Basic Information
VIS ID
TVIS30003775
Fusion event
HIV-SGCD 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
chr5
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
155893008/156465998 (Hg38)
End
155893008/156465998 (Hg38)
Orient
-
Location type
Intronic
Target gene
SGCD
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-647 ; hsa-mir-1294 ; hsa-mir-4316 ; hsa-mir-6762-3p ; hsa-mir-604 ; hsa-mir-3926 ; hsa-mir-4480 ; hsa-mir-5008-5p ; hsa-mir-6089 ; hsa-mir-4761-5p ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-10b-3p ; hsa-mir-5680 ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-627-3p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-4307 ; hsa-mir-6839-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-629-5p ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-4506 ; hsa-mir-335-3p ; hsa-mir-4477a ; hsa-mir-6759-3p ; hsa-mir-3152-3p ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-320e
Nearest miRNA
hsa-mir-10397/Upstream/1636458; hsa-mir-103a-1/Downstream/4008404;
Nearest TSS
ENST00000502646/Upstream/139050; ENST00000522232/Downstream/273814;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/736624, chr5-CpG: 45/Downstream/384293
Upstream sequence
TGTACTCATTACTTGAGACTATCAGACTTCTTTGCTAATGGACATTTTGTTTTTGTTTCAGAAGTTCGTAGTTGGTATGTGTTGGAAAAGAAAAAGCAAT
Downstream sequence
ATACTTATTCCTTCCCCTTTGGGACAATATCTTTCAAATCTCTCATTTCTGTGCAGCCTCCCAAGCTTTCTCTGCAGCCAGCAATGTCATATACAAGTTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate