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Viral Integration Site DataBase
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TVIS30010097
Basic Information
VIS ID
TVIS30010097
Fusion event
HIV-KHDC4 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
chr1
Cytoband
q22
Reference genome
GRCh37/hg19
Start
155884464/155914673 (Hg38)
End
155884464/155914673 (Hg38)
Orient
+
Location type
Intronic
Target gene
KHDC4
miRNAs that regulate target gene
hsa-mir-18a-5p
;
hsa-mir-324-5p
;
hsa-mir-1178-3p
;
hsa-mir-4276
;
hsa-mir-466
;
hsa-mir-4672
;
hsa-mir-3941
;
hsa-mir-19b-3p
;
hsa-mir-19a-3p
;
hsa-mir-6756-3p
;
hsa-mir-3127-3p
;
hsa-mir-140-3p
;
hsa-mir-152-3p
;
hsa-mir-148b-3p
;
hsa-mir-148a-3p
;
hsa-mir-5685
;
hsa-mir-4690-3p
;
hsa-mir-4640-3p
;
hsa-mir-6856-3p
;
hsa-mir-603
;
hsa-mir-362-3p
;
hsa-mir-329-3p
;
hsa-mir-8485
;
hsa-mir-4652-5p
;
hsa-mir-8052
;
hsa-mir-3199
;
hsa-mir-4515
;
hsa-mir-6860
;
hsa-mir-612
;
hsa-mir-5189-5p
;
hsa-mir-3187-5p
;
hsa-mir-1285-3p
;
hsa-mir-218-2-3p
;
hsa-mir-3936
Nearest miRNA
hsa-mir-101-1/Upstream/568228; hsa-mir-1182/Downstream/36600;
Nearest TSS
ENST00000473358/Upstream/3269;
ENST00000368318/Downstream/2269;
Nearest CpG islands
None/Target,
chr1-CpG: 111/Upstream/53975
,
chr1-CpG: 27/Downstream/19608
Upstream sequence
aaagaaaaaaaggaaaGTTAGCAAGTGAGTCTCTTGAGGGCTGATATTTCACCTTTTAAAGAGTTAAAAGAAAAGAAGTTAAGAAAAGAAAAAAACGTAT
Downstream sequence
TTTCTTCTGTTCATTTTTATGAGTACAGGCAAAGAATAAAATATCCCATGTACCTCTACAGGATTTAGAGTTCTGGAATGCTAAAAGGCAACATTTTCCT
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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