Basic Information
VIS ID
TVIS30007996
Fusion event
HIV-PTPRT 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
chr20
Cytoband
q12
Reference genome
GRCh37/hg19
Start
41209528/42580888 (Hg38)
End
41209528/42580888 (Hg38)
Orient
-
Location type
Intronic
Target gene
PTPRT
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-331-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-16-5p ; hsa-mir-3928-3p ; hsa-mir-215-5p ; hsa-mir-3149 ; hsa-mir-630 ; hsa-mir-29a-5p ; hsa-mir-186-3p ; hsa-mir-664a-3p ; hsa-mir-5096 ; hsa-mir-197-3p ; hsa-mir-103a-2-5p ; hsa-mir-583 ; hsa-mir-1276 ; hsa-mir-4311 ; hsa-mir-6809-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-4753-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-6832-3p ; hsa-mir-515-3p ; hsa-mir-5581-5p ; hsa-mir-7702 ; hsa-mir-4297 ; hsa-mir-6747-3p ; hsa-mir-4524b-3p ; hsa-mir-3909 ; hsa-mir-4494 ; hsa-mir-4633-3p ; hsa-mir-4738-3p ; hsa-mir-4766-3p ; hsa-mir-4773 ; hsa-mir-499b-5p ; hsa-mir-6500-5p ; hsa-mir-6736-3p ; hsa-mir-6852-3p ; hsa-mir-6874-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/1411810; hsa-mir-1-1/Downstream/1827232;
Nearest TSS
ENST00000382410/Upstream/108319; ENST00000608258/Downstream/104516;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/581503, chr20-CpG: 173/Downstream/607947
Nearest cancer related gene
PTPRT(TSG, No orient, 0)
Upstream sequence
taaaggagattttgggctgagacgatggggttttctagatatacaatcatgtcatctgcaaacagggacaatttgacttcctcttttcctaattgaatac
Downstream sequence
cctttatttccttctcctgcctgattgccctggccagaacttccaacactatgttgaataggagtggtgagagagggcatccctgtcttgtgccgagtct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate