Basic Information
VIS ID
TVIS30003741
Fusion event
HIV-FER 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
q21.3
Reference genome
GRCh37/hg19
Start
108191348/108855647 (Hg38)
End
108191348/108855647 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5F
Target gene
FER
miRNAs that regulate target gene
hsa-mir-26a-2-3p ; hsa-mir-26a-5p ; hsa-mir-17-5p ; hsa-mir-5585-3p ; hsa-mir-190a-3p ; hsa-mir-4635 ; hsa-mir-5011-5p ; hsa-mir-1277-5p ; hsa-mir-6507-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-218-1-3p ; hsa-mir-33b-5p ; hsa-mir-33a-5p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-642a-5p ; hsa-mir-4326 ; hsa-mir-4469 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-582-3p ; hsa-mir-6071 ; hsa-mir-6882-3p ; hsa-mir-3692-5p ; hsa-mir-93-3p ; hsa-mir-4686
Nearest miRNA
hsa-mir-10397/Upstream/8039082; hsa-mir-103a-1/Downstream/1658182;
Nearest TSS
ENST00000502646/Upstream/24857; ENST00000505323/Downstream/42001;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/106145, chr5-CpG: 61/Downstream/553578
Upstream sequence
gaggcggaacttgcagtgagccaagatcgcgccactgcactccagcgaaaaaaaaaaaaaaaagaatacaaaagaccaatgtaaaaggaaaactaagtga
Downstream sequence
atgtactattctggaagacagatgtgggaagataggtttcaaggaagagcaagtgatcaactaggttgaatactgctaaaacataaggtgaggattaaga
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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