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mmu_circOrc2_1316
Basic information of circular RNA
PanCircBase ID:
mmu_circOrc2_1316
mm39_Chr. Position ID:
chr1|58505153|58532909|-
Gene name:
Orc2
Transcript:
ENSMUST00000027198.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,1656,3673,4945,6310,8814,10439,14256,14965,17648,26862,27666
Genomic length:
27756
Exon/intron sizes in nt:
119,62,172,147,97,133,110,99,194,61,32,90
Flanking exon/introns:
chr1:58503449-58505153|chr1:58532909-58536534
Splice length:
1316
Other database IDs:
circAtlas: mmu-Orc2_0008
Human Ortholog IDs:
Mature spliced Sequence:
CTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTACTTCAGAGAAAGCTCCACTGGTGAACAATAACAAAACTGAATTTCTGTCAACACAACCTCATAATCTAAGGAAAAGAATAATAGCGTCAAGGTCTCATTATGACAGTGAGAGTGAGTATTCTGCTTCCAGCTCAGAGGATGATGAAGAGGCTACAAAAGACGAAGAAGAAGACACTAATGTGGCCAGGCTCTCTCAGAAGAGTCAAGGTCAGAATAGACTTCTTCCAGCTCCTGTTTCCAAAGAGACACTGCCTAAGAAAAAGAAAAGAGACAAAGCGAGTGACTTGGTAGAAGAATATTTTGAAGCCCATAGTAGTTCAAAAGTCTTAACATCTGATCGAACGCTGCAGAGGCTGAGGAGAGCCAGAGTGGATCAGAAAACTCTGCATAACTTACTGAGAAAATTTGTGCCTTCCTTTTCTGCTGAAATTGAACGATTGAATCAACAGCATGAGAAACTGTTTCATAAATGGATGCTTCAGTTACACCTTGGGTTCAACATTGTGCTTTATGGCTTGGGGTCCAAGAGAGATTTACTAGAAAAGTTTCGAACCACCATGCTTCAAGATTCCATTCATGTTGTCATCAACGGCTACTTTCCTGGCGTCAGTGTGAAATCAATCCTGAACTCTATAACTGAAGATGTCCTCAGTCATGTGGGTACTTTCCAAAGTGTTCTGGATCAGCGGGACTGGATAATAAACAGATTTAAAGAAGATTCTTCTTTAGAACTCTTCCTTCTTATCCACAATTTGGATAGCCAAATGTTAAGAGGAGACAATAGCCAGCAAATTCTTGGACAGTTGTCATCATTACATAACGTGTATCTCATAGCATCTATTGACCATCTCAATGCTCCTCTCATGTGGGATCATGCAAAGCAGAGTCTTTATAACTGGCTTTGGTATGAAACTACTACATACAGTCCTTATACTGAAGAAACCTCCTATGAGAACTCCCTTCTGGTTAAGCAGTCTGGATCTCTGCCACTTAGTTCTCTGATTCATGTCTTACGAAGCCTTACCCCCAATGCAAGGGGGATTTTCAGGCTACTTATGAAGTTCCAGCTGGATAACCAGGACAGCCCTTCCTACATTGGACTTTCTTTTCAAGATTTTTACCAGCAGTGTAGGGAAGCATTCCTTGTTAACAGTGATCTCACACTCCGAGCCCAGTTAACTGAATTTAGGGACCACAAACTTATAAGAACAAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCAGTGTAGGGAAGCAT
59.75
TCAGGATCATTTGAGTCAAGTGGA
59.71
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCAGTGTAGGGAAGCAT
59.75
GGATCATTTGAGTCAAGTGGATCC
59.42
152
PCR template sequence:
TTACCAGCAGTGTAGGGAAGCATTCCTTGTTAACAGTGATCTCACACTCCGAGCCCAGTTAACTGAATTTAGGGACCACAAACTTATAAGAACAAAGAAGCTTTAGAACTAGCAAAAACATCAGGAAAAAAGGATCCACTTGACTCAAATGATCCTGAAATCACAAAAAACATTGCTCAAAAAAGTAAAGGGCATTCTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-34a-5p(1), mmu-miR-122-5p(1), mmu-miR-146a-5p(1), mmu-miR-297a-5p(1), mmu-miR-383-5p(1), mmu-miR-499-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-3087-3p(1), mmu-miR-188-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAACAAAGAAGCTTTAGAACTAGC
siRNA sets
TTCTAAAGCTTCTTTGTTC, TAGTTCTAAAGCTTCTTTG, AGTTCTAAAGCTTCTTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCORC2_1316_ORF_1
0.8059
0.005982045
0.836274024
750
ORF sequence:
ATGCTTCAGTTACACCTTGGGTTCAACATTGTGCTTTATGGCTTGGGGTCCAAGAGAGATTTACTAGAAAAGTTTCGAACCACCATGCTTCAAGATTCCATTCATGTTGTCATCAACGGCTACTTTCCTGGCGTCAGTGTGAAATCAATCCTGAACTCTATAACTGAAGATGTCCTCAGTCATGTGGGTACTTTCCAAAGTGTTCTGGATCAGCGGGACTGGATAATAAACAGATTTAAAGAAGATTCTTCTTTAGAACTCTTCCTTCTTATCCACAATTTGGATAGCCAAATGTTAAGAGGAGACAATAGCCAGCAAATTCTTGGACAGTTGTCATCATTACATAACGTGTATCTCATAGCATCTATTGACCATCTCAATGCTCCTCTCATGTGGGATCATGCAAAGCAGAGTCTTTATAACTGGCTTTGGTATGAAACTACTACATACAGTCCTTATACTGAAGAAACCTCCTATGAGAACTCCCTTCTGGTTAAGCAGTCTGGATCTCTGCCACTTAGTTCTCTGATTCATGTCTTACGAAGCCTTACCCCCAATGCAAGGGGGATTTTCAGGCTACTTATGAAGTTCCAGCTGGATAACCAGGACAGCCCTTCCTACATTGGACTTTCTTTTCAAGATTTTTACCAGCAGTGTAGGGAAGCATTCCTTGTTAACAGTGATCTCACACTCCGAGCCCAGTTAACTGAATTTAGGGACCACAAACTTATAAGAACAAAGAAGCTTTAG
Peptide sequence:
MLQLHLGFNIVLYGLGSKRDLLEKFRTTMLQDSIHVVINGYFPGVSVKSILNSITEDVLSHVGTFQSVLDQRDWIINRFKEDSSLELFLLIHNLDSQMLRGDNSQQILGQLSSLHNVYLIASIDHLNAPLMWDHAKQSLYNWLWYETTTYSPYTEETSYENSLLVKQSGSLPLSSLIHVLRSLTPNARGIFRLLMKFQLDNQDSPSYIGLSFQDFYQQCREAFLVNSDLTLRAQLTEFRDHKLIRTKKL
IRESfinder result
IRESfinder score
0.779009061
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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