Basic Information
VIS ID
TVIS30009284
Fusion event
HIV-TBX20 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
chr7
Cytoband
p14.2
Reference genome
GRCh37/hg19
Start
35268685/35229073 (Hg38)
End
35268685/35229073 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA7C
Target gene
TBX20
miRNAs that regulate target gene
hsa-mir-1273e ; hsa-mir-139-3p ; hsa-mir-4722-5p ; hsa-mir-1827 ; hsa-mir-219b-3p ; hsa-mir-6840-3p ; hsa-mir-665 ; hsa-mir-4768-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-302f ; hsa-mir-1277-5p ; hsa-mir-448 ; hsa-mir-190a-3p ; hsa-mir-4728-3p ; hsa-mir-5011-5p ; hsa-mir-5700 ; hsa-mir-943 ; hsa-mir-3613-3p ; hsa-mir-101-3p ; hsa-mir-1273g-3p ; hsa-mir-4252 ; hsa-mir-4537 ; hsa-mir-5694 ; hsa-mir-582-5p ; hsa-mir-655-5p
Nearest miRNA
hsa-mir-1183/Upstream/288239; hsa-mir-10399/Downstream/1690284;
Nearest TSS
ENST00000635602/Upstream/190802; ENST00000605778/Downstream/24558;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/42105, chr7-CpG: 124/Downstream/24301
Upstream sequence
AGCAAGAAAACTAAAACACCTTTAAGAGTATCTCAAAAGCTCGTGTAGCTGTAGAAGGATTAAAACTGTGAATTTAGAGGTACAGGCAAACAGATCCAAT
Downstream sequence
CCCAAAGGCATTTTTGTTTGGGTGTCCCACACATTAAGCTGTAAATCTGAAACAGGAAACTTGAAATCATTAAGGTCACATATTTATAACATCATATTCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate