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Viral Integration Site DataBase
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TVIS30001491
Basic Information
VIS ID
TVIS30001491
Fusion event
HIV-PDIK1L 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
chr1
Cytoband
p36.11
Reference genome
GRCh37/hg19
Start
26447035/26120544 (Hg38)
End
26447035/26120544 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
PDIK1L
miRNAs that regulate target gene
hsa-mir-373-3p
;
hsa-mir-590-3p
;
hsa-mir-221-3p
;
hsa-mir-92b-3p
;
hsa-mir-92a-3p
;
hsa-mir-18a-5p
;
hsa-mir-22-3p
;
hsa-mir-187-5p
;
hsa-mir-15a-5p
;
hsa-mir-16-5p
;
hsa-mir-15b-5p
;
hsa-mir-195-5p
;
hsa-mir-181b-3p
;
hsa-mir-181b-2-3p
;
hsa-mir-4420
;
hsa-mir-3662
;
hsa-mir-3646
;
hsa-mir-4711-5p
;
hsa-mir-570-3p
;
hsa-mir-152-3p
;
hsa-mir-148b-3p
;
hsa-mir-148a-3p
;
hsa-mir-4698
;
hsa-mir-5094
;
hsa-mir-4659b-5p
;
hsa-mir-4659a-5p
;
hsa-mir-573
;
hsa-mir-3616-5p
;
hsa-mir-6071
;
hsa-mir-4795-5p
;
hsa-mir-3692-5p
;
hsa-mir-93-3p
;
hsa-mir-6728-3p
;
hsa-mir-4716-5p
;
hsa-mir-599
;
hsa-mir-3161
;
hsa-mir-548v
;
hsa-mir-338-5p
;
hsa-mir-222-3p
;
hsa-mir-197-3p
;
hsa-mir-6505-3p
;
hsa-mir-617
;
hsa-mir-6754-3p
;
hsa-mir-412-3p
;
hsa-mir-4733-3p
;
hsa-mir-1226-3p
Nearest miRNA
hsa-mir-12136/Upstream/214090; hsa-mir-101-1/Downstream/433998;
Nearest TSS
ENST00000473358/Upstream/8695;
ENST00000374268/Downstream/38476;
Nearest CpG islands
None/Target,
chr1-CpG: 111/Upstream/8118
,
chr1-CpG: 84/Downstream/40772
Upstream sequence
AGAGATATCTGCAGATCATCGCAATTACTATTGTCTGCCATGTGGAGAGATGGCGTGAAGAGATGTTCTTTGCTTGTGCTTTCCCAGATGGTAGAGAAAG
Downstream sequence
TACCAGTAGATTTAAATGTGAAATTAGCAATTCATTCACTCTTCAGCAACTCTTCGGCCTTTTCTGTTCAACTCATGGGTCTGAAAAGGGCACCATACAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Sample Information
×
Sample name
Active CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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