Basic Information
VIS ID
TVIS30002649
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
27164651/28837633 (Hg38)
End
27164651/28837633 (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/476899; hsa-mir-10226/Downstream/23736;
Nearest TSS
ENST00000595228/Upstream/25198; ENST00000578001/Downstream/5094;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/93081, chr17-CpG: 21/Downstream/4875
Upstream sequence
TTTTCTTGTTAAATTGTAGTCCTTTTCACTATAAGTCACAGAGCTTTGACAGGGAAACAATCGAGACCCTGAGAGGTAATAAGACAGAAATAGATATTAA
Downstream sequence
ATACttctttttgtttttttttttttgttttttgagacggagtctcgctcgctgtttcgcccagggtggagtgccatggcatgagctcggctcattacca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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