Basic Information
VIS ID
TVIS30004374
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
14715630/14673631 (Hg38)
End
14715630/14673631 (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/236970; hsa-mir-107/Downstream/3171476;
Nearest TSS
ENST00000439456/Upstream/20889; ENST00000493178/Downstream/101074;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/68925, chr10-CpG: 125/Downstream/164139
Upstream sequence
atctgttgatagacactcaggttgattccgtatctttgctattgtgaatagtgctgcaataaacacgagagtgtagatatctctttgacatgctgatctc
Downstream sequence
cttccctttggatgcatacccagcagtgggattgctggatcatatggtcgttctatttttagtttttggagaaaacttcatactgtttttcataacggct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate