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mmu_circPpp2r2b_890
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp2r2b_890
mm39_Chr. Position ID:
chr18|42796174|42874258|-
Gene name:
Ppp2r2b
Transcript:
ENSMUST00000136118.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,25192,38360,68677,74791,77986
Genomic length:
78084
Exon/intron sizes in nt:
170,165,178,113,166,98
Flanking exon/introns:
chr18:42781830-42796174|chr18:42874258-43031809
Splice length:
890
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19904, circAtlas: mmu-Ppp2r2b_0005
Human Ortholog IDs:
Mature spliced Sequence:
CTGACATTATCTCTACGGTAGAATTCAACCACACGGGAGAGTTACTAGCGACGGGGGACAAGGGGGGTCGGGTCGTAATATTTCAGCGAGAACAGGAGAGTAAAAACCAGGTTCATCGTAGGGGTGAATACAATGTTTACAGCACATTCCAGAGCCATGAACCCGAGTTCGATTACCTGAAAAGTTTAGAAATAGAAGAAAAAATCAATAAGATAAGATGGCTCCCTCAACAAAACGCAGCTTACTTTCTTCTGTCTACCAACGATAAAACTGTGAAGCTGTGGAAAGTCAGTGAGCGGGATAAGAGGCCAGAAGGCTACAACCTGAAAGATGAGGAGGGCCGGCTCCGGGATCCTGCCACCATCACAACCCTGCGGGTGCCTGTCCTGAGACCCATGGACCTGATGGTGGAGGCCACCCCACGAAGAGTGTTTGCCAATGCGCACACGTACCACATCAACTCTATATCTGTCAACAGCGACTATGAGACCTACATGTCTGCTGATGACCTGAGGATTAATCTGTGGAACTTTGAGATAACCAATCAGAGTTTTAATATCGTGGACATCAAGCCAGCCAACATGGAGGAGCTCACAGAGGTGATCACTGCAGCTGAGTTCCACCCCCACCACTGCAACACCTTCGTATACAGCAGCAGCAAGGGGACAATCCGGCTGTGTGACATGCGTGCATCTGCGCTGTGTGACAGGCACACCAAGTTTTTTGAAGAACCGGAAGATCCAAGCAACAGATCGTTTTTCTCTGAAATCATCTCTTCAATTTCGGATGTGAAATTCAGCCACAGTGGGAGGTATATCATGACCAGAGACTATCTGACCGTGAAAGTCTGGGACCTCAACATGGAAAATCGCCCCATTGAGACATACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATTCAGCCACAGTGGGAGG
59.96
CGTCGCTAGTAACTCTCCCG
59.7
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGCCACAGTGGGAGGTAT
60.25
CGTCGCTAGTAACTCTCCCG
59.7
148
PCR template sequence:
GAAATTCAGCCACAGTGGGAGGTATATCATGACCAGAGACTATCTGACCGTGAAAGTCTGGGACCTCAACATGGAAAATCGCCCCATTGAGACATACCAGCTGACATTATCTCTACGGTAGAATTCAACCACACGGGAGAGTTACTAGCGACGGGGGACAAGGGGGGTCGGGTCGTAATATTTCAGCGAGAACAGGAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-30c-5p(1), mmu-miR-30b-5p(1), mmu-miR-433-3p(1), mmu-miR-433-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAGACATACCAGCTGACATTATCTC
siRNA sets
TAATGTCAGCTGGTATGTC, AATGTCAGCTGGTATGTCT, ATGTCAGCTGGTATGTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP2R2B_890_ORF_1
1.1522
0.352252917
0.883067521
516
ORF sequence:
ATGGACCTGATGGTGGAGGCCACCCCACGAAGAGTGTTTGCCAATGCGCACACGTACCACATCAACTCTATATCTGTCAACAGCGACTATGAGACCTACATGTCTGCTGATGACCTGAGGATTAATCTGTGGAACTTTGAGATAACCAATCAGAGTTTTAATATCGTGGACATCAAGCCAGCCAACATGGAGGAGCTCACAGAGGTGATCACTGCAGCTGAGTTCCACCCCCACCACTGCAACACCTTCGTATACAGCAGCAGCAAGGGGACAATCCGGCTGTGTGACATGCGTGCATCTGCGCTGTGTGACAGGCACACCAAGTTTTTTGAAGAACCGGAAGATCCAAGCAACAGATCGTTTTTCTCTGAAATCATCTCTTCAATTTCGGATGTGAAATTCAGCCACAGTGGGAGGTATATCATGACCAGAGACTATCTGACCGTGAAAGTCTGGGACCTCAACATGGAAAATCGCCCCATTGAGACATACCAGCTGACATTATCTCTACGGTAG
Peptide sequence:
MDLMVEATPRRVFANAHTYHINSISVNSDYETYMSADDLRINLWNFEITNQSFNIVDIKPANMEELTEVITAAEFHPHHCNTFVYSSSKGTIRLCDMRASALCDRHTKFFEEPEDPSNRSFFSEIISSISDVKFSHSGRYIMTRDYLTVKVWDLNMENRPIETYQLTLSLR
IRESfinder result
IRESfinder score
0.503699206
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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