Basic Information
VIS ID
TVIS30008828
Fusion event
HIV-PAM 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
chr5
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
102155572/102819868 (Hg38)
End
102155572/102819868 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5F
Target gene
PAM
miRNAs that regulate target gene
hsa-mir-125a-5p ; hsa-mir-125b-5p ; hsa-mir-30c-5p ; hsa-mir-218-5p ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-10397/Upstream/2003303; hsa-mir-103a-1/Downstream/7693961;
Nearest TSS
ENST00000502646/Upstream/11805; ENST00000506006/Downstream/44669;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/63906, chr5-CpG: 47/Downstream/46011
Nearby gene
PAM(No orient, 45955)
Upstream sequence
GAAAATGTGCAGTTCTGGCAGTTACCCTGGATGGTTATGCTATCATAATTAAAACACAGATGGAGCTCATTTCTTTCCCAAGTGTTTGATTGGCAGACAC
Downstream sequence
TCTGTGATCAACACTCCTCTCTGCTGAACACATCAGCGCCATCTGCCTTCAGTCTGCCTAGAGAGGGTGGTCGCAGTAGAATTTCCCCATCATCGCATGA
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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