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TVIS30007072
Basic Information
VIS ID
TVIS30007072
Fusion event
HIV-FBXL20 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
q12
Reference genome
GRCh37/hg19
Start
37488148/39331895 (Hg38)
End
37488148/39331895 (Hg38)
Orient
+
Location type
Intronic
Target gene
FBXL20
miRNAs that regulate target gene
hsa-mir-125b-5p
;
hsa-mir-7703
;
hsa-mir-767-3p
;
hsa-mir-1178-3p
;
hsa-mir-181b-3p
;
hsa-mir-181b-2-3p
;
hsa-mir-4420
;
hsa-mir-6760-3p
;
hsa-mir-4768-5p
;
hsa-mir-6817-3p
;
hsa-mir-6833-3p
;
hsa-mir-6873-3p
;
hsa-mir-7110-3p
;
hsa-mir-6818-5p
;
hsa-mir-202-3p
;
hsa-mir-98-5p
;
hsa-mir-4500
;
hsa-mir-4458
;
hsa-let-7i-5p
;
hsa-let-7g-5p
;
hsa-let-7e-5p
;
hsa-let-7f-5p
;
hsa-let-7d-5p
;
hsa-let-7c-5p
;
hsa-let-7b-5p
;
hsa-mir-4468
;
hsa-let-7a-5p
;
hsa-mir-3908
;
hsa-mir-511-3p
;
hsa-mir-424-5p
;
hsa-mir-15b-5p
;
hsa-mir-15a-5p
;
hsa-mir-16-5p
;
hsa-mir-195-5p
;
hsa-mir-497-5p
;
hsa-mir-6838-5p
;
hsa-mir-26b-3p
;
hsa-mir-6793-3p
;
hsa-mir-1208
;
hsa-mir-4762-5p
;
hsa-mir-216b-5p
;
hsa-mir-378g
;
hsa-mir-4486
;
hsa-mir-6860
;
hsa-mir-612
;
hsa-mir-5189-5p
;
hsa-mir-3187-5p
;
hsa-mir-1285-3p
;
hsa-mir-4793-3p
;
hsa-mir-3925-3p
;
hsa-mir-1273g-3p
;
hsa-mir-622
;
hsa-mir-508-5p
;
hsa-mir-586
;
hsa-mir-6805-3p
;
hsa-mir-5691
;
hsa-mir-3678-3p
;
hsa-mir-3194-3p
;
hsa-mir-2467-3p
;
hsa-mir-17-3p
;
hsa-mir-1205
;
hsa-mir-1184
;
hsa-mir-3158-5p
;
hsa-mir-4684-5p
;
hsa-mir-7975
;
hsa-mir-4540
;
hsa-mir-942-5p
;
hsa-mir-1251-5p
;
hsa-mir-517-5p
;
hsa-mir-554
;
hsa-mir-6838-3p
;
hsa-mir-624-5p
Nearest miRNA
hsa-mir-1180/Upstream/34386; hsa-mir-10226/Downstream/394600;
Nearest TSS
ENST00000595228/Upstream/61085;
ENST00000582842/Downstream/69728;
Nearest CpG islands
None/Target,
chr17-CpG: 26/Upstream/105785
,
chr17-CpG: 140/Downstream/69218
Upstream sequence
TGTTTGTCTCTTCATTAACTAAACAGCCCTGCACTGTAATGGTTTGAATATTTCTATTACCAGTTTTTGTATTTTATACTTTTATATttaatccatttgg
Downstream sequence
cctgctacaacaaaatacctcagactgggtaatttataaacagcataaactcacttTATGGTCTATGAGTAAAAAGTAGAACCAATGTAACAATACATGC
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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