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VISDB
Viral Integration Site DataBase
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TVIS30002727
Basic Information
VIS ID
TVIS30002727
Fusion event
HIV-HDAC5 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
chr17
Cytoband
q21.31
Reference genome
GRCh37/hg19
Start
42183601/44106233 (Hg38)
End
42183601/44106233 (Hg38)
Orient
+
Location type
Intronic
Target gene
HDAC5
miRNAs that regulate target gene
hsa-mir-26b-5p
;
hsa-let-7a-5p
;
hsa-mir-6763-5p
;
hsa-mir-3150a-3p
;
hsa-mir-4536-5p
;
hsa-mir-6825-5p
;
hsa-mir-939-5p
;
hsa-mir-1343-5p
;
hsa-mir-7106-5p
;
hsa-mir-3175
;
hsa-mir-765
;
hsa-mir-766-5p
;
hsa-mir-4533
;
hsa-mir-1252-5p
;
hsa-mir-8089
;
hsa-mir-4700-5p
;
hsa-mir-4667-5p
;
hsa-mir-4476
;
hsa-mir-6876-5p
;
hsa-mir-125a-5p
;
hsa-mir-675-5p
;
hsa-mir-1184
;
hsa-mir-1205
;
hsa-mir-1224-5p
;
hsa-mir-1273f
;
hsa-mir-17-3p
;
hsa-mir-2467-3p
;
hsa-mir-3154
;
hsa-mir-3158-5p
;
hsa-mir-3179
;
hsa-mir-3678-3p
;
hsa-mir-4527
;
hsa-mir-4710
;
hsa-mir-4751
;
hsa-mir-4756-3p
;
hsa-mir-4792
;
hsa-mir-5004-5p
;
hsa-mir-6503-5p
;
hsa-mir-6783-5p
;
hsa-mir-7855-5p
Nearest miRNA
hsa-mir-1180/Upstream/661348; hsa-mir-10226/Downstream/101538;
Nearest TSS
ENST00000595228/Upstream/12728;
ENST00000585899/Downstream/5108;
Nearest CpG islands
None/Target,
chr17-CpG: 26/Upstream/35100
,
chr17-CpG: 77/Downstream/16920
Upstream sequence
CTGTCTGGCAGCTGTGTGGCAGGGAAGGGACAGCTGAGGGTCTCAAAAACAAGAAGAGGGGATGAGGCAGGGGGAGGGGGACACAGGAGGTTGTATGGGG
Downstream sequence
GCTGGTGTTCAACTTTATTCCTGAGCCCCTCCTCTCCTTGGGCTAAAATCCCCTCAGGGAGAAAGATCACAGACCAAGTGGTCCTCAGTATTTACAGAAA
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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