Basic Information
VIS ID
TVIS30002629
Fusion event
HIV-FXR2 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
chr17
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
7510674/7607356 (Hg38)
End
7510674/7607356 (Hg38)
Orient
+
Location type
Intronic
Target gene
FXR2
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-324-3p ; hsa-mir-196a-5p ; hsa-mir-17-5p ; hsa-let-7b-5p ; hsa-mir-10b-5p ; hsa-mir-376c-3p ; hsa-mir-539-5p ; hsa-mir-4260 ; hsa-mir-6803-5p ; hsa-mir-6751-5p ; hsa-mir-1227-5p ; hsa-mir-4531 ; hsa-mir-124-5p ; hsa-mir-6880-5p ; hsa-mir-609 ; hsa-mir-6747-5p ; hsa-mir-7110-5p ; hsa-mir-6842-5p ; hsa-mir-6752-5p ; hsa-mir-6835-5p ; hsa-mir-486-3p ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-5186 ; hsa-mir-4434 ; hsa-mir-4756-3p ; hsa-mir-3919 ; hsa-mir-552-3p
Nearest miRNA
hsa-mir-1253/Upstream/383977; hsa-mir-10226/Downstream/480700;
Nearest TSS
ENST00000595228/Upstream/3290; ENST00000624152/Downstream/6590;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/17729, chr17-CpG: 78/Downstream/7016
Upstream sequence
gcagtgagccaagatcatgccattgcactccagcctgggcaacaagagcaaaactccatctcaaaaaaaaaaaaaagaaaaagaaaaagaaatctttgcc
Downstream sequence
taatccaaggccacaaaggttttctcttatgtcttcttcttaaacttttagttttttgttttacatttacatctataatcctttatttttagacagagtc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate