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Viral Integration Site DataBase
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TVIS30009371
Basic Information
VIS ID
TVIS30009371
Fusion event
HIV-ARPC1B 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
chr7
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
98974660/99377037 (Hg38)
End
98974660/99377037 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
ARPC1B
miRNAs that regulate target gene
hsa-mir-124-3p
;
hsa-mir-218-5p
;
hsa-mir-335-3p
;
hsa-mir-1305
;
hsa-mir-3658
;
hsa-mir-3653-3p
;
hsa-mir-153-5p
;
hsa-mir-95-5p
;
hsa-mir-1252-3p
;
hsa-mir-3646
;
hsa-mir-4422
;
hsa-mir-2681-5p
;
hsa-mir-466
;
hsa-mir-4672
;
hsa-mir-3941
;
hsa-mir-5003-3p
;
hsa-mir-6768-5p
;
hsa-mir-6803-5p
;
hsa-mir-6751-5p
;
hsa-mir-7109-5p
;
hsa-mir-4665-5p
;
hsa-mir-1275
;
hsa-mir-6848-5p
;
hsa-mir-6846-5p
;
hsa-mir-4697-5p
;
hsa-mir-4488
;
hsa-mir-1237-5p
;
hsa-mir-33b-5p
;
hsa-mir-33a-5p
;
hsa-mir-5572
;
hsa-mir-4260
;
hsa-mir-450a-2-3p
;
hsa-mir-556-3p
Nearest miRNA
hsa-mir-10525/Upstream/495308; hsa-mir-10399/Downstream/32135;
Nearest TSS
ENST00000635602/Upstream/2307;
ENST00000493403/Downstream/8663;
Nearest CpG islands
None/Target,
chr7-CpG: 39/Upstream/1490
,
chr7-CpG: 80/Downstream/15497
Upstream sequence
CTGGGTAAAATCGCCCTGATAGATGCCGGTAAAGTTTGTTTCTTACATATGTCTGTACATAATCCATTGATAGGtctttttctttttttctggagtccgg
Downstream sequence
gtctcattgtgttgcccaggctatagtgccatggcttgatcataactcactttagccccaaactcctgggctcaagggatcctcctgagtagctgggatt
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
Central Memory CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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