Basic Information
VIS ID
TVIS30009091
Fusion event
HIV-CD109 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
q13
Reference genome
GRCh37/hg19
Start
74481645/73771922 (Hg38)
End
74481645/73771922 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6D
Target gene
CD109
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-4482-3p ; hsa-mir-6807-5p ; hsa-mir-6751-3p ; hsa-mir-1199-5p ; hsa-mir-449b-3p ; hsa-mir-103a-2-5p ; hsa-mir-3124-3p ; hsa-mir-186-3p
Nearest miRNA
hsa-mir-10398/Upstream/804169; hsa-mir-10524/Downstream/1656485;
Nearest TSS
ENST00000381078/Upstream/75791; ENST00000474094/Downstream/20733;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/75511, chr6-CpG: 28/Downstream/1313242
Upstream sequence
ggaataaattctggaggtctgtggtacaacatggtgactgtagttaatgataatgtaccatatacttgaaaattgctaaaagagtagatttgaaatgttc
Downstream sequence
tcaccacaaaaaatgatcagtatgtagtatgcaaggtgatagatatgttaattagcttaatcattccacagtatatacaaatatcaatatatcacattgt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate