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TVIS30012815
Basic Information
VIS ID
TVIS30012815
Fusion event
HIV-CAB39 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
q37.1
Reference genome
GRCh37/hg19
Start
231659403/230794688 (Hg38)
End
231659403/230794688 (Hg38)
Orient
+
Location type
Intronic
Target gene
CAB39
miRNAs that regulate target gene
hsa-mir-451a
;
hsa-mir-195-5p
;
hsa-mir-375
;
hsa-mir-155-5p
;
hsa-mir-877-5p
;
hsa-mir-4310
;
hsa-mir-7157-5p
;
hsa-mir-19a-3p
;
hsa-mir-19b-3p
;
hsa-mir-27a-3p
;
hsa-mir-200b-3p
;
hsa-mir-27b-3p
;
hsa-mir-200c-3p
;
hsa-mir-340-5p
;
hsa-mir-429
;
hsa-mir-935
;
hsa-mir-103a-3p
;
hsa-mir-107
;
hsa-mir-4477b
;
hsa-mir-4700-3p
;
hsa-mir-192-3p
;
hsa-mir-580-3p
;
hsa-mir-526b-5p
;
hsa-mir-539-5p
;
hsa-mir-5680
;
hsa-mir-6516-5p
;
hsa-mir-5047
;
hsa-mir-1301-3p
;
hsa-mir-7156-3p
;
hsa-mir-651-3p
;
hsa-mir-1269a
;
hsa-mir-1269b
;
hsa-mir-1288-3p
;
hsa-mir-3690
;
hsa-mir-378a-3p
;
hsa-mir-378b
;
hsa-mir-378c
;
hsa-mir-378d
;
hsa-mir-378e
;
hsa-mir-378f
;
hsa-mir-378h
;
hsa-mir-378i
;
hsa-mir-422a
;
hsa-mir-4515
;
hsa-mir-4740-5p
;
hsa-mir-490-3p
;
hsa-mir-515-5p
;
hsa-mir-519d-5p
;
hsa-mir-519e-5p
;
hsa-mir-5695
;
hsa-mir-619-3p
Nearest miRNA
hsa-mir-10b/Upstream/3322501; hsa-mir-1244-1/Downstream/568020;
Nearest TSS
ENST00000437798/Upstream/3790;
ENST00000493540/Downstream/19295;
Nearest CpG islands
None/Target,
chr2-CpG: 135/Upstream/80899
,
chr2-CpG: 82/Downstream/33294
Upstream sequence
ACAATTTACAGTTTAGAGCTCTCACCTGTGCTGGCCAGAGCAGACACTTCCAGCCAGGAAGTAGCATGGAGAATGCAACTGGTGGGCCCACCGGAAGCCC
Downstream sequence
CGCCCACCTCCTTTGTTGTGAAaaatatacgtacaactagagggaatatgtaacataccggttcctaccctaaacccagcttcaacagttacgaatgttc
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
Resting CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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