Basic Information
VIS ID
TVIS30012992
Fusion event
HIV-GRAP2 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
chr22
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
40308607/39912603 (Hg38)
End
40308607/39912603 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
GRAP2
miRNAs that regulate target gene
hsa-mir-3605-5p ; hsa-mir-3679-5p ; hsa-mir-1185-5p ; hsa-mir-7153-5p ; hsa-mir-146b-5p ; hsa-mir-146a-5p ; hsa-mir-4756-3p ; hsa-mir-3925-5p ; hsa-mir-3919 ; hsa-mir-1183 ; hsa-mir-383-5p ; hsa-mir-129-5p ; hsa-mir-550b-3p ; hsa-mir-670-5p ; hsa-mir-4313 ; hsa-mir-324-3p ; hsa-mir-1913 ; hsa-mir-6752-3p ; hsa-mir-361-3p ; hsa-mir-4775 ; hsa-mir-4758-5p ; hsa-mir-548s ; hsa-mir-1238-5p ; hsa-mir-3926 ; hsa-mir-4745-5p ; hsa-mir-3190-5p ; hsa-mir-4481 ; hsa-mir-7162-3p ; hsa-mir-544b ; hsa-mir-4459 ; hsa-mir-4433a-3p ; hsa-mir-4768-3p ; hsa-mir-6765-3p ; hsa-mir-3622b-3p ; hsa-mir-3620-3p ; hsa-mir-3622a-3p ; hsa-mir-6849-5p ; hsa-mir-3681-5p ; hsa-mir-504-5p
Nearest miRNA
hsa-mir-1286/Upstream/1923750; hsa-let-7a-3/Downstream/901280;
Nearest TSS
ENST00000624155/Upstream/11521; ENST00000461082/Downstream/13988;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/226053, chr22-CpG: 108/Downstream/81877
Upstream sequence
caggaaacattttttgtcacagtttgcagggagaggtcctactggtgggtagaagctagggatgctgctgagaatcctacaatgcacaggatgggccccc
Downstream sequence
acaacaaggacttaactggccccaaatgtcaatagtgacaaggttggaaaacACCAGTATATGATTTATAAAGACTCAGATGTGCGACCATAAACCATAG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate