Basic Information
VIS ID
TVIS30003266
Fusion event
HIV-ITCH 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
q11.22
Reference genome
GRCh37/hg19
Start
33012833/34425027 (Hg38)
End
33012833/34425027 (Hg38)
Orient
+
Location type
Intronic
Target gene
ITCH
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-324-3p ; hsa-mir-127-5p ; hsa-mir-541-5p ; hsa-mir-485-5p ; hsa-mir-20a-5p ; hsa-mir-302c-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-3143 ; hsa-mir-8068 ; hsa-mir-1252-5p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-543 ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-93-5p ; hsa-mir-17-5p ; hsa-mir-214-5p ; hsa-mir-3653-3p ; hsa-mir-6796-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/375837; hsa-mir-1-1/Downstream/41298;
Nearest TSS
ENST00000382410/Upstream/61715; ENST00000483727/Downstream/16998;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/60864, chr20-CpG: 43/Downstream/91280
Upstream sequence
TACCAGCTGTTTGCTGTTAGCCCAGGTTTAGCACTTTCATGTGCCTATCTGCGTTCAAGTTTGGACCTAAAtgtggggaaaagaaagaaagatcagtttg
Downstream sequence
ttactgtgtctatgtagaaaaggaagacgtaagaaactccattttgatctgtactaagaaaaattgttctgctttgagatgctgttaatctgtaacttta
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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