Basic Information
VIS ID
TVIS30004844
Fusion event
HIV-TCF20 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
chr22
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
42630200/42234194 (Hg38)
End
42630200/42234194 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
TCF20
miRNAs that regulate target gene
hsa-mir-149-5p ; hsa-mir-205-5p ; hsa-mir-1247-5p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-433-3p ; hsa-mir-7154-5p ; hsa-mir-623 ; hsa-mir-6780b-3p ; hsa-mir-4780 ; hsa-mir-6729-3p ; hsa-mir-6847-5p ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-1178-5p ; hsa-mir-4779
Nearest miRNA
hsa-mir-1281/Upstream/310897; hsa-let-7a-3/Downstream/2966760;
Nearest TSS
ENST00000624155/Upstream/18752; ENST00000332965/Downstream/35559;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/80997, chr22-CpG: 180/Downstream/35252
Upstream sequence
CGTTTAAAATTCAAAATGCTCTTAACTGACCACATCCTAATTTACGAGCAGAAGTCGAGTCCAAACAAAAACACACTGTAAAACAAAAGTGCTGGCTAAC
Downstream sequence
AACCTTAGAAAGAAAATATAGGAGGGGACAAACAGATTTTAATGTGTCCTTGGCCTTCCTGAGCAAAGCAATGAGAAATGCAGTCAACCAAAGCATTTAG
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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