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TVIS30010281
Basic Information
VIS ID
TVIS30010281
Fusion event
HIV-KNTC1 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
chr12
Cytoband
q24.31
Reference genome
GRCh37/hg19
Start
123057516/122572969 (Hg38)
End
123057516/122572969 (Hg38)
Orient
-
Location type
Exonic
Fragile sites / regions
FRA12E
Target gene
KNTC1
miRNAs that regulate target gene
hsa-mir-193b-3p
;
hsa-mir-484
;
hsa-mir-149-5p
;
hsa-mir-183-5p
;
hsa-mir-5584-3p
;
hsa-mir-6875-3p
;
hsa-mir-5006-3p
;
hsa-mir-4755-5p
;
hsa-mir-632
;
hsa-mir-4288
;
hsa-mir-527
;
hsa-mir-518a-5p
;
hsa-mir-211-5p
;
hsa-mir-204-5p
;
hsa-mir-623
;
hsa-mir-6886-3p
;
hsa-mir-4778-3p
;
hsa-mir-6832-3p
;
hsa-mir-5088-3p
;
hsa-mir-129-2-3p
;
hsa-mir-129-1-3p
;
hsa-mir-3145-5p
;
hsa-mir-4771
;
hsa-mir-519d-5p
;
hsa-mir-5583-3p
;
hsa-mir-633
;
hsa-mir-885-5p
Nearest miRNA
hsa-let-7i/Upstream/1128617; hsa-mir-3612/Downstream/122938;
Nearest TSS
ENST00000382841/Upstream/45721;
ENST00000423927/Downstream/19849;
Nearest CpG islands
None/Target,
chr12-CpG: 104/Upstream/45751
,
chr12-CpG: 68/Downstream/179478
Upstream sequence
TTCTGATTCTATTTTTCTCTCATACTTTTATTTTATATCGTTAACAACTTTAACACTTTTGTTTTAGAAAGATTATCAGAACACAGAGGAAGTATGTCAG
Downstream sequence
CTAAGGACTTTGGTAAATAACTTGCGAGAGTTGATCACGTTGCATAGGAAGTACAACTGCAAATTAGCCCTCTCTGATTTTGAGAAGGTAAAGTCCAGGG
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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