Basic Information
VIS ID
TVIS30005607
Fusion event
HIV-JMJD1C 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
chr10
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
64982589/63222829 (Hg38)
End
64982589/63222829 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
JMJD1C
miRNAs that regulate target gene
hsa-mir-326 ; hsa-let-7e-5p ; hsa-mir-374a-5p ; hsa-mir-718 ; hsa-mir-587 ; hsa-mir-6084 ; hsa-mir-5581-5p ; hsa-mir-4297 ; hsa-mir-145-3p ; hsa-mir-6880-3p ; hsa-mir-4485-5p ; hsa-mir-2681-5p ; hsa-mir-5579-3p ; hsa-mir-889-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-590-3p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-548n ; hsa-mir-23c ; hsa-mir-130a-5p ; hsa-mir-23a-3p ; hsa-mir-23b-3p ; hsa-mir-8081 ; hsa-mir-627-5p ; hsa-mir-937-5p ; hsa-mir-627-3p ; hsa-mir-205-5p ; hsa-mir-6500-3p ; hsa-mir-3614-5p ; hsa-mir-6875-3p ; hsa-mir-670-3p ; hsa-mir-4762-5p ; hsa-mir-513b-3p ; hsa-mir-3662
Nearest miRNA
hsa-mir-1265/Upstream/5918270; hsa-mir-107/Downstream/150128;
Nearest TSS
ENST00000439456/Upstream/5118; ENST00000609436/Downstream/46046;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/89253, chr10-CpG: 122/Downstream/242281
Upstream sequence
TATAGGATTTAATGGTTGCTCACTGAAAACTGAAACTAATTTGGAAGTTTTGAAGTCAATTCCTAGTGAAAAATTAATGATTGAGACAGATGCACCTTGG
Downstream sequence
TGTGGAGTCAAAAGTACACATGCTGGATCAAAATATATAAAAACTGCATTTCCTACCAAAAAGAAGTGGGAAAGTGGGCACTGCTTAAAAGACAGAAATG
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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