Basic Information
VIS ID
TVIS30004388
Fusion event
HIV-LRRC27 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
q26.3
Reference genome
GRCh37/hg19
Start
134156623/132343119 (Hg38)
End
134156623/132343119 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
LRRC27
miRNAs that regulate target gene
hsa-mir-92a-3p ; hsa-mir-6807-5p ; hsa-mir-7107-5p ; hsa-mir-1234-3p ; hsa-mir-3065-3p ; hsa-mir-6504-3p ; hsa-mir-449b-3p ; hsa-mir-6871-3p ; hsa-mir-941 ; hsa-mir-640 ; hsa-mir-378a-5p ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-1281 ; hsa-mir-6777-3p ; hsa-mir-2276-3p ; hsa-mir-6827-3p ; hsa-mir-340-3p ; hsa-mir-4279 ; hsa-mir-4497 ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-5581-5p ; hsa-mir-4297 ; hsa-mir-6778-3p ; hsa-mir-150-5p ; hsa-mir-6814-5p ; hsa-mir-6513-3p ; hsa-mir-5697 ; hsa-mir-8062 ; hsa-mir-562 ; hsa-mir-2681-5p
Nearest miRNA
hsa-mir-107/Upstream/1380451; hsa-mir-202/Downstream/904392;
Nearest TSS
ENST00000439456/Upstream/5453; ENST00000472387/Downstream/5073;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/10598, chr10-CpG: 89/Downstream/8520
Upstream sequence
agttgagaccacgcatagtggctcatgcctgtaatcttagcaccttggggcgccaaggcaggaggatcccctgaagccaggagtttgaaaccagcctggg
Downstream sequence
taacatagtgagaccccatctctacaaaaaataaaataaaataaaattagccaggtgcagtagtgcatgcctgtgttcctaggtacttaggaggctgagg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate