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VISDB
Viral Integration Site DataBase
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TVIS30009864
Basic Information
VIS ID
TVIS30009864
Fusion event
HIV-SEC16A 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
chr9
Cytoband
q34.3
Reference genome
GRCh37/hg19
Start
139365341/136470889 (Hg38)
End
139365341/136470889 (Hg38)
Orient
-
Location type
Intronic
Target gene
SEC16A
miRNAs that regulate target gene
hsa-mir-1-3p
;
hsa-let-7b-5p
;
hsa-mir-877-5p
;
hsa-mir-744-5p
;
hsa-mir-615-3p
;
hsa-mir-484
;
hsa-mir-331-3p
;
hsa-mir-27b-3p
;
hsa-mir-93-5p
;
hsa-mir-27a-3p
;
hsa-mir-218-5p
;
hsa-mir-20a-5p
;
hsa-mir-106b-5p
;
hsa-mir-519d-3p
;
hsa-mir-20b-5p
;
hsa-mir-17-5p
;
hsa-mir-1228-5p
;
hsa-mir-1249-5p
;
hsa-mir-128-3p
;
hsa-mir-130a-3p
;
hsa-mir-130b-3p
;
hsa-mir-1321
;
hsa-mir-216a-3p
;
hsa-mir-22-5p
;
hsa-mir-301a-3p
;
hsa-mir-301b-3p
;
hsa-mir-3127-5p
;
hsa-mir-3150b-3p
;
hsa-mir-3175
;
hsa-mir-3612
;
hsa-mir-3666
;
hsa-mir-3681-3p
;
hsa-mir-3691-3p
;
hsa-mir-3918
;
hsa-mir-4295
;
hsa-mir-4302
;
hsa-mir-4419a
;
hsa-mir-4510
;
hsa-mir-454-3p
;
hsa-mir-4689
;
hsa-mir-4710
;
hsa-mir-4739
;
hsa-mir-4756-5p
;
hsa-mir-4773
;
hsa-mir-4779
;
hsa-mir-4784
;
hsa-mir-503-5p
;
hsa-mir-5088-5p
;
hsa-mir-519a-3p
;
hsa-mir-519b-3p
;
hsa-mir-519c-3p
;
hsa-mir-542-5p
;
hsa-mir-5582-5p
;
hsa-mir-5695
;
hsa-mir-6127
;
hsa-mir-6129
;
hsa-mir-6130
;
hsa-mir-6133
;
hsa-mir-648
;
hsa-mir-650
;
hsa-mir-6727-5p
;
hsa-mir-6777-5p
;
hsa-mir-6797-5p
;
hsa-mir-6858-5p
;
hsa-mir-6878-5p
;
hsa-mir-6889-5p
Nearest miRNA
hsa-let-7a-1/Upstream/1620082; hsa-mir-126/Downstream/48679;
Nearest TSS
ENST00000422679/Upstream/3838;
ENST00000354376/Downstream/6192;
Nearest CpG islands
None/Target,
chr9-CpG: 64/Upstream/4198
,
chr9-CpG: 17/Downstream/1844
Upstream sequence
AGTGCAGGTACAAAGTCTTCATTAATGAGTAGCTTTTTCTCTATTACCAAGTTTAAGAAGCAATATCCCCTTGCAGGAAGGCTCTATCTGTGAGACAGTC
Downstream sequence
TCTCTCAGATCTCACAAGGAGCAAGTGCAGCTAAGGCCCTGGAAGGCGCAGCCTAGCGCGGTGGCCAGGACCACGCCCACCCCTCGCAGGGCTCTGCGCA
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
Central Memory CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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