Basic Information
VIS ID
TVIS30010000
Fusion event
HIV-SLC9A6 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
chrX
Cytoband
q26.3
Reference genome
GRCh37/hg19
Start
135089362/136007203 (Hg38)
End
135089362/136007203 (Hg38)
Orient
+
Location type
Intronic
Target gene
SLC9A6
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-21-5p ; hsa-mir-16-5p ; hsa-mir-31-3p ; hsa-mir-421 ; hsa-mir-23b-3p ; hsa-mir-93-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p
Nearest miRNA
hsa-let-7f-2/Upstream/1460492; hsa-mir-105-1/Downstream/543675;
Nearest TSS
ENST00000429181/Upstream/21487; ENST00000638078/Downstream/2917;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/21053, chrX-CpG: 32/Downstream/91055
Upstream sequence
tgatccgtccgcctcggcctcccaaagtgctgggatgataggcaggagccactgtgctcggccagaattgttaatgataatgacatagtacagtcattct
Downstream sequence
tagccaggggcaatttgccaccccctcaccacacacacacaggagatatttgacagtgtctgggggcattttggctgtcatcaatgggggggggttccta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate