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TVIS30004688
Basic Information
VIS ID
TVIS30004688
Fusion event
HIV-PTBP1 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
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
810367/810367 (Hg38)
End
810367/810367 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
PTBP1
miRNAs that regulate target gene
hsa-mir-1-3p
;
hsa-mir-124-3p
;
hsa-mir-615-3p
;
hsa-mir-92b-3p
;
hsa-mir-378a-3p
;
hsa-mir-15b-5p
;
hsa-mir-92a-3p
;
hsa-mir-30a-5p
;
hsa-mir-17-3p
;
hsa-mir-17-5p
;
hsa-mir-340-5p
;
hsa-mir-374a-5p
;
hsa-mir-559
;
hsa-mir-548b-5p
;
hsa-mir-548a-5p
;
hsa-mir-548c-5p
;
hsa-mir-548d-5p
;
hsa-mir-548j-5p
;
hsa-mir-548h-5p
;
hsa-mir-548i
;
hsa-mir-548w
;
hsa-mir-548y
;
hsa-mir-548o-5p
;
hsa-mir-548ab
;
hsa-mir-548ad-5p
;
hsa-mir-548ae-5p
;
hsa-mir-548ak
;
hsa-mir-548am-5p
;
hsa-mir-548ap-5p
;
hsa-mir-548aq-5p
;
hsa-mir-548ar-5p
;
hsa-mir-548as-5p
;
hsa-mir-548au-5p
;
hsa-mir-548ay-5p
;
hsa-mir-548bb-5p
;
hsa-mir-5582-5p
;
hsa-mir-548n
;
hsa-mir-548t-5p
;
hsa-mir-4476
;
hsa-mir-548az-5p
;
hsa-mir-6830-5p
;
hsa-mir-6876-5p
;
hsa-mir-194-5p
;
hsa-mir-624-3p
;
hsa-mir-802
;
hsa-mir-3163
;
hsa-mir-4457
;
hsa-mir-329-5p
;
hsa-mir-506-3p
;
hsa-mir-605-3p
;
hsa-mir-657
;
hsa-mir-940
;
hsa-mir-3714
;
hsa-mir-4736
;
hsa-mir-6808-5p
;
hsa-mir-6893-5p
;
hsa-mir-7856-5p
;
hsa-mir-4477b
;
hsa-mir-647
;
hsa-mir-6762-3p
;
hsa-mir-4440
;
hsa-mir-604
;
hsa-mir-671-5p
;
hsa-mir-4480
;
hsa-mir-4722-5p
;
hsa-mir-1286
;
hsa-mir-873-5p
;
hsa-mir-4786-3p
;
hsa-mir-1205
;
hsa-mir-3691-3p
;
hsa-mir-3910
;
hsa-mir-659-5p
;
hsa-mir-127-5p
;
hsa-mir-670-5p
;
hsa-mir-4467
;
hsa-mir-1273a
;
hsa-mir-3934-3p
;
hsa-mir-4707-3p
;
hsa-mir-6087
;
hsa-mir-6806-3p
;
hsa-mir-3928-5p
;
hsa-mir-4518
;
hsa-mir-1266-5p
;
hsa-mir-6734-3p
;
hsa-mir-4319
;
hsa-mir-125b-5p
;
hsa-mir-125a-5p
;
hsa-mir-4732-3p
;
hsa-mir-7108-3p
;
hsa-mir-6756-3p
;
hsa-mir-3127-3p
;
hsa-mir-6798-5p
;
hsa-mir-6854-5p
;
hsa-mir-133b
;
hsa-mir-1199-3p
;
hsa-mir-1292-3p
;
hsa-mir-1908-3p
;
hsa-mir-3648
;
hsa-mir-6076
;
hsa-mir-6797-3p
;
hsa-mir-6869-3p
Nearest miRNA
hsa-mir-1302-11/Upstream/5366; hsa-let-7e/Downstream/3217;
Nearest TSS
ENST00000633603/Upstream/2508;
ENST00000592205/Downstream/4544;
Nearest CpG islands
None/Target,
chr19-CpG: 112/Upstream/1533
,
chr19-CpG: 296/Downstream/1537
Upstream sequence
tgtgctcccgcctgggcgacagagcaagattccatctggaaaaaaaaaaGTGGAGGAGCGTGGTACTCTGTTTCTGCAAACTTGTAGATGCCTGGTTTCG
Downstream sequence
TTAGAAGCTGCTTCAGACCATTGTGGACATGATTTGATACCCCATTTCTGGGCTCCTAAAAGGCCCTACGCCTTCCCCGGCTACTCTGAAAACTAGTCTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Sample Information
×
Sample name
Bcl-2 transduced CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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