Basic Information
VIS ID
TVIS30011846
Fusion event
HIV-LINC00446 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
chr13
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
78590530/78016395 (Hg38)
End
78590530/78016395 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA13E
Target gene
LINC00446
Nearest miRNA
hsa-mir-1297/Upstream/318279; hsa-mir-1267/Downstream/9602270;
Nearest TSS
ENST00000623511/Upstream/3512; ENST00000438327/Downstream/14541;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/97148, chr13-CpG: 91/Downstream/579584
Upstream sequence
gtgtgcaagtatctttttcgtataatgacttcttttcctatgggtagaaacccagcagtgggattgctgaatcaaatggcagttctatttttagatcttt
Downstream sequence
aaggaatctccacactgttttgcatagtggttgtaccagttctagtttacattcccaccagcagtgtagaagtgttcccttttcatctcatccacaccaa
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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