b-3p ; hsa-mir-5698 ; hsa-mir-377-3p ; hsa-mir-143-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6847-3p ; hsa-mir-6499-3p ; hsa-mir-103b ; hsa-mir-4438 ; hsa-mir-6768-5p
Nearest miRNA
hsa-mir-1180/Upstream/926485; hsa-mir-10226/Downstream/7022851;
Nearest TSS
ENST00000595228/Upstream/65263; ENST00000578153/Downstream/25975;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/114312, chr17-CpG: 95/Downstream/49377
Upstream sequence
acttgttagttatttatatctttcttctgtgaattactactacagttgctttgcttgcttttctatttgtatgttcatcttttttcctcaaaatttgtga
Downstream sequence
tagctctttTTGGTTTTCTTTTGGTttttatttttatcaaagctctgcatgcccacaatcaggtatgcagagatcctgatgagcaaagcagtcagccggc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate