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TVIS30011415
Basic Information
VIS ID
TVIS30011415
Fusion event
HIV-FAM107B 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
chr10
Cytoband
p13
Reference genome
GRCh37/hg19
Start
14787554/14745555 (Hg38)
End
14787554/14745555 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM107B
miRNAs that regulate target gene
hsa-mir-26b-5p
;
hsa-mir-615-3p
;
hsa-mir-3942-3p
;
hsa-mir-759
;
hsa-mir-5197-3p
;
hsa-mir-6882-5p
;
hsa-mir-6507-3p
;
hsa-mir-5590-3p
;
hsa-mir-142-5p
;
hsa-mir-335-3p
;
hsa-mir-30e-3p
;
hsa-mir-30d-3p
;
hsa-mir-30a-3p
;
hsa-mir-6507-5p
;
hsa-mir-8485
;
hsa-mir-1183
;
hsa-mir-3607-3p
;
hsa-mir-4311
Nearest miRNA
hsa-mir-1265/Upstream/308894; hsa-mir-107/Downstream/3099552;
Nearest TSS
ENST00000439456/Upstream/92813;
ENST00000493178/Downstream/29150;
Nearest CpG islands
None/Target,
chr10-CpG: 68/Upstream/140849
,
chr10-CpG: 125/Downstream/92215
Upstream sequence
cttaacactactttagctgcatcccagaaattctggtatattgtctttttgttcttattggtttcaaagaccttcttgatttctgccttaatttcattat
Downstream sequence
ttacccaggagtcattcaggagcaaattgttcgatttccatgtagttgtgtggttttgagtgagtttcttaatcttgagttctaatttgtctgctctttg
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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