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Viral Integration Site DataBase
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TVIS30008065
Basic Information
VIS ID
TVIS30008065
Fusion event
HIV-IFNAR1 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
chr21
Cytoband
q22.11
Reference genome
GRCh37/hg19
Start
34726213/33353907 (Hg38)
End
34726213/33353907 (Hg38)
Orient
-
Location type
Intronic
Target gene
IFNAR1
miRNAs that regulate target gene
hsa-mir-98-5p
;
hsa-mir-17-5p
;
hsa-mir-20a-5p
;
hsa-mir-93-5p
;
hsa-mir-106b-5p
;
hsa-mir-20b-5p
;
hsa-mir-519d-3p
;
hsa-mir-190a-3p
;
hsa-mir-5011-5p
;
hsa-mir-6083
;
hsa-mir-3121-3p
;
hsa-mir-3976
;
hsa-mir-1273f
;
hsa-mir-6890-5p
;
hsa-mir-410-3p
;
hsa-mir-6516-5p
;
hsa-mir-1273e
;
hsa-mir-455-3p
;
hsa-mir-6820-5p
;
hsa-mir-381-5p
;
hsa-mir-6499-3p
;
hsa-mir-6086
;
hsa-mir-377-5p
;
hsa-mir-4537
;
hsa-mir-219b-3p
;
hsa-mir-1247-3p
;
hsa-mir-3919
;
hsa-mir-3123
;
hsa-mir-302f
;
hsa-mir-7704
;
hsa-mir-615-5p
;
hsa-mir-3922-3p
;
hsa-mir-3176
;
hsa-mir-3190-5p
;
hsa-mir-1277-5p
;
hsa-mir-618
;
hsa-mir-498
;
hsa-mir-4772-3p
;
hsa-mir-1304-3p
;
hsa-mir-1266-3p
;
hsa-mir-660-3p
;
hsa-mir-6890-3p
;
hsa-mir-1306-5p
;
hsa-mir-1303
;
hsa-mir-5096
;
hsa-mir-3187-3p
;
hsa-mir-4435
;
hsa-mir-588
;
hsa-mir-4701-5p
;
hsa-mir-548s
;
hsa-mir-197-3p
;
hsa-mir-411-5p
;
hsa-mir-6832-5p
;
hsa-mir-193b-5p
;
hsa-mir-4430
;
hsa-mir-3652
;
hsa-mir-4755-3p
;
hsa-mir-4716-5p
;
hsa-mir-4781-3p
;
hsa-mir-483-5p
;
hsa-mir-29a-3p
Nearest miRNA
hsa-let-7c/Upstream/2978529; hsa-mir-3197/Downstream/196755;
Nearest TSS
ENST00000624081/Upstream/28934;
ENST00000439213/Downstream/48989;
Nearest CpG islands
None/Target,
chr21-CpG: 261/Upstream/28462
,
chr21-CpG: 108/Downstream/49224
Upstream sequence
GTCAACAGCTAGGTAATGAACAGAAAATGTGTTTGATTTCAACAGGATATATGTAGGTTTTCTTGATATCCAGAAAATAATAGAGACTGATTTGGGTATC
Downstream sequence
TTCTTCAAAGCTTTAGTCAATTAACTTTAAAAACAGTAATTTCATGTAATAACATAGCATGAGATAGTAATGATTGTCCTTAATTTCATATTTTTCTGGC
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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