Basic Information
VIS ID
TVIS30013704
Fusion event
HIV-LINGO2 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
chr9
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
28571156/28571158 (Hg38)
End
28571156/28571158 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA9C
Target gene
LINGO2
miRNAs that regulate target gene
hsa-mir-587 ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-2115-5p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-5193
Nearest miRNA
hsa-mir-101-2/Upstream/7058973; hsa-let-7a-1/Downstream/292468;
Nearest TSS
ENST00000422679/Upstream/275827; ENST00000541043/Downstream/99127;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/997169, chr9-CpG: 74/Downstream/641015
Upstream sequence
TATCATTAAAACGTTAGAAGAATAAAGGAGATGAGATCCATGATGTAGACTGAGCAGCTTAGAAGAAAGAAGCTGAATAAATCTAAGGTATCTTAAAAAA
Downstream sequence
ATACTTTCATGGCTGCTTATGACTTGGAATATTTTCTTCTTGGCTGGGGGAAAATGCATTTTTAAAGCCTTATATGTAAACCAGAACAGTCAATTTCCTA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate