Basic Information
VIS ID
TVIS30003973
Fusion event
HIV-FAM126A 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
chr7
Cytoband
p15.3
Reference genome
GRCh37/hg19
Start
22993020/22953401 (Hg38)
End
22993020/22953401 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM126A
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-301a-3p ; hsa-let-7b-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-8085 ; hsa-mir-3115 ; hsa-mir-6731-5p ; hsa-mir-6878-5p ; hsa-mir-6871-5p ; hsa-mir-154-5p ; hsa-mir-548aa ; hsa-mir-548ac ; hsa-mir-548ap-3p ; hsa-mir-548bb-3p ; hsa-mir-548d-3p ; hsa-mir-548h-3p ; hsa-mir-548t-3p ; hsa-mir-548z ; hsa-mir-6715a-3p
Nearest miRNA
hsa-mir-1183/Upstream/1482255; hsa-mir-10399/Downstream/2996518;
Nearest TSS
ENST00000635602/Upstream/12211; ENST00000491352/Downstream/7915;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/98443, chr7-CpG: 87/Downstream/59951
Upstream sequence
TGTGCAGCAAATGCTCATAAAAAGGTGGAGAAAGGAGGAGTGCTCAATAATCAATAATAAAAAATAATAACTTTCTTAACTACAGCAAGATTTATGTAAG
Downstream sequence
TCCCCCTTAGTAAAAATGTAGAATACAATAATTTACGAACAAGTTTTTTTGCCTCATGAGACCAATAATTCTGTCTCTGGCTGGAAAATTTTTTAACTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate