Basic Information
VIS ID
TVIS30008214
Fusion event
HIV-ATXN10 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
q13.31
Reference genome
GRCh37/hg19
Start
46147066/45751186 (Hg38)
End
46147066/45751186 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
ATXN10
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-30a-5p ; hsa-mir-23b-3p ; hsa-mir-21-5p
Nearest miRNA
hsa-mir-1249/Upstream/550167; hsa-let-7a-3/Downstream/9338;
Nearest TSS
ENST00000624155/Upstream/10676; ENST00000402380/Downstream/42410;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/78576, chr22-CpG: 164/Downstream/114999
Upstream sequence
tgcctggctaattattgtatttttagtagagacggggtttcaccatgttgcccaggctggtcttgaattcctgacctcaagtgatctgcctgcagcggcc
Downstream sequence
tcccaaagtgctgggattacaggtgtgagccaccatgcccagccTCTTTGTTCTTCTTTTATACTTTGTACACCTCTTAACCCTTCTTTGGCCAAGATCT
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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