Basic Information
VIS ID
TVIS30015993
Fusion event
HIV-TTC28 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr22
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
28820612/28424624 (Hg38)
End
28820880/28424624 (Hg38)
Orient
+
Location type
Intronic
Target gene
TTC28
miRNAs that regulate target gene
hsa-mir-378a-3p ; hsa-mir-182-5p ; hsa-mir-6741-5p ; hsa-mir-6514-3p ; hsa-mir-7977 ; hsa-mir-4727-3p ; hsa-mir-6866-5p ; hsa-mir-6748-5p ; hsa-mir-877-5p ; hsa-mir-550a-5p ; hsa-mir-550a-3-5p ; hsa-mir-6811-3p ; hsa-mir-1271-3p ; hsa-mir-214-5p ; hsa-mir-5690 ; hsa-mir-20b-3p ; hsa-mir-5588-3p ; hsa-mir-1296-3p ; hsa-mir-374c-3p ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-3190-5p ; hsa-mir-6849-3p ; hsa-mir-3675-3p ; hsa-mir-6771-3p ; hsa-mir-548c-3p ; hsa-mir-4786-5p ; hsa-mir-129-5p ; hsa-mir-3688-3p ; hsa-mir-4496 ; hsa-mir-5093 ; hsa-mir-651-3p ; hsa-mir-6885-3p
Nearest miRNA
hsa-mir-1286/Upstream/504012; hsa-let-7a-3/Downstream/35245;
Nearest TSS
ENST00000624155/Upstream/117979; ENST00000485599/Downstream/18449;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/504654, chr22-CpG: 109/Downstream/254488
Upstream sequence
TGAGGTATTATCTCTTTATCCAAGTCATAGTATAAATATAATAACAGCTTCCTTTGAATACAGTACCAGGTAAAAGCATCTCATACCTAATTCTGTGCTA
Downstream sequence
CTCTCAGCAAACATTTACTCTGGGTTCTTGGATTAGAAGAACATTTGTGGTAGGCAAAAGGTAAATAATAAACCACAATGCTACTCAACCAGTGACCTAA
Target sequence
GCGTCATAGCTGTTTCCAGTAAAGTTCTTACTATTTGGCTTCGATATGAGGTCATTTCTCACCTCTGGGCTTTATTATACCAAACTATAACCACATTTAGTCAAACATTTAGATCTTTGCTAATTTCCAGTTAGCCCCTATCCATATGTTCCTGTTTCACAAACCTCCTGGATTACATCAGTCAGGAATAGCTGCTGGCAGCTGTTTGCCATTCAATTTTGCTACCACTAAAGCATGTGAATATTTCATTGTTTA
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate