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mmu_circOrc2_464
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc2_464
mm39_Chr. Position ID:
chr1|58515592|58522862|-
Gene name:
Orc2
Transcript:
ENSMUST00000027198.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,10,9,8
Exon/intron offsets:
0,3817,4526,7209
Genomic length:
7270
Exon/intron sizes in nt:
110,99,194,61
Flanking exon/introns:
chr1:58514100-58515592|chr1:58522862-58532015
Splice length:
464
Other database IDs:
CIRCpedia: MMU_CIRCpedia_24184, circAtlas: mmu-Orc2_0017
circBase: hsa_circ_0118617, circAtlas: hsa-ORC2_0020, CIRCpedia: HSA_CIRCpedia_39128
Human Ortholog IDs:
Mature spliced Sequence:
AACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAGAAAACTCTGCATAACTTACTGAGAAAATTTGTGCCTTCCTTTTCTGCTGAAATTGAACGATTGAATCAACAGCATGAGAAACTGTTTCATAAATGGATGCTTCAGTTACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCCTTCCTTTTCTGCTGA
60.13
TGTCATAATGAGACCTTGACGCT
59.8
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCCTTCCTTTTCTGCTG
58.68
TGTCATAATGAGACCTTGACGCT
59.8
163
PCR template sequence:
ATAACTTACTGAGAAAATTTGTGCCTTCCTTTTCTGCTGAAATTGAACGATTGAATCAACAGCATGAGAAACTGTTTCATAAATGGATGCTTCAGTTACAAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(1), mmu-miR-383-5p(1), mmu-miR-499-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTTCAGTTACAAACAATAACAAAA
siRNA sets
TTATTGTTTGTAACTGAAG,TATTGTTTGTAACTGAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCORC2_464_ORF_1
1.0816
0.059972229
0.61197798
480
ORF sequence:
ATGGATGCTTCAGTTACAAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAGAAAACTCTGCATAACTTACTGAGAAAATTTGTGCCTTCCTTTTCTGCTGAAATTGAACGATTGAATCAACAGCATGAGAAACTGTTTCATAAATGGATGCTTCAGTTA
Peptide sequence:
MDASVTNNNKTEFLSTQPHNLRKRIIASRSHYDSESEYSASSSEDDEEATKDEEEDTNVARLSQKSQGQNRLLPAPVSKETLPKKKKRDKASDLVEEYFEAHSSSKVLTSDRTLQRLRRARVDQKTLHNLLRKFVPSFSAEIERLNQQHEKLFHKWMLQL
IRESfinder result
IRESfinder score
0.659934691
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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