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mmu_circAcox3_927
Basic information of circular RNA
PanCircBase ID:
mmu_circAcox3_927
mm39_Chr. Position ID:
chr5|35758846|35767166|+
Gene name:
Acox3
Transcript:
ENSMUST00000068947.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
11,12,13,14,15,16,17,18
Exon/intron offsets:
0,1418,3111,3704,5579,6755,7517,8233
Genomic length:
8320
Exon/intron sizes in nt:
123,121,123,114,116,175,68,87
Flanking exon/introns:
chr5:35757218-35758846|chr5:35767166-35769358
Splice length:
927
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAATGGCGCATACTTCCGTACCTGGCGGCTGCCTATGCCTTGGACCACTTCTCTAAGACAATCTTCATGGACTTGATAGAGGTGCAGAGTGCCCGGCTCAGGGGAGACCACAGCGACCAGCAGGCAGAACTCGGACGTGAGATCCATGCTCTGGCATCGGCTGGCAAGCCTCTAGCCTCATGGACAGCCCAGCGGGGTATCCAGGAGTGCCGTGAGGCGTGTGGGGGACATGGCTACCTGGCCATGAACCGGTTTGGTGACCTCAGAAACGACAACGACCCAAACTGTACCTATGAAGGTGACAACAATGTCCTGCTGCAGCAGACCAGCAACTACCTGCTCAGCCTCCTGGAGCCTCCTCTCCAAGACGGAGCTCACTTCACAAGCCCTCTCAAGACCGTGGACTTTCTGGAAGCCTATCCTGGAATCTTGGGCCAGAAGTTCCTGGGCTCCAGCAAGGCTGACTGGATGGACTCAGCAGCCCCCCTGGCAGCCTACCGCTGGCTTGTTTGCTACTTGCTCCAAGAGAGCCATCGGAGATACTGCCAAGAGAAAAAGTCCAGAGGCAGTGACTTTGAAGCAAGAAACAACAGCCAGGTGTACGGCTGCCGGCCCCTGGCCCTGGCCTTCATGGAACTCACCGTGATGCAGCGATTCCACGAACATATACACAGCTCCGGTCTGTCTCCATCTCTGCGGACTGTGCTCGGGCGGCTCAGCACGCTCTACGGCCTGTGGTGCCTGAGCCAGCACATGGCCCTGCTCTACCGAGGTGGCTACATTTCTGGGGAACAAACAGGAAGAGCGATGGAGGACGCCATCCTGACCCTGTGTGAGCAGCTGAAAGACGATGCGGTGGCCTTGGTAGATGTCATCGCCCCCTCCGACTTTGTTCTGAACTCCCCAATTGCCAAAGCTGATGGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCAGCTGAAAGACGATGC
59.63
AAGTGGTCCAAGGCATAGGC
60.03
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAGCAGCTGAAAGACGA
59.61
AAGTGGTCCAAGGCATAGGC
60.03
146
PCR template sequence:
CCTGTGTGAGCAGCTGAAAGACGATGCGGTGGCCTTGGTAGATGTCATCGCCCCCTCCGACTTTGTTCTGAACTCCCCAATTGCCAAAGCTGATGGTGAGCAATGGCGCATACTTCCGTACCTGGCGGCTGCCTATGCCTTGGACCACTTCTCTAAGACAATCTTCATGGACTTGATAGAGGTGCAGAGTGCCCGGCTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(1), mmu-miR-196a-5p(1), mmu-miR-24-3p(1), mmu-miR-433-5p(1), mmu-miR-351-5p(1), mmu-miR-182-5p(1), mmu-miR-324-3p(1), mmu-miR-342-3p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTGATGGTGAGCAATGGCGCATAC
siRNA sets
TATGCGCCATTGCTCACCA, ATGCGCCATTGCTCACCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACOX3_927_ORF_1
1.0744
0.426654915
0.999988333
1788
ORF sequence:
