Basic Information
VIS ID
TVIS30010251
Fusion event
HIV-LOC400036 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
53126501/52732717 (Hg38)
End
53126501/52732717 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
LOC400036
Nearest miRNA
hsa-mir-1244-3/Upstream/2498505; hsa-let-7i/Downstream/166172;
Nearest TSS
ENST00000382841/Upstream/29254; ENST00000548015/Downstream/44628;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/18030, chr12-CpG: 40/Downstream/57212
Nearby gene
KRT77(No orient, 29254)
Upstream sequence
ATGATATGGCCAAAAATATTGACGATTACATCCACCGCATTGGCCGCATGGGACAAGCAGGCAAGAGTGGGGTGGCCATCACCTTCCTCACAAAAGAGGA
Downstream sequence
CTCTGCAGTTTTCTACGAGCTGAAGCAAGCCATCCTGGAAAGCCCAGTGTCTTCCTGTCCCCCCAAACTAGCCAATCACCCAGATGCCCAGCATAAGCCA
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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