Basic Information
VIS ID
TVIS30007471
Fusion event
HIV-LOC100420587 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
chr19
Cytoband
q12
Reference genome
GRCh37/hg19
Start
28971887/28480980 (Hg38)
End
28971887/28480980 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LOC100420587
Nearest miRNA
hsa-mir-10395/Upstream/8081626; hsa-let-7e/Downstream/6641720;
Nearest TSS
ENST00000633603/Upstream/12596; ENST00000592931/Downstream/28258;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/571055, chr19-CpG: 67/Downstream/246114
Upstream sequence
tgggatctcactgtgttgcccaggttggtcttgaactcctggggtcaagtgatccttttgccttggcttctcaaagttttgggattataggcatgagcca
Downstream sequence
ccatgcctggccAAGAAGAACTTTTTAAATACTTTTTTCTAAAAGAAAAAAAATGATTACAAAGCAAACAGAAATACTCTAACATTACCAATTGCAGGGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate