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mmu_circOrc2_719
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc2_719
mm39_Chr. Position ID:
chr1|58513967|58532909|-
Gene name:
Orc2
Transcript:
ENSMUST00000027198.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
12,11,10,9,8,7,6
Exon/intron offsets:
0,1625,5442,6151,8834,18048,18852
Genomic length:
18942
Exon/intron sizes in nt:
133,110,99,194,61,32,90
Flanking exon/introns:
chr1:58511560-58513967|chr1:58532909-58536534
Splice length:
719
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220933, circAtlas: mmu-Orc2_0041
Human Ortholog IDs:
Mature spliced Sequence:
CTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAGAAAACTCTGCATAACTTACTGAGAAAATTTGTGCCTTCCTTTTCTGCTGAAATTGAACGATTGAATCAACAGCATGAGAAACTGTTTCATAAATGGATGCTTCAGTTACACCTTGGGTTCAACATTGTGCTTTATGGCTTGGGGTCCAAGAGAGATTTACTAGAAAAGTTTCGAACCACCATGCTTCAAGATTCCATTCATGTTGTCATCAACGGCTACTTTCCTGGCGTCAGTGTGAAATCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAAGTTTCGAACCACCATGC
60.24
TCAGGATCATTTGAGTCAAGTGGA
59.71
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAAGTTTCGAACCACCATGC
60.24
TCAGGATCATTTGAGTCAAGTGG
58.42
140
PCR template sequence:
GTCCAAGAGAGATTTACTAGAAAAGTTTCGAACCACCATGCTTCAAGATTCCATTCATGTTGTCATCAACGGCTACTTTCCTGGCGTCAGTGTGAAATCACTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(1), mmu-miR-383-5p(1), mmu-miR-499-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGTGTGAAATCACTTTAGAACTAGC
siRNA sets
TAGTTCTAAAGTGATTTCA, AGTTCTAAAGTGATTTCAC, CTAGTTCTAAAGTGATTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCORC2_719_ORF_1
0.8916
0.005627332
0.935988967
870
ORF sequence:
ATGGATGCTTCAGTTACACCTTGGGTTCAACATTGTGCTTTATGGCTTGGGGTCCAAGAGAGATTTACTAGAAAAGTTTCGAACCACCATGCTTCAAGATTCCATTCATGTTGTCATCAACGGCTACTTTCCTGGCGTCAGTGTGAAATCACTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAGAAAACTCTGCATAACTTACTGAGAAAATTTGTGCCTTCCTTTTCTGCTGAAATTGAACGATTGAATCAACAGCATGAGAAACTGTTTCATAAATGGATGCTTCAGTTACACCTTGGGTTCAACATTGTGCTTTATGGCTTGGGGTCCAAGAGAGATTTACTAGAAAAGTTTCGAACCACCATGCTTCAAGATTCCATTCATGTTGTCATCAACGGCTACTTTCCTGGCGTCAGTGTGAAATCA
Peptide sequence:
MDASVTPWVQHCALWLGVQERFTRKVSNHHASRFHSCCHQRLLSWRQCEITLELAKTSGKKDPLDSNDPEITKNIAQKSKGHSTSEKAPLVNNNKTEFLSTQPHNLRKRIIASRSHYDSESEYSASSSEDDEEATKDEEEDTNVARLSQKSQGQNRLLPAPVSKETLPKKKKRDKASDLVEEYFEAHSSSKVLTSDRTLQRLRRARVDQKTLHNLLRKFVPSFSAEIERLNQQHEKLFHKWMLQLHLGFNIVLYGLGSKRDLLEKFRTTMLQDSIHVVINGYFPGVSVKS
IRESfinder result
IRESfinder score
0.694127492
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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