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mmu_circOrc2_764
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc2_764
mm39_Chr. Position ID:
chr1|58520118|58541049|-
Gene name:
Orc2
Transcript:
ENSMUST00000027198.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,2683,11897,12701,16416,19281,20363,20882
Genomic length:
20931
Exon/intron sizes in nt:
194,61,32,90,90,144,104,49
Flanking exon/introns:
chr1:58519508-58520118|chr1:58541049-58543930
Splice length:
764
Other database IDs:
circAtlas: mmu-Orc2_0006
Human Ortholog IDs:
Mature spliced Sequence:
TTACAGGTCACTGGATGTTCAAGCTGCAGAATGCATAGCACCTTACAAGGTTGGCCACAATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGTGCAGTTTGTGGGAGATGATGATGTTCTTAGTCACATTCTGGACAGAGAAGGAGGAACTAAATTAAAGAAGGAGAAAGCTCAGCTTTTGGTCAATCCCCAGAAAGTAATAAAGAAGGCAGACTGTGAGTTGGAGAAAAGTGACCTGGAAGTTTTAGAGGATCAGAACTACGTGAAAGTCTTGGGAAGAAATATTCAAGAATCCTTGGGAAACGGCTCTGCTAAAGATGGTAGGAATAAAGTTTATTCTTTTCAACAAAGAAAGCACCCTGAAGAGATGACTAAATTGGCTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCAGGCTCTCTCAGAAGA
60.98
GCTCATTGTGGCCAACCTTG
60.04
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCAGGCTCTCTCAGAAGA
60.98
AGAGTGCTCATTGTGGCCAA
59.89
167
PCR template sequence:
TGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGTTACAGGTCACTGGATGTTCAAGCTGCAGAATGCATAGCACCTTACAAGGTTGGCCACAATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-3087-3p(2), mmu-miR-9-5p(1), mmu-miR-34a-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-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGACAAAGCGTTACAGGTCACTG
siRNA sets
TGACCTGTAACGCTTTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCORC2_764_ORF_1
1.0298
0.069513615
0.921477598
768
ORF sequence:
ATGAGCACTCTGCAGTTAAAGGAAACCAAGGTGCCAAGCGTGCAGTTTGTGGGAGATGATGATGTTCTTAGTCACATTCTGGACAGAGAAGGAGGAACTAAATTAAAGAAGGAGAAAGCTCAGCTTTTGGTCAATCCCCAGAAAGTAATAAAGAAGGCAGACTGTGAGTTGGAGAAAAGTGACCTGGAAGTTTTAGAGGATCAGAACTACGTGAAAGTCTTGGGAAGAAATATTCAAGAATCCTTGGGAAACGGCTCTGCTAAAGATGGTAGGAATAAAGTTTATTCTTTTCAACAAAGAAAGCACCCTGAAGAGATGACTAAATTGGCTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGTTACAGGTCACTGGATGTTCAAGCTGCAGAATGCATAGCACCTTACAAGGTTGGCCACAATGA
Peptide sequence:
MSTLQLKETKVPSVQFVGDDDVLSHILDREGGTKLKKEKAQLLVNPQKVIKKADCELEKSDLEVLEDQNYVKVLGRNIQESLGNGSAKDGRNKVYSFQQRKHPEEMTKLALELAKTSGKKDPLDSNDPEITKNIAQKSKGHSTSEKAPLVNNNKTEFLSTQPHNLRKRIIASRSHYDSESEYSASSSEDDEEATKDEEEDTNVARLSQKSQGQNRLLPAPVSKETLPKKKKRDKALQVTGCSSCRMHSTLQGWPQ
IRESfinder result
IRESfinder score
0.559640302
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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