Basic Information
VIS ID
TVIS30003654
Fusion event
HIV-SLC4A4 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
chr4
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
72054906/71189189 (Hg38)
End
72054906/71189189 (Hg38)
Orient
-
Location type
Intronic
Target gene
SLC4A4
miRNAs that regulate target gene
hsa-mir-5585-3p ; hsa-mir-498 ; hsa-mir-4279 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6778-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p
Nearest miRNA
hsa-mir-12113/Upstream/4912261; hsa-mir-1243/Downstream/5384379;
Nearest TSS
ENST00000502981/Upstream/1862; ENST00000638464/Downstream/46840;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1437, chr4-CpG: 30/Downstream/842658
Upstream sequence
TAGGAGTGGGGGTGACAAGGACAAGATGGGATATTTTGATAGTCCCAGCCATGTTAAAAAAACTGAAAACTAAGAAACCCCCAACATTTTGGATTTAAGT
Downstream sequence
GTACTTCAGAATGAGGGTTTTGGTGCCATTTGCTCTTTTGGGGTCATTTCTGGAGACTTAAAAACATACATTAGACACCTTACCCAATGAGATTGACAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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