Basic Information
VIS ID
TVIS30013463
Fusion event
HIV-SCML4 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
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
108118994/107797790 (Hg38)
End
108118994/107797790 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
SCML4
miRNAs that regulate target gene
hsa-mir-510-3p ; hsa-mir-2052 ; hsa-mir-8065 ; hsa-mir-570-3p ; hsa-mir-6876-5p ; hsa-mir-4476 ; hsa-mir-5582-3p
Nearest miRNA
hsa-mir-10398/Upstream/1013570; hsa-mir-1202/Downstream/11271257;
Nearest TSS
ENST00000381078/Upstream/25539; ENST00000606070/Downstream/26496;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/162301, chr6-CpG: 32/Downstream/50402
Upstream sequence
catccatgcttgttcctgattttagcttaaattttaaaaatatttaaagtatgatgttatctttaggtattcatagatgctctttatcaaattgagaaac
Downstream sequence
tttcttctattcttagtatcctaagaggtttttttaatcgtgaacagacattaaattttgcaaatgcattgtctacatctattgagatgatcatataatt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate