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Viral Integration Site DataBase
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TVIS30000894
Basic Information
VIS ID
TVIS30000894
Fusion event
HIV-CBX5 integration
Validated
Yes
Detection method
QiaQuick PCR and Sequencing
Data source
Curated
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28086908
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr12
Cytoband
q13.13
Reference genome
GRCh38/hg38
Start
54257973 (Hg38)
End
54257973 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
CBX5
miRNAs that regulate target gene
hsa-mir-98-5p
;
hsa-mir-1-3p
;
hsa-mir-484
;
hsa-mir-339-5p
;
hsa-mir-320a
;
hsa-mir-197-3p
;
hsa-mir-92a-3p
;
hsa-let-7e-5p
;
hsa-let-7b-5p
;
hsa-mir-345-5p
;
hsa-mir-4795-3p
;
hsa-mir-1343-3p
;
hsa-mir-6716-5p
;
hsa-mir-6783-3p
;
hsa-mir-6852-5p
;
hsa-mir-6736-3p
;
hsa-mir-548p
;
hsa-mir-4438
;
hsa-mir-4635
;
hsa-mir-488-3p
;
hsa-mir-583
;
hsa-mir-4650-5p
;
hsa-mir-1304-5p
;
hsa-mir-6878-3p
;
hsa-mir-6734-5p
;
hsa-mir-1226-5p
;
hsa-mir-6834-5p
;
hsa-mir-6721-5p
;
hsa-mir-6744-3p
;
hsa-mir-4757-5p
;
hsa-mir-4763-3p
;
hsa-mir-6781-3p
;
hsa-mir-1207-5p
;
hsa-mir-2682-3p
;
hsa-mir-4721
;
hsa-mir-3616-3p
;
hsa-mir-7843-5p
;
hsa-mir-6879-5p
;
hsa-mir-6735-5p
;
hsa-mir-4632-5p
;
hsa-mir-4436b-3p
;
hsa-mir-548at-5p
;
hsa-mir-376a-2-5p
;
hsa-mir-202-3p
;
hsa-mir-6831-5p
;
hsa-mir-4668-3p
;
hsa-mir-3927-3p
;
hsa-let-7a-5p
;
hsa-let-7c-5p
;
hsa-let-7d-5p
;
hsa-let-7g-5p
;
hsa-mir-4458
;
hsa-let-7i-5p
;
hsa-mir-4500
;
hsa-let-7f-5p
;
hsa-mir-514b-3p
;
hsa-mir-514a-3p
;
hsa-mir-4477a
;
hsa-mir-4316
;
hsa-mir-1294
;
hsa-mir-4677-3p
;
hsa-mir-16-1-3p
;
hsa-mir-126-5p
;
hsa-mir-5683
;
hsa-mir-370-5p
;
hsa-mir-383-3p
;
hsa-mir-3065-3p
;
hsa-mir-5089-5p
;
hsa-mir-7151-3p
;
hsa-mir-5095
;
hsa-mir-5589-5p
;
hsa-mir-4731-5p
;
hsa-mir-6778-3p
;
hsa-mir-4252
;
hsa-mir-6506-5p
;
hsa-mir-619-5p
;
hsa-mir-150-5p
;
hsa-mir-3937
;
hsa-mir-520h
;
hsa-mir-520g-3p
;
hsa-mir-6504-3p
;
hsa-mir-512-3p
;
hsa-mir-449b-3p
;
hsa-mir-520e
;
hsa-mir-520d-3p
;
hsa-mir-520c-3p
;
hsa-mir-520b
;
hsa-mir-520a-3p
;
hsa-mir-373-3p
;
hsa-mir-372-3p
;
hsa-mir-302e
;
hsa-mir-302d-3p
;
hsa-mir-302c-3p
;
hsa-mir-302b-3p
;
hsa-mir-302a-3p
;
hsa-mir-93-5p
;
hsa-mir-526b-3p
;
hsa-mir-519d-3p
;
hsa-mir-20b-5p
;
hsa-mir-20a-5p
;
hsa-mir-17-5p
;
hsa-mir-106b-5p
;
hsa-mir-106a-5p
;
hsa-mir-6771-5p
;
hsa-mir-7977
;
hsa-mir-566
;
hsa-mir-4743-5p
;
hsa-mir-4268
;
hsa-mir-6720-3p
;
hsa-mir-20b-3p
;
hsa-mir-6746-5p
;
hsa-mir-4267
;
hsa-mir-2114-5p
;
hsa-mir-5588-3p
;
hsa-mir-4256
;
hsa-mir-6505-3p
;
hsa-mir-617
;
hsa-mir-4646-5p
;
hsa-mir-204-3p
;
hsa-mir-4735-5p
;
hsa-mir-6742-3p
;
hsa-mir-939-3p
;
hsa-mir-19b-3p
;
hsa-mir-19a-3p
;
hsa-mir-1180-5p
;
hsa-mir-1343-5p
;
hsa-mir-2110
;
hsa-mir-3150a-3p
;
hsa-mir-3175
;
hsa-mir-3908
;
hsa-mir-450a-2-3p
;
hsa-mir-509-3p
;
hsa-mir-6763-5p
;
hsa-mir-6810-5p
;
hsa-mir-6825-5p
;
hsa-mir-6857-5p
;
hsa-mir-7114-3p
;
hsa-mir-7973
;
hsa-mir-92a-1-5p
;
hsa-mir-939-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/26497; hsa-let-7i/Downstream/79243;
Nearest TSS
ENST00000382841/Upstream/5448;
ENST00000547177/Downstream/454;
Nearest CpG islands
None/Target,
chr12-CpG: 104/Upstream/39719
,
chr12-CpG: 18/Downstream/21565
Nearest cancer related gene
CBX5
(TSG, No orient, 0)
Upstream sequence
AACTACAACCTCCTCTTCGGCTAAAGAGACCAAAATTATTAGAAGGCACAACTGTTTAACTCTTCTATTTCAGATTCCAAAAGACAAGTAGTGTGGTATG
Downstream sequence
TTATTCCTGGCTATGTTTGTAACTGTTTACAAGCCAGGAACTCAAACAGAAATGTGCAAAATCTTTAGTTAAATGAACCAAGATAAAATTAAAACCTTTT
Reference
Symons, J., et al. HIV integration sites in latently infected cell lines: evidence of ongoing replication. Retrovirology,2017, 14(1): 2.
Sample Information
×
Sample name
J1.1
Sample type
Cell line
Gender
Female
CpG Island Information
×
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