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TVIS30012245
Basic Information
VIS ID
TVIS30012245
Fusion event
HIV-FAM222B 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
chr17
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
27128616/28801598 (Hg38)
End
27128616/28801598 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM222B
miRNAs that regulate target gene
hsa-mir-106b-5p
;
hsa-mir-181a-5p
;
hsa-mir-142-3p
;
hsa-mir-3678-3p
;
hsa-mir-6727-5p
;
hsa-mir-5010-5p
;
hsa-mir-4525
;
hsa-mir-2467-3p
;
hsa-mir-202-3p
;
hsa-mir-4462
;
hsa-mir-6730-5p
;
hsa-mir-3158-5p
;
hsa-mir-4787-5p
;
hsa-mir-759
;
hsa-mir-3677-5p
;
hsa-mir-6831-5p
;
hsa-mir-3927-3p
;
hsa-mir-488-3p
;
hsa-mir-4500
;
hsa-let-7b-5p
;
hsa-let-7a-5p
;
hsa-let-7e-5p
;
hsa-let-7f-5p
;
hsa-let-7c-5p
;
hsa-let-7g-5p
;
hsa-let-7i-5p
;
hsa-mir-4458
;
hsa-mir-98-5p
;
hsa-let-7d-5p
;
hsa-mir-379-5p
;
hsa-mir-3529-5p
;
hsa-mir-130a-5p
;
hsa-mir-23c
;
hsa-mir-23a-3p
;
hsa-mir-23b-3p
Nearest miRNA
hsa-mir-1180/Upstream/440864; hsa-mir-10226/Downstream/59771;
Nearest TSS
ENST00000595228/Upstream/24427;
ENST00000578001/Downstream/10626;
Nearest CpG islands
None/Target,
chr17-CpG: 26/Upstream/57046
,
chr17-CpG: 21/Downstream/40910
Upstream sequence
TAAGCAAAAGCCAAACCAGTATCTTTACAGCTGCTAAATTAATGTCTTCATaatagtaaaacaggctgggcatggtggctcacgcctgtaatcccagcac
Downstream sequence
tttactattattattattattattgttgttCTTCTTCTTCTAGTAAAACCATTCCCAGCTGAATAGCTGGGTAAGGCAGAGGGTCCATACAGGAACCCAG
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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