Basic Information
VIS ID
TVIS30013241
Fusion event
HIV-CCSER1 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
chr4
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
92192384/91271233 (Hg38)
End
92192384/91271233 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA4E
Target gene
CCSER1
miRNAs that regulate target gene
hsa-mir-544a
Nearest miRNA
hsa-mir-12113/Upstream/3970650; hsa-mir-1243/Downstream/7726154;
Nearest TSS
ENST00000502981/Upstream/158443; ENST00000505511/Downstream/54073;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/432117, chr4-CpG: 26/Downstream/911233
Upstream sequence
TTTAGAAAGAAAACAGTAGAAGGAAAATTATGTGGGTAAATTGAATAATCTAGGCTTTGTCATCATATCTCCTTAAATGTTTTCTTTTAACTGGTCATAA
Downstream sequence
GTTACTTATGCTAAGCAGTTTTCTGTAGCATAGTACtttttttttccccataggttattggggaacaggtggtgtttggttacaataataagttctttag
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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