Basic Information
VIS ID
TVIS30003497
Fusion event
HIV-FYCO1 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
chr3
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
45998492/45957000 (Hg38)
End
45998492/45957000 (Hg38)
Orient
+
Location type
Intronic
Target gene
FYCO1
miRNAs that regulate target gene
hsa-mir-373-3p ; hsa-mir-130b-3p ; hsa-mir-93-5p ; hsa-mir-19b-3p ; hsa-mir-615-3p ; hsa-mir-484 ; hsa-mir-378a-5p ; hsa-mir-92a-3p ; hsa-mir-578 ; hsa-mir-218-5p ; hsa-mir-20a-5p ; hsa-mir-142-3p ; hsa-mir-106b-5p ; hsa-mir-6079 ; hsa-mir-6077 ; hsa-mir-502-5p ; hsa-mir-7-5p ; hsa-mir-6770-5p ; hsa-mir-1253 ; hsa-mir-203a-3p ; hsa-mir-494-3p ; hsa-mir-3189-3p ; hsa-mir-212-5p ; hsa-mir-4511 ; hsa-mir-4803 ; hsa-mir-1252-3p ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-2052 ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-3160-5p ; hsa-mir-6827-3p ; hsa-mir-340-3p ; hsa-mir-595 ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-12127/Upstream/1095019; hsa-let-7g/Downstream/1892555;
Nearest TSS
ENST00000440867/Upstream/11951; ENST00000484025/Downstream/1572;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/114632, chr3-CpG: 48/Downstream/38521
Upstream sequence
acttatatagaaaaacaaaaaacctagaatagccaatactttgataaagaacaaaactggagtcactctacgtgatgttaagatgctttataaaactatg
Downstream sequence
gtcatcataacagtttggtattagtgaaagaataggcacatagataaatggaatagaataaaagtccagatataaatccacacatataaggtcaattgcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate