Basic Information
VIS ID
TVIS30005029
Fusion event
HIV-TSC22D3 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
chrX
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
106990841/107747611 (Hg38)
End
106990841/107747611 (Hg38)
Orient
-
Location type
Intronic
Target gene
TSC22D3
miRNAs that regulate target gene
hsa-mir-18a-5p ; hsa-mir-124-3p ; hsa-mir-182-5p ; hsa-mir-335-5p ; hsa-mir-1229-3p ; hsa-mir-877-3p ; hsa-mir-744-5p ; hsa-mir-484 ; hsa-mir-19b-3p ; hsa-mir-124-5p ; hsa-mir-3978 ; hsa-mir-6794-3p ; hsa-mir-4639-3p ; hsa-mir-3613-3p ; hsa-mir-4255 ; hsa-mir-499b-3p ; hsa-mir-4735-3p ; hsa-mir-499a-3p ; hsa-mir-18b-5p ; hsa-mir-4796-3p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-421 ; hsa-mir-505-3p ; hsa-mir-7159-5p ; hsa-mir-3924 ; hsa-mir-6802-5p ; hsa-mir-223-5p ; hsa-mir-3691-5p ; hsa-mir-3165 ; hsa-mir-4764-5p ; hsa-mir-676-5p ; hsa-mir-511-3p ; hsa-mir-6865-5p ; hsa-mir-6815-5p
Nearest miRNA
hsa-let-7f-2/Upstream/1107715; hsa-mir-105-1/Downstream/2307718;
Nearest TSS
ENST00000429181/Upstream/25339; ENST00000509000/Downstream/27288;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/30927, chrX-CpG: 70/Downstream/27765
Upstream sequence
CCATTAAAAAGTTCAAATGTGGCTTGGCTGAAAAGCAATCAGATCTGTTATTGACACTGTTTCATTCTGAATAGCACAGAGGACTAAAGGCTTTCTTTAC
Downstream sequence
TTAGttcattagttagctaacaagcatttttcaagcacctactgtgcatggagcactgtcccagacactcggCTGTTGCCGTTGCTGCTCTGCTATTGAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate