Basic Information
VIS ID
TVIS30010921
Fusion event
HIV-HNRNPH1 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
chr5
Cytoband
q35.3
Reference genome
GRCh37/hg19
Start
179042043/179615042 (Hg38)
End
179042043/179615042 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
HNRNPH1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-21-5p ; hsa-mir-877-3p ; hsa-mir-193b-3p ; hsa-mir-331-3p ; hsa-mir-149-5p ; hsa-mir-222-3p ; hsa-mir-30d-5p ; hsa-mir-197-3p ; hsa-mir-1245a ; hsa-mir-181a-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p ; hsa-mir-2355-5p ; hsa-mir-383-5p ; hsa-mir-4262 ; hsa-mir-4275 ; hsa-mir-4276 ; hsa-mir-4697-3p ; hsa-mir-4772-5p ; hsa-mir-5190 ; hsa-mir-5702 ; hsa-mir-8079
Nearest miRNA
hsa-mir-10397/Upstream/2985542; hsa-mir-1229/Downstream/183236;
Nearest TSS
ENST00000502646/Upstream/7776; ENST00000508188/Downstream/1245;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/37207, chr5-CpG: 158/Downstream/7959
Upstream sequence
CACTGCTCCTTGGTTACCTGCAAAGAGATCAATTTGACAAGTTAGGAGTAATATCAGACTACCAGTCAAATAAAATATAGTATTCCAAGAAAAAGTTTAA
Downstream sequence
AAAGTATACGAGTACAAATGGCTGCTGTCCAAGTGGCGAGACGCATGTTTGGGAAAGGGGAATCCCGACTCCAAACAAGCCTCAATTAACCCCTTTTCTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate