Basic Information
VIS ID
TVIS30001961
Fusion event
HIV-JAML 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
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
118082940/118212225 (Hg38)
End
118082940/118212225 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11B
Target gene
JAML
miRNAs that regulate target gene
hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-3124-3p ; hsa-mir-665 ; hsa-mir-4328 ; hsa-mir-873-5p
Nearest miRNA
hsa-mir-10392/Upstream/4762137; hsa-let-7a-2/Downstream/431775;
Nearest TSS
ENST00000527297/Upstream/6835; ENST00000529713/Downstream/245;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/58746, chr11-CpG: 22/Downstream/147224
Upstream sequence
TCAGCCCCTTAACTActtgaaaggtaagcattaccattattgtaattgccttcctcttcacagctcaggaagctaagatcagcaaggttgagtaacttac
Downstream sequence
ttacccagctgataacataaccaaattcctgagctaggacgaggcccagttctgataatctccaaagccccggctcttGCAACACCTCCTGGTGGCACCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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