Basic Information
VIS ID
TVIS30007916
Fusion event
HIV-DGKD 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
chr2
Cytoband
q37.1
Reference genome
GRCh37/hg19
Start
234339971/233431325 (Hg38)
End
234339971/233431325 (Hg38)
Orient
-
Location type
Intronic
Target gene
DGKD
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-877-5p ; hsa-mir-106b-5p ; hsa-mir-127-5p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4753-3p ; hsa-mir-766-5p ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-6515-3p
Nearest miRNA
hsa-mir-10b/Upstream/880752; hsa-mir-149/Downstream/4079606;
Nearest TSS
ENST00000437798/Upstream/12084; ENST00000474488/Downstream/3142;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/75993, chr2-CpG: 23/Downstream/29815
Upstream sequence
acagtagttgcaaataaaataaaatacctaagaattaactgaagaagtgagagatttctacaatgaatactacaaaacattgatgcaagaaatggaagag
Downstream sequence
aacacacaaaaaatggaaagatactccacgttcatggactggaagaatcaacattgtgaaaatgttcgtattacccaaagcagtctacagattcaatgca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate