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mmu_circAp2b1_217
Basic information of circular RNA
PanCircBase ID:
mmu_circAp2b1_217
mm39_Chr. Position ID:
chr11|83227167|83227687|+
Gene name:
Ap2b1
Transcript:
ENSMUST00000018875.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
8,9
Exon/intron offsets:
0,424
Genomic length:
520
Exon/intron sizes in nt:
121,96
Flanking exon/introns:
chr11:83226428-83227167|chr11:83227687-83230138
Splice length:
217
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCCTGAAATCTTGAAGCAGGAAATCAAGGTCTTCTTTGTGAAGTACAATGATCCTATCTATGTTAAACTAGAGAAGTTAGACATCATGATTCGTCTTGCATCCCAAGCCAACATTGCTCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAGCTGTGAGGGCCATTG
59.75
TGCAAGACGAATCATGATGTCT
58.13
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTTCGCAAAGCTGTGAGG
59.34
TGCAAGACGAATCATGATGTCT
58.13
150
PCR template sequence:
TCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAGGCCTGAAATCTTGAAGCAGGAAATCAAGGTCTTCTTTGTGAAGTACAATGATCCTATCTATGTTAAACTAGAGAAGTTAGACATCATGATTCGTCTTGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-328-3p(1), mmu-miR-433-3p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCAAAGTGGAGGCCTGAAATCTTG
siRNA sets
AAGATTTCAGGCCTCCACT, ATTTCAGGCCTCCACTTTG, TTTCAGGCCTCCACTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP2B1_217_ORF_1
1.0883
0.403738888
0.358275877
138
ORF sequence:
ATGATTCGTCTTGCATCCCAAGCCAACATTGCTCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAGGCCTGA
Peptide sequence:
MIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEA
IRESfinder result
IRESfinder score
0.427991383
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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