Basic Information
VIS ID
TVIS30006481
Fusion event
HIV-SUSD6 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
chr14
Cytoband
q24.1
Reference genome
GRCh37/hg19
Start
70084995/69618278 (Hg38)
End
70084995/69618278 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA14C
Target gene
SUSD6
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-1233-5p ; hsa-mir-1275 ; hsa-mir-1343-3p ; hsa-mir-149-3p ; hsa-mir-3677-5p ; hsa-mir-3926 ; hsa-mir-4271 ; hsa-mir-4525 ; hsa-mir-4648 ; hsa-mir-4654 ; hsa-mir-4665-5p ; hsa-mir-4723-5p ; hsa-mir-4725-3p ; hsa-mir-4728-5p ; hsa-mir-4769-5p ; hsa-mir-5010-5p ; hsa-mir-548s ; hsa-mir-5698 ; hsa-mir-595 ; hsa-mir-625-5p ; hsa-mir-637 ; hsa-mir-6742-3p ; hsa-mir-6778-5p ; hsa-mir-6780b-5p ; hsa-mir-6783-3p ; hsa-mir-6783-5p ; hsa-mir-6785-5p ; hsa-mir-6825-5p ; hsa-mir-6852-5p ; hsa-mir-6870-5p ; hsa-mir-6883-5p ; hsa-mir-7111-5p ; hsa-mir-939-3p
Nearest miRNA
hsa-mir-208a/Upstream/2176348; hsa-mir-1185-1/Downstream/2898542;
Nearest TSS
ENST00000550708/Upstream/6640; ENST00000556993/Downstream/40232;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/5918, chr14-CpG: 45/Downstream/108472
Upstream sequence
ttttgagcacccacatgatggagaattccacacctgacctcatgttttaggtcacagtcaaaactaccttcagtctatgtgtattacgtgtaaatgaaac
Downstream sequence
ataaatggattttatgtttagaccagggtcccatccctgagatacctgattatgtatatacaaatattcgaaaatctaaaacatttgtgatcccaagcat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate