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mmu_circAopep_493
Basic information of circular RNA
PanCircBase ID:
mmu_circAopep_493
mm39_Chr. Position ID:
chr13|63387900|63446670|+
Gene name:
Aopep
Transcript:
ENSMUST00000021911.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
11,12,13,14,15
Exon/intron offsets:
0,170,42055,56771,58625
Genomic length:
58770
Exon/intron sizes in nt:
6,97,51,17,87,145
Flanking exon/introns:
chr13:63357980-63387900|chr13:63446670-63449592
Splice length:
493
Other database IDs:
CIRCpedia: MMU_CIRCpedia_25521, circAtlas: mmu-2010111I01Rik_0027
Human Ortholog IDs:
Mature spliced Sequence:
GCGCTGCAGGAGGAGCGCAAGGCCGAGGACTGCTCGCCGAGTAGGCTCGCACGGCAAGTAGGCTCCGAGGTGGCGAAATGGATTCGAGTCAACCGCAGACCCCGAAAACGCAAACGAGGGAAGCGAGAAGTCGCCTTTGAAAAGCTTTCTCCAGACCAGATCGTCTTGCTTTTGGAGTGGCTCTTAGAGCAGAAGACGCTGAGCCCTCAGACACTGCACTGTCTCCAGCAGACTTACCATCTCCCAGAGCAGGATGCAGAGGTTCGCCATCGATGGTGTGAACTGGTTATTAAGCACAAGTACACAAAGGCATACAATCAGGTGGAGAGGTTCCTACTGGAGGACCAGGCCATGGGCATATACCTGTATGGGGAGCTGATGGTGAGTGAGGACGCCAGGCTGCAGCAGCTAGCCCACAGGTGCTTTGAGCTGGTGAAGGAACACATGGACAGAGCATCGGCCCAGGTGGTGACTGAAATGCTGTTCTAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACATGGACAGAGCATCGG
60.11
TCTGCGGTTGACTCGAATCC
60.11
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGCTTTGAGCTGGTGAA
59.82
TCTGCGGTTGACTCGAATCC
60.11
175
PCR template sequence:
GCCAGGCTGCAGCAGCTAGCCCACAGGTGCTTTGAGCTGGTGAAGGAACACATGGACAGAGCATCGGCCCAGGTGGTGACTGAAATGCTGTTCTAAAGAGGCGCTGCAGGAGGAGCGCAAGGCCGAGGACTGCTCGCCGAGTAGGCTCGCACGGCAAGTAGGCTCCGAGGTGGCGAAATGGATTCGAGTCAACCGCAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-218-5p(1), mmu-miR-27a-5p(1), mmu-miR-1198-5p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTTCTAAAGAGGCGCTGCAGGAGG
siRNA sets
CAGCGCCTCTTTAGAACAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.249474749
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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