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mmu_circAcox3_1067
Basic information of circular RNA
PanCircBase ID:
mmu_circAcox3_1067
mm39_Chr. Position ID:
chr5|35745502|35757218|+
Gene name:
Acox3
Transcript:
ENSMUST00000068947.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
3,4,5,6,7,8,9,10
Exon/intron offsets:
0,460,1017,1535,3917,6151,10156,11533
Genomic length:
11716
Exon/intron sizes in nt:
1,55,23,47,59,01,44,89,00,000
Flanking exon/introns:
chr5:35741319-35745502|chr5:35757218-35758846
Splice length:
1067
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGACAGTACCATGGGATCCCTACCGGAAGAAAAAGACAGTGCTTTGTGGTCAGACACCCCCAAGGGCCCTCTTAGTGCCTACCGAGCAAGAGCCTCCTTCAACTCTGGGGAGCTGCTGCTCTTTTGGGACGGCCAGGATGTAATCCACTTCAAGAAAACCATCTTCTCAACTTTGGAGAATGACCCTCTCTTTGCCCGCTCGTACGGGGCCGACCTGCCCCTAGAGAAGCTACGAGAACTGAACTTCCTTCGCTGCAAGAGGGTCTTTGAGTATGGCTTCTTCAAAGTAGAGGAACTGCTAAAGAACCCCCTGAAGATTCTAGTGCTGATTAACTGCCTGGGCATGTACGACTGGTCCCTGGCCAACAAATGCGTCCTCCACATGTTGGTTTTTGGAACCACAGTTTTCGTTTCTGGTTCTGAGAAGCATTTCAAGTACCTTGAGAAGATCTATAGCCTGGAGATTTTTGGCTGTTTTGCTCTCACCGAACTGAGTCATGGGAGTAATACCAAGGCCATGCGAACGACAGCTCACTATGATCCTGATACTCAGGAATTCATCTTACATTCCCCGGATTTCGAGGCTGCCAAATTTTGGGTGGGCAACCTGGGCAAGACGGCAACTCATGCGGTGGTGTTTGCCCAACTGTACATGCCAGACGGCCAGTGCCACGGGCTGCATTCCTTCCTGGTGCAGATCCGTGACACGAAGACCCTGCTTCCCATGACGGGGGTGATGGTCGGTGACATTGGGAAGAAGCTGGGGCAGAATGGCCTGGATAATGGATTCGCCATGTTCAACAAAGTTCGAATTCCTCGCCAGAACCTGCTGGACAGGACTGGGAATATCACCTCTGAGGGCACTTACAACAGCCCCTTTAAGGATGTCCGGCAGCGTTTGGGCGCATCATTGGGCAGCCTGTCCTCAGGACGCATCTCCATCATCAGCATGTCTGTGGTCAACCTGAAGCTGGCCGTGTCCATAGCCATCCGGTTCTCGGCCACACGGTGTCAGTTTGGACCCACGGATAAGGAAGAGATTCCTGTCCTTGAATATCCACTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAGTTTGGACCCACGGAT
59.96
GCTCGGTAGGCACTAAGAGG
59.61
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTCCATAGCCATCCGGTT
59.82
GCTCGGTAGGCACTAAGAGG
59.61
178
PCR template sequence:
GAAGCTGGCCGTGTCCATAGCCATCCGGTTCTCGGCCACACGGTGTCAGTTTGGACCCACGGATAAGGAAGAGATTCCTGTCCTTGAATATCCACTGCAGGTGACAGTACCATGGGATCCCTACCGGAAGAAAAAGACAGTGCTTTGTGGTCAGACACCCCCAAGGGCCCTCTTAGTGCCTACCGAGCAAGAGCCTCCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-541-5p(2), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-135a-5p(1), mmu-miR-15b-5p(1), mmu-miR-203-3p(1), mmu-miR-214-3p(1), mmu-miR-676-3p(1), mmu-miR-467b-5p(1), mmu-miR-697(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATATCCACTGCAGGTGACAGTACCAT
siRNA sets
ATGGTACTGTCACCTGCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACOX3_1067_ORF_1
1.1136
0.343278911
0.998932138
1200
ORF sequence:
ATGGGATCCCTACCGGAAGAAAAAGACAGTGCTTTGTGGTCAGACACCCCCAAGGGCCCTCTTAGTGCCTACCGAGCAAGAGCCTCCTTCAACTCTGGGGAGCTGCTGCTCTTTTGGGACGGCCAGGATGTAATCCACTTCAAGAAAACCATCTTCTCAACTTTGGAGAATGACCCTCTCTTTGCCCGCTCGTACGGGGCCGACCTGCCCCTAGAGAAGCTACGAGAACTGAACTTCCTTCGCTGCAAGAGGGTCTTTGAGTATGGCTTCTTCAAAGTAGAGGAACTGCTAAAGAACCCCCTGAAGATTCTAGTGCTGATTAACTGCCTGGGCATGTACGACTGGTCCCTGGCCAACAAATGCGTCCTCCACATGTTGGTTTTTGGAACCACAGTTTTCGTTTCTGGTTCTGAGAAGCATTTCAAGTACCTTGAGAAGATCTATAGCCTGGAGATTTTTGGCTGTTTTGCTCTCACCGAACTGAGTCATGGGAGTAATACCAAGGCCATGCGAACGACAGCTCACTATGATCCTGATACTCAGGAATTCATCTTACATTCCCCGGATTTCGAGGCTGCCAAATTTTGGGTGGGCAACCTGGGCAAGACGGCAACTCATGCGGTGGTGTTTGCCCAACTGTACATGCCAGACGGCCAGTGCCACGGGCTGCATTCCTTCCTGGTGCAGATCCGTGACACGAAGACCCTGCTTCCCATGACGGGGGTGATGGTCGGTGACATTGGGAAGAAGCTGGGGCAGAATGGCCTGGATAATGGATTCGCCATGTTCAACAAAGTTCGAATTCCTCGCCAGAACCTGCTGGACAGGACTGGGAATATCACCTCTGAGGGCACTTACAACAGCCCCTTTAAGGATGTCCGGCAGCGTTTGGGCGCATCATTGGGCAGCCTGTCCTCAGGACGCATCTCCATCATCAGCATGTCTGTGGTCAACCTGAAGCTGGCCGTGTCCATAGCCATCCGGTTCTCGGCCACACGGTGTCAGTTTGGACCCACGGATAAGGAAGAGATTCCTGTCCTTGAATATCCACTGCAGGTGACAGTACCATGGGATCCCTACCGGAAGAAAAAGACAGTGCTTTGTGGTCAGACACCCCCAAGGGCCCTCTTAGTGCCTACCGAGCAAGAGCCTCCTTCAACTCTGGGGAGCTGCTGCTCTTTTGGGACGGCCAGGATGTAA
Peptide sequence:
MGSLPEEKDSALWSDTPKGPLSAYRARASFNSGELLLFWDGQDVIHFKKTIFSTLENDPLFARSYGADLPLEKLRELNFLRCKRVFEYGFFKVEELLKNPLKILVLINCLGMYDWSLANKCVLHMLVFGTTVFVSGSEKHFKYLEKIYSLEIFGCFALTELSHGSNTKAMRTTAHYDPDTQEFILHSPDFEAAKFWVGNLGKTATHAVVFAQLYMPDGQCHGLHSFLVQIRDTKTLLPMTGVMVGDIGKKLGQNGLDNGFAMFNKVRIPRQNLLDRTGNITSEGTYNSPFKDVRQRLGASLGSLSSGRISIISMSVVNLKLAVSIAIRFSATRCQFGPTDKEEIPVLEYPLQVTVPWDPYRKKKTVLCGQTPPRALLVPTEQEPPSTLGSCCSFGTARM
IRESfinder result
IRESfinder score
0.477013651
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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