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VISDB
Viral Integration Site DataBase
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TVIS30003862
Basic Information
VIS ID
TVIS30003862
Fusion event
HIV-ILRUN 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
chr6
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
34586785/34619008 (Hg38)
End
34586785/34619008 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
ILRUN
miRNAs that regulate target gene
hsa-mir-484
;
hsa-mir-423-3p
;
hsa-mir-10b-5p
;
hsa-mir-6510-5p
;
hsa-mir-5739
;
hsa-mir-3175
;
hsa-mir-6734-5p
;
hsa-mir-8085
;
hsa-mir-6731-5p
;
hsa-mir-4644
;
hsa-mir-4306
;
hsa-mir-185-5p
;
hsa-mir-6738-5p
;
hsa-mir-5194
;
hsa-mir-1914-3p
;
hsa-mir-423-5p
;
hsa-mir-3184-5p
;
hsa-mir-3123
;
hsa-mir-6858-5p
;
hsa-mir-4689
;
hsa-mir-1255b-5p
;
hsa-mir-1255a
;
hsa-mir-766-5p
;
hsa-mir-3605-5p
;
hsa-mir-4784
;
hsa-mir-3150b-3p
;
hsa-mir-3928-3p
;
hsa-mir-4330
;
hsa-mir-4709-5p
;
hsa-mir-212-3p
;
hsa-mir-132-3p
;
hsa-mir-5688
;
hsa-mir-495-3p
;
hsa-mir-483-3p
;
hsa-mir-1228-3p
;
hsa-mir-362-3p
;
hsa-mir-329-3p
;
hsa-mir-8485
;
hsa-mir-5581-3p
;
hsa-mir-8064
;
hsa-mir-6872-3p
;
hsa-mir-7151-5p
;
hsa-mir-193b-3p
;
hsa-mir-193a-3p
;
hsa-mir-195-5p
;
hsa-mir-15b-5p
;
hsa-mir-16-5p
;
hsa-mir-15a-5p
Nearest miRNA
hsa-mir-1236/Upstream/378272; hsa-mir-10398/Downstream/851500;
Nearest TSS
ENST00000381078/Upstream/62675;
ENST00000606971/Downstream/52948;
Nearest CpG islands
None/Target,
chr6-CpG: 120/Upstream/74519
,
chr6-CpG: 55/Downstream/77287
Upstream sequence
gagtctatggtgctctagaagcctagtgacgagtgtttcaagaggacagaggacagagtcaccagctgagtccagtgctgctaataagtcagtagagtac
Downstream sequence
taaggacaaaccattggatgtagcaacacaaaggtcactggagagcttgaaaaaagcagtcagtttcagcggagtaatggggatagacagctacatagaa
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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