Basic Information
VIS ID
TVIS30005122
Fusion event
HIV-MAN1C1 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
p36.11
Reference genome
GRCh37/hg19
Start
25962353/25635862 (Hg38)
End
25962353/25635862 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
MAN1C1
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-93-5p ; hsa-mir-20a-5p ; hsa-mir-129-5p ; hsa-mir-8055 ; hsa-mir-3140-3p ; hsa-mir-3663-3p ; hsa-mir-552-3p ; hsa-mir-6885-3p ; hsa-mir-6769b-5p ; hsa-mir-6769a-5p ; hsa-mir-6871-5p ; hsa-mir-1273e ; hsa-mir-146a-5p ; hsa-mir-146b-5p ; hsa-mir-3689d ; hsa-mir-377-5p ; hsa-mir-455-3p ; hsa-mir-6086 ; hsa-mir-6134 ; hsa-mir-6499-3p ; hsa-mir-6516-5p ; hsa-mir-665 ; hsa-mir-6807-5p ; hsa-mir-6840-3p ; hsa-mir-6851-5p ; hsa-mir-6880-5p ; hsa-mir-7153-5p ; hsa-mir-7847-3p
Nearest miRNA
hsa-mir-12136/Upstream/612276; hsa-mir-101-1/Downstream/270500;
Nearest TSS
ENST00000473358/Upstream/18012; ENST00000473891/Downstream/23249;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/17581, chr1-CpG: 16/Downstream/135551
Upstream sequence
atgtttgtgagatctctggtggtattccttctttaattcctgttatggcaattgctttttctgtttCCTCTTAAAAATAATTTAGCTCGGCtactggggg
Downstream sequence
aacccacccccaatatttcaatgtaggttctttccattttccgtaagtgtcagctggctgagaaataaaagagtaccaagagaggaattttacagccggg
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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