Basic Information
VIS ID
TVIS30010250
Fusion event
HIV-KRT77 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
chr12
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
53096837/52703053 (Hg38)
End
53096837/52703053 (Hg38)
Orient
-
Location type
Exonic
Fragile sites / regions
FRA12A
Target gene
KRT77
miRNAs that regulate target gene
hsa-mir-30a-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/2468841; hsa-let-7i/Downstream/195836;
Nearest TSS
ENST00000382841/Upstream/7701; ENST00000548015/Downstream/410;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/27477, chr12-CpG: 59/Downstream/11075
Upstream sequence
TGATCCTCTGAATTTCAGGGTCCACCTCCAGGTGAAGTGGCTCTAGGAGGCTCTGGTTAATGGTCACCTCTTGGATGCCCCCAGGAGGACAATAAGGACC
Downstream sequence
AAAGCCCCCAAGCCCAAAATTGCTAGTCCCAAATCCAGCACCCCCAAAACCACCTCCTCCAAAGCCACCAGCCCCGGTGCTGCCAACCCCAAAGCCTCTG
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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