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Viral Integration Site DataBase
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TVIS30010888
Basic Information
VIS ID
TVIS30010888
Fusion event
HIV-TMEM161B 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
chr5
Cytoband
q14.3
Reference genome
GRCh37/hg19
Start
87506097/88210280 (Hg38)
End
87506097/88210280 (Hg38)
Orient
-
Location type
Intronic
Target gene
TMEM161B
miRNAs that regulate target gene
hsa-mir-196a-5p
;
hsa-mir-514b-5p
;
hsa-mir-513c-5p
;
hsa-mir-190a-3p
;
hsa-mir-3129-5p
;
hsa-mir-199b-3p
;
hsa-mir-199a-3p
;
hsa-mir-101-5p
;
hsa-mir-1244
;
hsa-mir-6838-5p
;
hsa-mir-497-5p
;
hsa-mir-424-5p
;
hsa-mir-16-5p
;
hsa-mir-195-5p
;
hsa-mir-15b-5p
;
hsa-mir-15a-5p
;
hsa-mir-4446-5p
;
hsa-mir-4307
;
hsa-mir-190b
;
hsa-mir-190a-5p
Nearest miRNA
hsa-mir-10397/Upstream/1095326; hsa-mir-103a-1/Downstream/456573;
Nearest TSS
ENST00000502646/Upstream/11829;
ENST00000504636/Downstream/10351;
Nearest CpG islands
None/Target,
chr5-CpG: 87/Upstream/68592
,
chr5-CpG: 27/Downstream/58511
Upstream sequence
cctcacagggctattttgaaaagcaaaGATTAAGTCTTCCTAGTTCTCAGCAACAACTTAATGTTTTCTAGACAACTGAATTAAATATTTAACATGTAAT
Downstream sequence
ACCAAAAATATGGGAATGTATACAAAAACATATGGATCAATACAATACAAACAGATAATGATACCATTCCTGATTGTGtttaaatttttaaaattctatg
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
Jurkat CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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