VISDB Viral Integration Site DataBase

VIS ID

TVIS20004196

Fusion event

HPV-MACROD2 integration

Validated

Yes

Detection method

APOT and sequencing

Data source

Curated

Sample type

Disease

Cervical carcinoma (CC)

Quality evaluation

Good

Reported year

2018

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Strand

-

Gene

L1

Start

6420

End

6639

Orient

-

Integrated sequence

ATAGGGCTGGTGCTGTTGGTGAAAATGTACCAGACGATTTATACATTAAAGGCTCTGGGTCTACTGCAAATTTAGCCAGTTCAAATTATTTTCCTACACCTAGTGGTTCTATGGTTACCTCTGATGCCCAAATATTCAATAAACCTTATTGGTTACAACGAGCACAGGGCCACAATAATGGCATTTGTTGGGGTAACCAACTATTTGTTACTGTTGTTGA

Chromosome

chr20

Cytoband

p12.1

Reference genome

Start

End

15286003/15305357 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-4469 ; hsa-mir-486-5p ; hsa-mir-660-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-618 ; hsa-mir-502-5p ; hsa-mir-4786-3p ; hsa-mir-1915-5p ; hsa-mir-6841-3p ; hsa-mir-153-5p ; hsa-mir-6808-3p ; hsa-mir-7973 ; hsa-mir-486-3p ; hsa-mir-4252 ; hsa-mir-4725-5p ; hsa-mir-6852-5p ; hsa-mir-6791-5p ; hsa-mir-4292 ; hsa-mir-504-5p

Nearest miRNA

hsa-mir-103a-2/Upstream/4655453; hsa-mir-1-1/Downstream/3165258;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/1308726, chr20-CpG: 50/Downstream/1267834

Nearby gene

MACROD2-AS1(+375630) ;

Upstream sequence

acatctgtaaattttctctctctgtgtctttcttcttgatgcttatttgttgaagaaacaaggtaatatgtcctgtagagtttcccaccatgtggatctc

Downstream sequence

TAGTCCAGAATTATCTGGTTATAATTATATTATGAAATCTCATAATTTTTATCATGTTTATTTTGCTAACTAAGCAACAGTTAAGGCACACAAATAAATG

Target sequence

aatggatccttgggcctcgtgttctcatctgtTCATACTTTATAATTACACAACTTTAGTTTATCAAGAGTTCCTTTTATTTGTTTTTTTTTTCCCATGGATCTCATGTTTAAGATATTTTCTCCATGAAACAGCGCACCTATTGAACATATTTACATTGTTTCACTTACACTGTCCTCTTTTTCCAAAATGATTCAGATTTTAAACAA