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mmu_circOrc2_460
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc2_460
mm39_Chr. Position ID:
chr1|58532015|58540585|-
Gene name:
Orc2
Transcript:
ENSMUST00000027198.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,804,4519,7384,8466
Genomic length:
8570
Exon/intron sizes in nt:
3,29,09,01,44,104
Flanking exon/introns:
chr1:58522862-58532015|chr1:58540585-58541000
Splice length:
460
Other database IDs:
circAtlas: mmu-Orc2_0034
circBase: hsa_circ_0118622, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_93300
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGCCACAATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGTGCAGTTTGTGGGAGATGATGATGTTCTTAGTCACATTCTGGACAGAGAAGGAGGAACTAAATTAAAGAAGGAGAAAGCTCAGCTTTTGGTCAATCCCCAGAAAGTAATAAAGAAGGCAGACTGTGAGTTGGAGAAAAGTGACCTGGAAGTTTTAGAGGATCAGAACTACGTGAAAGTCTTGGGAAGAAATATTCAAGAATCCTTGGGAAACGGCTCTGCTAAAGATGGTAGGAATAAAGTTTATTCTTTTCAACAAAGAAAGCACCCTGAAGAGATGACTAAATTGGCTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCACTTGACTCAAATGATCCTGA
59.71
CATCTCCCACAAACTGCACG
59.48
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCCACTTGACTCAAATGATCC
59.42
CATCTCCCACAAACTGCACG
59.48
159
PCR template sequence:
AGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGGTTGGCCACAATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGTGCAGTTTGTGGGAGATGATGATGTTCTTAGTCACATTCTGGACAGAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-320-3p(1), mmu-miR-342-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-3087-3p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTCCACTGGTGGTTGGCCACAATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCORC2_460_ORF_1
1.025
0.08543592
0.699380717
534
ORF sequence:
ATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGGTTGGCCACAATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGTGCAGTTTGTGGGAGATGATGATGTTCTTAGTCACATTCTGGACAGAGAAGGAGGAACTAAATTAAAGAAGGAGAAAGCTCAGCTTTTGGTCAATCCCCAGAAAGTAATAAAGAAGGCAGACTGTGAGTTGGAGAAAAGTGACCTGGAAGTTTTAGAGGATCAGAACTACGTGAAAGTCTTGGGAAGAAATATTCAAGAATCCTTGGGAAACGGCTCTGCTAAAGATGGTAGGAATAAAGTTTATTCTTTTCAACAAAGAAAGCACCCTGAAGAGATGACTAAATTGGCTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTG
Peptide sequence:
MILKSQKTLLKKVKGILLQRKLHWWLATMSTLQLKETKVPSVQFVGDDDVLSHILDREGGTKLKKEKAQLLVNPQKVIKKADCELEKSDLEVLEDQNYVKVLGRNIQESLGNGSAKDGRNKVYSFQQRKHPEEMTKLALELAKTSGKKDPLDSNDPEITKNIAQKSKGHSTSEKAPLV
IRESfinder result
IRESfinder score
0.563711569
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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