ATGGACTTGATAGAGGTGCAGAGTGCCCGGCTCAGGGGAGACCACAGCGACCAGCAGGCAGAACTCGGACGTGAGATCCATGCTCTGGCATCGGCTGGCAAGCCTCTAGCCTCATGGACAGCCCAGCGGGGTATCCAGGAGTGCCGTGAGGCGTGTGGGGGACATGGCTACCTGGCCATGAACCGGTTTGGTGACCTCAGAAACGACAACGACCCAAACTGTACCTATGAAGGTGACAACAATGTCCTGCTGCAGCAGACCAGCAACTACCTGCTCAGCCTCCTGGAGCCTCCTCTCCAAGACGGAGCTCACTTCACAAGCCCTCTCAAGACCGTGGACTTTCTGGAAGCCTATCCTGGAATCTTGGGCCAGAAGTTCCTGGGCTCCAGCAAGGCTGACTGGATGGACTCAGCAGCCCCCCTGGCAGCCTACCGCTGGCTTGTTTGCTACTTGCTCCAAGAGAGCCATCGGAGATACTGCCAAGAGAAAAAGTCCAGAGGCAGTGACTTTGAAGCAAGAAACAACAGCCAGGTGTACGGCTGCCGGCCCCTGGCCCTGGCCTTCATGGAACTCACCGTGATGCAGCGATTCCACGAACATATACACAGCTCCGGTCTGTCTCCATCTCTGCGGACTGTGCTCGGGCGGCTCAGCACGCTCTACGGCCTGTGGTGCCTGAGCCAGCACATGGCCCTGCTCTACCGAGGTGGCTACATTTCTGGGGAACAAACAGGAAGAGCGATGGAGGACGCCATCCTGACCCTGTGTGAGCAGCTGAAAGACGATGCGGTGGCCTTGGTAGATGTCATCGCCCCCTCCGACTTTGTTCTGAACTCCCCAATTGCCAAAGCTGATGGTGAGCAATGGCGCATACTTCCGTACCTGGCGGCTGCCTATGCCTTGGACCACTTCTCTAAGACAATCTTCATGGACTTGATAGAGGTGCAGAGTGCCCGGCTCAGGGGAGACCACAGCGACCAGCAGGCAGAACTCGGACGTGAGATCCATGCTCTGGCATCGGCTGGCAAGCCTCTAGCCTCATGGACAGCCCAGCGGGGTATCCAGGAGTGCCGTGAGGCGTGTGGGGGACATGGCTACCTGGCCATGAACCGGTTTGGTGACCTCAGAAACGACAACGACCCAAACTGTACCTATGAAGGTGACAACAATGTCCTGCTGCAGCAGACCAGCAACTACCTGCTCAGCCTCCTGGAGCCTCCTCTCCAAGACGGAGCTCACTTCACAAGCCCTCTCAAGACCGTGGACTTTCTGGAAGCCTATCCTGGAATCTTGGGCCAGAAGTTCCTGGGCTCCAGCAAGGCTGACTGGATGGACTCAGCAGCCCCCCTGGCAGCCTACCGCTGGCTTGTTTGCTACTTGCTCCAAGAGAGCCATCGGAGATACTGCCAAGAGAAAAAGTCCAGAGGCAGTGACTTTGAAGCAAGAAACAACAGCCAGGTGTACGGCTGCCGGCCCCTGGCCCTGGCCTTCATGGAACTCACCGTGATGCAGCGATTCCACGAACATATACACAGCTCCGGTCTGTCTCCATCTCTGCGGACTGTGCTCGGGCGGCTCAGCACGCTCTACGGCCTGTGGTGCCTGAGCCAGCACATGGCCCTGCTCTACCGAGGTGGCTACATTTCTGGGGAACAAACAGGAAGAGCGATGGAGGACGCCATCCTGACCCTGTGTGAGCAGCTGAAAGACGATGCGGTGGCCTTGGTAGATGTCATCGCCCCCTCCGACTTTGTTCTGAACTCCCCAATTGCCAAAGCTGATGGTGAG
Peptide sequence:
MDLIEVQSARLRGDHSDQQAELGREIHALASAGKPLASWTAQRGIQECREACGGHGYLAMNRFGDLRNDNDPNCTYEGDNNVLLQQTSNYLLSLLEPPLQDGAHFTSPLKTVDFLEAYPGILGQKFLGSSKADWMDSAAPLAAYRWLVCYLLQESHRRYCQEKKSRGSDFEARNNSQVYGCRPLALAFMELTVMQRFHEHIHSSGLSPSLRTVLGRLSTLYGLWCLSQHMALLYRGGYISGEQTGRAMEDAILTLCEQLKDDAVALVDVIAPSDFVLNSPIAKADGEQWRILPYLAAAYALDHFSKTIFMDLIEVQSARLRGDHSDQQAELGREIHALASAGKPLASWTAQRGIQECREACGGHGYLAMNRFGDLRNDNDPNCTYEGDNNVLLQQTSNYLLSLLEPPLQDGAHFTSPLKTVDFLEAYPGILGQKFLGSSKADWMDSAAPLAAYRWLVCYLLQESHRRYCQEKKSRGSDFEARNNSQVYGCRPLALAFMELTVMQRFHEHIHSSGLSPSLRTVLGRLSTLYGLWCLSQHMALLYRGGYISGEQTGRAMEDAILTLCEQLKDDAVALVDVIAPSDFVLNSPIAKADGE
IRESfinder result
IRESfinder score
0.272280299
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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