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mmu_circOrc2_387
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc2_387
mm39_Chr. Position ID:
chr1|58536534|58541049|-
Gene name:
Orc2
Transcript:
ENSMUST00000027198.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,2865,3947,4466
Genomic length:
4515
Exon/intron sizes in nt:
90,144,104,49
Flanking exon/introns:
chr1:58532909-58536534|chr1:58541049-58543930
Splice length:
387
Other database IDs:
circAtlas: mmu-Orc2_0047
Human Ortholog IDs:
Mature spliced Sequence:
TTACAGGTCACTGGATGTTCAAGCTGCAGAATGCATAGCACCTTACAAGGTTGGCCACAATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGTGCAGTTTGTGGGAGATGATGATGTTCTTAGTCACATTCTGGACAGAGAAGGAGGAACTAAATTAAAGAAGGAGAAAGCTCAGCTTTTGGTCAATCCCCAGAAAGTAATAAAGAAGGCAGACTGTGAGTTGGAGAAAAGTGACCTGGAAGTTTTAGAGGATCAGAACTACGTGAAAGTCTTGGGAAGAAATATTCAAGAATCCTTGGGAAACGGCTCTGCTAAAGATGGTAGGAATAAAGTTTATTCTTTTCAACAAAGAAAGCACCCTGAAGAGATGACTAAATTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCTTGGGAAACGGCTCTG
60.04
GCTCATTGTGGCCAACCTTG
60.04
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGGGAAACGGCTCTGCTA
60.04
GCTCATTGTGGCCAACCTTG
60.04
151
PCR template sequence:
AATATTCAAGAATCCTTGGGAAACGGCTCTGCTAAAGATGGTAGGAATAAAGTTTATTCTTTTCAACAAAGAAAGCACCCTGAAGAGATGACTAAATTGGTTACAGGTCACTGGATGTTCAAGCTGCAGAATGCATAGCACCTTACAAGGTTGGCCACAATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-18a-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
ATGACTAAATTGGTTACAGGTCACTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCORC2_387_ORF_1
1.1915
0.122690761
0.524325953
366
ORF sequence:
ATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGTGCAGTTTGTGGGAGATGATGATGTTCTTAGTCACATTCTGGACAGAGAAGGAGGAACTAAATTAAAGAAGGAGAAAGCTCAGCTTTTGGTCAATCCCCAGAAAGTAATAAAGAAGGCAGACTGTGAGTTGGAGAAAAGTGACCTGGAAGTTTTAGAGGATCAGAACTACGTGAAAGTCTTGGGAAGAAATATTCAAGAATCCTTGGGAAACGGCTCTGCTAAAGATGGTAGGAATAAAGTTTATTCTTTTCAACAAAGAAAGCACCCTGAAGAGATGACTAAATTGGTTACAGGTCACTGGATGTTCAAGCTGCAGAATGCATAG
Peptide sequence:
MSTLQLKETKVPSVQFVGDDDVLSHILDREGGTKLKKEKAQLLVNPQKVIKKADCELEKSDLEVLEDQNYVKVLGRNIQESLGNGSAKDGRNKVYSFQQRKHPEEMTKLVTGHWMFKLQNA
IRESfinder result
IRESfinder score
0.49273573
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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