Basic Information
VIS ID
TVIS30007386
Fusion event
HIV-MYDGF 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
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
4665649/4665637 (Hg38)
End
4665649/4665637 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
MYDGF
miRNAs that regulate target gene
hsa-mir-1229-3p ; hsa-mir-1262 ; hsa-mir-1273g-3p ; hsa-mir-3134 ; hsa-mir-451b ; hsa-mir-4534 ; hsa-mir-4701-3p ; hsa-mir-4793-3p ; hsa-mir-508-5p ; hsa-mir-6081 ; hsa-mir-6512-3p ; hsa-mir-661 ; hsa-mir-6720-5p ; hsa-mir-6736-5p ; hsa-mir-6776-5p ; hsa-mir-766-3p ; hsa-mir-7703 ; hsa-mir-8082
Nearest miRNA
hsa-mir-1227/Upstream/219589; hsa-let-7e/Downstream/105033;
Nearest TSS
ENST00000633603/Upstream/731; ENST00000381796/Downstream/3059;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/13149, chr19-CpG: 85/Downstream/4278
Upstream sequence
caggccgggcgcggtggctcacgcctgtaatcccagcactttgggaggccgaggcaggcagatcacgaggtcaggagatcaagaccatcctggctaacat
Downstream sequence
gatgaaaccccatctctactaaaaatacaaaaaattagccgagcgcagtggtgggcgcctgtagtcccagctactcgggaggctaaggcaggagaatggc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate