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TVIS30007838
Basic Information
VIS ID
TVIS30007838
Fusion event
HIV-LNPK 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
chr2
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
176856445/175991717 (Hg38)
End
176856445/175991717 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2G
Target gene
LNPK
miRNAs that regulate target gene
hsa-mir-155-5p
;
hsa-mir-21-5p
;
hsa-let-7b-3p
;
hsa-mir-93-5p
;
hsa-mir-1260b
;
hsa-mir-340-5p
;
hsa-mir-6847-3p
;
hsa-mir-6086
;
hsa-mir-377-5p
;
hsa-mir-655-5p
;
hsa-mir-4528
;
hsa-mir-3163
;
hsa-mir-1276
;
hsa-mir-7150
;
hsa-mir-644a
;
hsa-mir-891a-3p
;
hsa-mir-3688-5p
;
hsa-mir-7111-5p
;
hsa-mir-6870-5p
;
hsa-mir-5698
;
hsa-mir-4723-5p
;
hsa-mir-6799-5p
;
hsa-mir-4687-3p
;
hsa-mir-7974
;
hsa-mir-548au-3p
;
hsa-mir-449b-5p
;
hsa-mir-449a
;
hsa-mir-34c-5p
;
hsa-mir-34a-5p
;
hsa-mir-4736
;
hsa-mir-4763-3p
;
hsa-mir-1207-5p
;
hsa-mir-6851-5p
;
hsa-mir-3689d
;
hsa-mir-6722-3p
;
hsa-mir-1909-3p
;
hsa-mir-6134
;
hsa-mir-20b-3p
;
hsa-mir-5693
;
hsa-mir-6798-5p
;
hsa-mir-6865-5p
;
hsa-mir-6815-5p
;
hsa-mir-6794-5p
;
hsa-mir-4716-3p
;
hsa-mir-4795-3p
;
hsa-mir-374b-5p
;
hsa-mir-374a-5p
;
hsa-mir-3140-3p
;
hsa-mir-5692c
;
hsa-mir-5692b
;
hsa-mir-369-3p
;
hsa-mir-208b-5p
;
hsa-mir-208a-5p
;
hsa-mir-892c-3p
;
hsa-mir-4676-3p
;
hsa-mir-452-5p
;
hsa-mir-100-3p
;
hsa-mir-4701-5p
;
hsa-mir-5089-5p
;
hsa-mir-6807-5p
;
hsa-mir-7151-3p
;
hsa-mir-5095
;
hsa-mir-5589-5p
;
hsa-mir-4731-5p
;
hsa-mir-6778-3p
;
hsa-mir-4707-3p
;
hsa-mir-6506-5p
;
hsa-mir-18a-3p
;
hsa-mir-324-3p
;
hsa-mir-1913
;
hsa-mir-150-5p
;
hsa-mir-6765-3p
;
hsa-mir-1228-3p
;
hsa-mir-6504-3p
;
hsa-mir-4438
;
hsa-mir-619-5p
;
hsa-mir-6773-3p
;
hsa-mir-548g-3p
;
hsa-mir-548f-3p
;
hsa-mir-548e-3p
;
hsa-mir-548az-3p
;
hsa-mir-548ar-3p
;
hsa-mir-548a-3p
;
hsa-mir-548x-3p
;
hsa-mir-548j-3p
;
hsa-mir-548aq-3p
;
hsa-mir-548am-3p
;
hsa-mir-548aj-3p
;
hsa-mir-548ah-3p
;
hsa-mir-548ae-3p
;
hsa-mir-148a-5p
;
hsa-mir-202-5p
;
hsa-mir-22-5p
;
hsa-mir-337-3p
;
hsa-mir-4694-3p
;
hsa-mir-4698
;
hsa-mir-5584-3p
;
hsa-mir-6875-3p
;
hsa-mir-8063
Nearest miRNA
hsa-mir-128-1/Upstream/824008; hsa-mir-10b/Downstream/158586;
Nearest TSS
ENST00000437798/Upstream/44207;
ENST00000392539/Downstream/10546;
Nearest CpG islands
None/Target,
chr2-CpG: 135/Upstream/809941
,
chr2-CpG: 48/Downstream/10248
Upstream sequence
TACAGTCAGAGAATTTTGTATTTTTATGTACCATACACCATTATAATCCAATGTCTAAACAACTGGTACCCATAAATGCTTGTTGACTGAATAAACAAAC
Downstream sequence
TTTTTATTAAATTGTCTCTCAAAATTCTCAGTCATGATACGCCTCCTATACAGTGCTATATTATAAAATATTTCTAAAATAAGGGTCAATTGCTTTATAG
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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