Basic Information
VIS ID
TVIS30010854
Fusion event
HIV-HNRNPD 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
q21.22
Reference genome
GRCh37/hg19
Start
83279729/82358576 (Hg38)
End
83279729/82358576 (Hg38)
Orient
-
Location type
Intronic
Target gene
HNRNPD
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-1-3p ; hsa-mir-221-3p ; hsa-mir-1229-3p ; hsa-mir-18a-3p ; hsa-mir-222-3p ; hsa-mir-146b-5p ; hsa-mir-141-3p ; hsa-mir-18b-3p ; hsa-mir-6782-3p ; hsa-mir-3613-3p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548as-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-450a-2-3p ; hsa-mir-6857-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-6810-5p ; hsa-mir-2110 ; hsa-mir-3147 ; hsa-mir-4450 ; hsa-mir-4425
Nearest miRNA
hsa-mir-12113/Upstream/5782950; hsa-mir-1243/Downstream/394761;
Nearest TSS
ENST00000502981/Upstream/1184; ENST00000609552/Downstream/266;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/73385, chr4-CpG: 105/Downstream/15116
Upstream sequence
AAAAACACATTATCCAACCTTCAAAGACCTGCTAATGAAGTATTTACAATATCCTTATTCCAAAACAGATCACATAATCTACCCTAACAGCTTTGAAAAG
Downstream sequence
CCAAGTGACTCTGAGTCCATAATGGGACAATCACATTCACACTAATTTTGACATAAACTGGGTCAAAACATTTATAACATACCTCACCAAAACCACCAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate