Basic Information
VIS ID
TVIS30006822
Fusion event
HIV-SH2B1 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
chr16
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
28871411/28860090 (Hg38)
End
28871411/28860090 (Hg38)
Orient
-
Location type
Intronic
Target gene
SH2B1
miRNAs that regulate target gene
hsa-mir-877-3p ; hsa-mir-484 ; hsa-mir-423-3p ; hsa-mir-4497 ; hsa-mir-6846-3p ; hsa-mir-3160-5p ; hsa-mir-1236-3p ; hsa-mir-4315 ; hsa-mir-6887-3p ; hsa-mir-361-3p
Nearest miRNA
hsa-mir-1225/Upstream/16083; hsa-mir-11401/Downstream/98493;
Nearest TSS
ENST00000527434/Upstream/13401; ENST00000566209/Downstream/2714;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/13272, chr16-CpG: 74/Downstream/3254
Upstream sequence
TATTAATGCCTTGGCTTAACCTGGGCCCTGGATAACGTCCCCACCAACCTTCTCCGCAACCTTGCTCCTTCAGCGACCATCCTCTCTACTGATTCCTTTC
Downstream sequence
CCCTTAATGTTTCCAACAAAATCAGATCTTCCTCAAGATAGAAACAAACAAGCAAACCTTTCTACCTTCTCACACTTACAACCTGCCTTATCTCTGTCCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate