Basic Information
VIS ID
TVIS30006125
Fusion event
HIV-TMEM117 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
chr12
Cytoband
q12
Reference genome
GRCh37/hg19
Start
44652952/44259169 (Hg38)
End
44652952/44259169 (Hg38)
Orient
-
Location type
Intronic
Target gene
TMEM117
miRNAs that regulate target gene
hsa-mir-5010-3p ; hsa-mir-192-3p ; hsa-mir-365b-5p ; hsa-mir-8052 ; hsa-mir-365a-5p ; hsa-mir-3199 ; hsa-mir-95-5p ; hsa-mir-4477a ; hsa-mir-2116-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-302a-5p ; hsa-mir-195-3p ; hsa-mir-16-2-3p ; hsa-mir-5584-3p ; hsa-mir-6874-3p ; hsa-mir-148b-5p ; hsa-mir-3168 ; hsa-mir-5571-5p ; hsa-mir-8066
Nearest miRNA
hsa-mir-1244-3/Upstream/1935310; hsa-let-7i/Downstream/2928643;
Nearest TSS
ENST00000382841/Upstream/185518; ENST00000546978/Downstream/4813;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/422808, chr12-CpG: 86/Downstream/616878
Upstream sequence
TCACTTTTCATATTAGTGTTCTGTTATCCCTTTAGCATTTCCCATGTCATTGTTTCTTACTAAACTGCATAGGAGGTACAGCAGCTCCGCTAATGGAGTG
Downstream sequence
AGCTCTCTTGGTATTGAGGTGGCCAGCATTATACTAAATGTTCCAGCTATatagcaacctacaatatgagtccctacaatgtgctgtgtgaattatataa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate