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mmu_circCyb561a3_913
Basic information of circular RNA
PanCircBase ID:
mmu_circCyb561a3_913
mm39_Chr. Position ID:
chr19|10556345|10565342|+
Gene name:
Cyb561a3
Transcript:
ENSMUST00000237814.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,1481,3316,6200,7709,8840
Genomic length:
8997
Exon/intron sizes in nt:
93,10,01,99,20,91,55,100
Flanking exon/introns:
chr19:10555447-10556345|chr19:10565342-10565888
Splice length:
913
Other database IDs:
circAtlas: mmu-Cyb561a3_0006
Human Ortholog IDs:
Mature spliced Sequence:
GTTCCTGTGAAGGCCAGAAGTAGGTATTTGGTCCCTTGGAGCTGTGAGCTGATGTAGGTGCTGGGAACTCAGCTGTGGTGTGCTGCAAGACCAAGGACGAGTCTTGCAGTGTTAAGTGTTTTCCTCAGGGTGCTCAGACGGTGAAAATCAGAGATCAGGCCACCTTTCTGTGAGCCTTCAGCTGAGTCTAAAGGTGTTATTGATCAGAATGGCTTCAGGATGGTTTTACCTGTCCTGCATGGTGCTGGGATCGCTGGGATCGATGTGCATCCTCTTCACTGCCTACTGGATGCAGTACTGGCGCGGTGGCTTTGCCTGGGATGGCACGGTGCTCATGTTTAACTGGCACCCAGTGCTCATGGTTGCCGGCATGGTGGTGCTCTATGGAGCTGCCTCACTGGTGTACCGCCTGCCTTCATCGTGGGTGGGGCCCAGGCTGCCCTGGAAAGTTCTCCATGCAGCACTGCACCTGCTGGCCTTCACCTGCACTGTGGTGGGGCTGATTGCCGTCTTTCGGTTTCACAACCACTCGAGAATCGCACACCTCTACTCCCTGCACAGCTGGCTGGGTATCACCACTGTAGTCCTCTTCGCCTGCCAGTGGTTCCTGGGCTTTGCTGTCTTCCTCCTGCCCTGGGCATCCCAGTGGCTGCGAAGCCTCCTGAAACCTCTGCATGTATTCTTTGGAGCCTGCATCCTTTCCCTGTCCATCACATCTGTTATTTCCGGCATCAATGAGAAGCTTTTCTTTGTTTTGAAAAATGCCACCAAGCCCTACTCCAGCCTGCCTGGTGAGGCTGTCTTTGCCAACAGCACAGGGCTCTTGGTGGTGGCTTTTGGCTTGCTGGTTCTCTATGTTCTTCTGGCTTCATCATGGAAGCGTCCAGATCCAGGAGCTCTGACTGATAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCTTGGTGGTGGCTTTTG
59.97
CACAGCTCCAAGGGACCAAA
60.18
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCTTGGTGGTGGCTTTTG
59.97
CCCAGCACCTACATCAGCTC
60.18
159
PCR template sequence:
CACAGGGCTCTTGGTGGTGGCTTTTGGCTTGCTGGTTCTCTATGTTCTTCTGGCTTCATCATGGAAGCGTCCAGATCCAGGAGCTCTGACTGATAGACAGGTTCCTGTGAAGGCCAGAAGTAGGTATTTGGTCCCTTGGAGCTGTGAGCTGATGTAGGTGCTGGGAACTCAGCTGTGGTGTGCTGCAAGACCAAGGACGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-139-5p(2), mmu-miR-296-5p(1), mmu-miR-15b-5p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-146a-5p(1), mmu-miR-217-5p(1), mmu-miR-214-3p(1), mmu-miR-431-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-182-5p(1), mmu-miR-673-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACTGATAGACAGGTTCCTGTGAAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCYB561A3_913_ORF_1
1.1093
0.182199937
0.953509516
762
ORF sequence:
ATGGCTTCAGGATGGTTTTACCTGTCCTGCATGGTGCTGGGATCGCTGGGATCGATGTGCATCCTCTTCACTGCCTACTGGATGCAGTACTGGCGCGGTGGCTTTGCCTGGGATGGCACGGTGCTCATGTTTAACTGGCACCCAGTGCTCATGGTTGCCGGCATGGTGGTGCTCTATGGAGCTGCCTCACTGGTGTACCGCCTGCCTTCATCGTGGGTGGGGCCCAGGCTGCCCTGGAAAGTTCTCCATGCAGCACTGCACCTGCTGGCCTTCACCTGCACTGTGGTGGGGCTGATTGCCGTCTTTCGGTTTCACAACCACTCGAGAATCGCACACCTCTACTCCCTGCACAGCTGGCTGGGTATCACCACTGTAGTCCTCTTCGCCTGCCAGTGGTTCCTGGGCTTTGCTGTCTTCCTCCTGCCCTGGGCATCCCAGTGGCTGCGAAGCCTCCTGAAACCTCTGCATGTATTCTTTGGAGCCTGCATCCTTTCCCTGTCCATCACATCTGTTATTTCCGGCATCAATGAGAAGCTTTTCTTTGTTTTGAAAAATGCCACCAAGCCCTACTCCAGCCTGCCTGGTGAGGCTGTCTTTGCCAACAGCACAGGGCTCTTGGTGGTGGCTTTTGGCTTGCTGGTTCTCTATGTTCTTCTGGCTTCATCATGGAAGCGTCCAGATCCAGGAGCTCTGACTGATAGACAGGTTCCTGTGAAGGCCAGAAGTAGGTATTTGGTCCCTTGGAGCTGTGAGCTGATGTAG
Peptide sequence:
MASGWFYLSCMVLGSLGSMCILFTAYWMQYWRGGFAWDGTVLMFNWHPVLMVAGMVVLYGAASLVYRLPSSWVGPRLPWKVLHAALHLLAFTCTVVGLIAVFRFHNHSRIAHLYSLHSWLGITTVVLFACQWFLGFAVFLLPWASQWLRSLLKPLHVFFGACILSLSITSVISGINEKLFFVLKNATKPYSSLPGEAVFANSTGLLVVAFGLLVLYVLLASSWKRPDPGALTDRQVPVKARSRYLVPWSCELM
IRESfinder result
IRESfinder score
0.596047439
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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