Basic Information
VIS ID
TVIS30001691
Fusion event
HIV-LHX9 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
chr1
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
197891453/197922323 (Hg38)
End
197891453/197922323 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1K
Target gene
LHX9
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-129-5p ; hsa-mir-6895-3p ; hsa-mir-1264 ; hsa-mir-3184-3p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-130b-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1339842; hsa-mir-1182/Downstream/936550;
Nearest TSS
ENST00000473358/Upstream/4924; ENST00000417895/Downstream/234640;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/629, chr1-CpG: 118/Downstream/234443
Upstream sequence
GCTAGCCTGTGTCTTTCCTAAGCCAGGATATTCAACCAGCCGTCTCATTCCCGGTGTGATAGACCATCCAGACATCCAGACCCCTGGAACTGAAAGTACC
Downstream sequence
TCCAGGTCAGGCCTCCTGAAGAGGCTTAGTGGTATCTCAGGCCATTCATCTATACTCAACCACCTTCTCTCTTCATTAAAAACAACATGCAGACAACAAG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate