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mmu_circOpa1_1046
Basic information of circular RNA
PanCircBase ID:
mmu_circOpa1_1046
mm39_Chr. Position ID:
chr16|29436939|29467829|+
Gene name:
Opa1
Transcript:
ENSMUST00000160597.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
20,21,22,23,24,25,26,27,28
Exon/intron offsets:
0,2259,2649,3343,7342,10575,11504,11962,30815
Genomic length:
30890
Exon/intron sizes in nt:
166,153,109,80,141,117,94,111,75
Flanking exon/introns:
chr16:29435509-29436939|chr16:29467829-29470571
Splice length:
1046
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGAGGAAATCCTGCAGCAATCCCTGTGGGAACGAGTGTCAACACATGTGATTGAGAACATCTACCTTCCAGCTGCCCAGACCATGAATTCGGGAACATTTAACACCACAGTAGACATCAAGCTTAAACAGTGGACTGACAAGCAGCTTCCTAATAAAGCAGTCGAGGTTGCCTGGGAGACTCTACAAGAGGAATTTTCCCGCTTCATGACAGAACCCAAAGGAAAGGAACACGACGACATATTTGACAAACTTAAGGAGGCTGTGAAGGAGGAGAGTATCAAGCGGCACAAGTGGAACGACTTTGCCGAGGATAGCTTGAGGGTTATTCAGCACAATGCTTTGGAAGACCGGTCCATATCAGATAAGCAACAGTGGGATGCAGCCATTTACTTCATGGAAGAGGCGCTTCAAGGTCGTCTCAAGGATACTGAAAATGCTATTGAAAACATGATTGGGCCAGACTGGAAAAAGAGGTGGATGTACTGGAAGAATCGGACCCAAGAGCAGTGTGTTCACAACGAAACCAAGAACGAGTTGGAGAAGATGCTGAAGGTTAATGATGAGCACCCAGCTTACCTGGCAAGTGATGAGATTACCACAGTCCGGAAGAACCTGGAGTCTCGAGGAGTGGAAGTCGATCCAAGCTTGATTAAGGATACTTGGCATCAAGTTTATAGAAGACATTTCTTAAAAACAGCTCTAAATCATTGTAACCTTTGTCGCAGAGGTTTTTATTACTACCAGAGGCATTTTATAGATTCTGAGCTGGAATGCAATGACGTGGTCCTGTTTTGGCGAATACAGCGCATGCTCGCTATCACTGCCAATACATTAAGGCAGCAGCTTACAAACACTGAAGTTAGGCGACTAGAGAAAAACGTTAAAGAGGTATTAGAAGATTTTGCAGAAGACGGTGAGAAGAAGGTTAAATTGCTCACTGGCAAACGAGTTCAGCTGGCAGAAGATCTCAAGAAAGTTAGAGAAATTCAAGAAAAGCTTGATGCTTTCATTGAAGCTCTTCACCAGGAGAAGTAGACTGTGTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGTTCAGCTGGCAGAAGA
60.04
TTGACACTCGTTCCCACAGG
59.89
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGTTCAGCTGGCAGAAGA
60.04
TGTTGACACTCGTTCCCACA
59.46
143
PCR template sequence:
CGAGTTCAGCTGGCAGAAGATCTCAAGAAAGTTAGAGAAATTCAAGAAAAGCTTGATGCTTTCATTGAAGCTCTTCACCAGGAGAAGTAGACTGTGTCAAGGAGGAAATCCTGCAGCAATCCCTGTGGGAACGAGTGTCAACACATGTGATTGAGAACATCTACCTTCCAGCTGCCCAGACCATGAATTCGGGAACATTT
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-207(2), mmu-miR-34c-5p(1), mmu-miR-434-5p(1), mmu-miR-362-5p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGACTGTGTCAAGGAGGAAATCCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCOPA1_1046_ORF_5
0.7503
-0.161645504
0.020975528
99
ORF sequence:
ATGCTTTCATTGAAGCTCTTCACCAGGAGAAGTAGACTGTGTCAAGGAGGAAATCCTGCAGCAATCCCTGTGGGAACGAGTGTCAACACATGTGATTGA
Peptide sequence:
MLSLKLFTRRSRLCQGGNPAAIPVGTSVNTCD
IRESfinder result
IRESfinder score
0.603193488
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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