Basic Information
VIS ID
TVIS30000540
Fusion event
HIV-CACNA1C 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr12
Cytoband
p13.33
Reference genome
GRCh37/hg19
Start
2469915/2360749 (Hg38)
End
2469915/2360749 (Hg38)
Orient
-
Location type
Intronic
Target gene
CACNA1C
miRNAs that regulate target gene
hsa-mir-133a-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-4780 ; hsa-mir-6780b-3p ; hsa-mir-3938 ; hsa-mir-6791-5p ; hsa-mir-6778-5p ; hsa-mir-450a-2-3p ; hsa-mir-6857-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-6810-5p ; hsa-mir-2110 ; hsa-mir-3147 ; hsa-mir-4425 ; hsa-mir-185-3p ; hsa-mir-4283 ; hsa-mir-4489 ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-5001-5p ; hsa-mir-762 ; hsa-mir-4498 ; hsa-mir-4492 ; hsa-mir-7106-5p ; hsa-mir-920 ; hsa-mir-6726-5p ; hsa-mir-5591-5p ; hsa-mir-4300 ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-4731-5p ; hsa-mir-6754-5p ; hsa-mir-4487 ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-29a-3p ; hsa-mir-208a-3p ; hsa-mir-208b-3p ; hsa-mir-103a-3p
Nearest miRNA
hsa-mir-3649/Upstream/700369; hsa-let-7i/Downstream/4602950;
Nearest TSS
ENST00000382841/Upstream/137270; ENST00000491104/Downstream/143687;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/130300, chr12-CpG: 24/Downstream/318699
Upstream sequence
ggtcattttacctctccccgttgcagtttctttctctggaaaaggagacacccggactggacagtctctgaggtccatccagctctacctttctgtCTCT
Downstream sequence
ACTGGCTGTTTGAAGAATTGCAATGCTCGAAGAGTATAAAGTAGATTCAGTGTAATATTTCGTAGTGAAGTATTTTAAATTCAATGTTTTTTTTTTCTTT
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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