Basic Information
VIS ID
TVIS30010054
Fusion event
HIV-chr1 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
chr1
Cytoband
p36.13
Reference genome
GRCh37/hg19
Start
19539361/19212867 (Hg38)
End
19539361/19212867 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
EMC1-AS1 ; UBR4
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-128-3p ; hsa-mir-34a-5p ; hsa-mir-877-3p ; hsa-mir-877-5p ; hsa-mir-296-3p ; hsa-mir-378a-5p ; hsa-mir-185-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-1249-5p ; hsa-mir-3173-3p ; hsa-mir-3190-3p ; hsa-mir-3202 ; hsa-mir-363-5p ; hsa-mir-4419a ; hsa-mir-4457 ; hsa-mir-4471 ; hsa-mir-4510 ; hsa-mir-4533 ; hsa-mir-4773 ; hsa-mir-4779 ; hsa-mir-5700 ; hsa-mir-605-3p ; hsa-mir-6127 ; hsa-mir-6129 ; hsa-mir-6130 ; hsa-mir-6133 ; hsa-mir-6745 ; hsa-mir-6760-5p ; hsa-mir-6797-5p ; hsa-mir-6804-5p ; hsa-mir-6878-5p ; hsa-mir-6891-5p ; hsa-mir-8059
Nearest miRNA
hsa-mir-12136/Upstream/315719; hsa-mir-101-1/Downstream/1420812;
Nearest TSS
ENST00000473358/Upstream/2366; ENST00000493700/Downstream/8338;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/2315, chr1-CpG: 82/Downstream/38523
Nearby gene
UBR4(No orient, 2615)
Upstream sequence
TACAAGAACAAGTAATCAGTGCATATTTTGTTGAAACTCCTACTGCAATACTGAAAACTTCAAATGGAGAGCAGCTCCTTTTTGGTAATTCACAACAGAC
Downstream sequence
TTAGTTTTCAAATTACCAAGAATATAAGGAATTAGATTAGAAGCCTAATTCAATTTAGAATTATGAGACATTATTTGTAACCCACAAGTATTATTTTTCC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate