Basic Information
VIS ID
TVIS30016141
Fusion event
HIV-CCDC36 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
chr3
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
49242014/49204581 (Hg38)
End
49242115/49204581 (Hg38)
Orient
+
Location type
Intronic
Target gene
CCDC36
miRNAs that regulate target gene
hsa-mir-139-3p ; hsa-mir-8082 ; hsa-mir-4534 ; hsa-mir-1273f ; hsa-mir-4786-5p ; hsa-mir-664a-5p ; hsa-mir-4794 ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-4793-5p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-6888-5p ; hsa-mir-6502-3p ; hsa-mir-1247-3p ; hsa-mir-1827 ; hsa-mir-25-5p ; hsa-mir-4327 ; hsa-mir-4537 ; hsa-mir-455-3p ; hsa-mir-4722-5p ; hsa-mir-5186 ; hsa-mir-6499-3p ; hsa-mir-6516-5p ; hsa-mir-6808-5p ; hsa-mir-6893-5p ; hsa-mir-940
Nearest miRNA
hsa-mir-12127/Upstream/104667; hsa-let-7g/Downstream/69539;
Nearest TSS
ENST00000440867/Upstream/4964; ENST00000440528/Downstream/55504;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/4686, chr3-CpG: 39/Downstream/72423
Upstream sequence
TGTGAAGGGATCCCCCCAAAATTTTATACTTTCCTTCTGAAAGAATTTTGGTGATGAGGAGCTGTAATCTGAAAGGGGCTTTTTCTGAGAGCTTATGGAG
Downstream sequence
aatttggagcaagtctacagagtagagtgaaagcaagtttattaagaaagtaaagaactgggccgggcgtggtggctcacgcctgtaatcccagcacttt
Target sequence
GAAAGTAAGGCAGATGAAATGATGCTTTGTTGGGGAAGAtgttaccagaaaggggtcccagtccagactccaagaaggggttcttggatgtctcacaagaa
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