hsa-mir-6855-5p _CESC.png
hsa-mir-588 _CESC.png
C6orf89 _CESC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004622
Fusion event
HPV-C6orf89 integration
Validated
Yes
Detection method
FISH, WGS, RNA-seq, qPCR
Data source
Curated
Sample type
Tumor
Disease
Cervical carcinoma (CC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
24201445
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Gene
L2
Start
4970
End
5004
Integrated sequence
CCCACTAAACTTATTACATATGATAATCCTGCATA
Host Sequence
Chromosome
chr6
Cytoband
p21.2
Reference genome
GRCh37/hg19
Start
36878615/36910796 (Hg38)
End
36878572/36910839 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
C6orf89
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-3918 ; hsa-mir-4685-5p ; hsa-mir-6837-5p ; hsa-mir-6895-5p ; hsa-mir-7106-3p ; hsa-mir-6741-5p ; hsa-mir-4662a-5p ; hsa-mir-5580-5p ; hsa-mir-6868-5p ; hsa-mir-1245b-3p ; hsa-mir-5096 ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-6802-3p ; hsa-mir-411-5p ; hsa-mir-6832-5p ; hsa-mir-193b-5p ; hsa-mir-1273f ; hsa-mir-3620-3p ; hsa-mir-6865-3p ; hsa-mir-6890-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-7113-5p
Nearest miRNA
hsa-mir-1236/Upstream/288284; hsa-mir-10398/Downstream/644526;
Nearest TSS
ENST00000381078/Upstream/24932; ENST00000491324/Downstream/33836;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/24645, chr6-CpG: 35/Downstream/48313
Target sequence
gggattacaagcatcagccaccacCCATAAATGTTTtatcttg
Junction sequence
GGGTGGTGGCTGATGCTTGTAATCCCAGCTAAACTTATTACATATGATAATCCTG
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Akagi, K., et al.Genome-wide analysis of HPV integration in human cancers reveals recurrent, focal genomic instability. Genome Res ,2014,24(2): 185-199.
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