Basic Information
VIS ID
TVIS30013414
Fusion event
HIV-RGL2 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
p21.32
Reference genome
GRCh37/hg19
Start
33261776/33293999 (Hg38)
End
33261776/33293999 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
RGL2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-7848-3p ; hsa-mir-1273g-5p ; hsa-mir-203a-5p ; hsa-mir-409-5p ; hsa-mir-874-5p ; hsa-mir-6089 ; hsa-mir-5008-5p ; hsa-mir-203a-3p ; hsa-mir-4649-3p ; hsa-mir-544b ; hsa-mir-6840-3p ; hsa-mir-659-3p ; hsa-mir-29b-2-5p ; hsa-mir-4795-3p ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-2052 ; hsa-mir-299-5p ; hsa-mir-506-5p ; hsa-mir-200b-5p ; hsa-mir-200a-5p ; hsa-mir-4255 ; hsa-mir-196b-5p ; hsa-mir-196a-5p ; hsa-mir-142-3p
Nearest miRNA
hsa-mir-1236/Upstream/3674; hsa-mir-10398/Downstream/144332;
Nearest TSS
ENST00000381078/Upstream/69; ENST00000450504/Downstream/1624;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/4803, chr6-CpG: 100/Downstream/4526
Upstream sequence
GAAAGGACTGCAAACTCCTGGGAAGGAGCCCTCAAACTGCAGGAGCCAAAACTCAGGGACCCCTGACTTTTCCCCCTCCCCTTCCTGGAACATGGATAGG
Downstream sequence
GAAGTCCAGCATCCAGCCCAGACACTCCGCTCACCTTCCTCCGCTTGTCAAAATTGATGTATCCATTCTGCGAGGAAAATGGGGATGGGGTGAAAGTTCC
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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