Basic Information
VIS ID
TVIS30009529
Fusion event
HIV-LETM2 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
chr8
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
38265282/38407764 (Hg38)
End
38265282/38407764 (Hg38)
Orient
+
Location type
Intronic
Target gene
LETM2
miRNAs that regulate target gene
hsa-mir-498 ; hsa-mir-1229-5p ; hsa-mir-4279 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-3132 ; hsa-mir-197-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6861-5p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-4722-3p ; hsa-mir-6727-3p ; hsa-mir-660-3p ; hsa-mir-5089-5p ; hsa-mir-4659b-5p ; hsa-mir-4659a-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-1227-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-6504-3p ; hsa-mir-455-5p ; hsa-mir-4438
Nearest miRNA
hsa-mir-124-1/Upstream/8450416; hsa-mir-10400/Downstream/2863284;
Nearest TSS
ENST00000518652/Upstream/1277; ENST00000528407/Downstream/978;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/20587, chr8-CpG: 32/Downstream/58437
Upstream sequence
GTCAGACTAAAACATGCAAAGTGTAGAAGTCAGTTACAATATAGGCAGACCCTTTTTTTCTTATGTGCCAGGTGGAAATAGTTTCCATGTGTTATTTTAC
Downstream sequence
ACATGCTTCCGACGTGAGGAAATACTAGCTGGAAAGCAACTTTAATTTCCAGAGAAATGCATGTAAATAAGAAACTACTTATCTATCATCCAGTTTTCCC
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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