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mmu_circOrc2_476
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc2_476
mm39_Chr. Position ID:
chr1|58519409|58532909|-
Gene name:
Orc2
Transcript:
ENSMUST00000027198.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,709,3392,12606,13410
Genomic length:
13500
Exon/intron sizes in nt:
99,194,61,32,90
Flanking exon/introns:
chr1:58515702-58519409|chr1:58532909-58536534
Splice length:
476
Other database IDs:
CIRCpedia: MMU_CIRCpedia_24186, circAtlas: mmu-Orc2_0013
Human Ortholog IDs:
Mature spliced Sequence:
CTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTAGAAGAATATTTTGAAGCCCA
58.51
TCAGGATCATTTGAGTCAAGTGGA
59.71
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTAGAAGAATATTTTGAAGCCCA
58.51
GGATCATTTGAGTCAAGTGGATCC
59.42
147
PCR template sequence:
GAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAGCTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTAC
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
CAGAGTGGATCAGCTTTAGAACTAGC
siRNA sets
CTAGTTCTAAAGCTGATCC, AGTTCTAAAGCTGATCCAC, CTAAAGCTGATCCACTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.604908965
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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