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mmu_circNcoa3_1246
Basic information of circular RNA
PanCircBase ID:
mmu_circNcoa3_1246
mm39_Chr. Position ID:
chr2|165896201|165897559|+
Gene name:
Ncoa3
Transcript:
ENSMUST00000109252.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
11,12
Exon/intron offsets:
0,489
Genomic length:
1358
Exon/intron sizes in nt:
3,77,869
Flanking exon/introns:
chr2:165894821-165896201|chr2:165897559-165899008
Splice length:
1246
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGAACAGAATGGATACAGACCAAACCCAAATCCCGCAGGACAAGGCATCCGACCTCCTGCAGCAGGGTGTGGCGTGAGCATGTCTCCAAATCAGAATGTACAGATGATGGGCAGCCGGACCTATGGCGTGCCAGACCCCAGCAACACAGGGCAGATGGGTGGAGCTAGGTACGGGGCTTCTAGTAGCGTAGCCTCACTGACGCCAGGACAAAGCCTACAGTCGCCATCTTCCTATCAGAACAGCAGCTATGGGCTCAGCATGAGCAGTCCCCCCCACGGCAGTCCTGGTCTTGGTCCCAACCAGCAGAACATCATGATTTCCCCTCGGAATCGTGGCAGCCCAAAGATGGCCTCCCACCAGTTCTCTCCTGCTGCAGGTGCACACTCACCCATGGGACCTTCTGGCAACACAGGGAGCCACAGCTTTTCTAGCAGCTCCCTCAGTGCCTTGCAAGCCATCAGTGAAGGCGTGGGGACCTCTCTTTTATCTACTCTGTCCTCACCAGGCCCCAAACTGGATAATTCTCCCAATATGAATATAAGCCAGCCAAGTAAAGTGAGTGGTCAGGACTCTAAGAGCCCCCTAGGCTTATACTGTGAACAGAATCCAGTGGAGAGTTCAGTGTGTCAGTCAAACAGCAGAGATCACCCAAGTGAAAAAGAAAGCAAGGAGAGCAGTGGGGAGGTGTCAGAGACGCCCAGGGGACCTCTGGAAAGCAAAGGCCACAAGAAACTGCTGCAGTTACTCACGTGCTCCTCCGACGACCGAGGCCATTCCTCCTTGACCAACTCTCCCCTGGATCCAAACTGCAAAGACTCTTCCGTTAGTGTCACCAGCCCCTCTGGAGTGTCCTCCTCAACATCAGGGACAGTGTCTTCCACCTCCAATGTGCATGGGTCTCTGTTGCAAGAGAAACACCGGATTTTGCACAAGTTGCTGCAGAATGGCAACTCCCCAGCGGAGGTCGCCAAGATCACTGCAGAGGCCACTGGGAAGGACACGAGCAGCACTGCTTCCTGTGGAGAGGGGACAACCAGGCAGGAGCAGCTGAGTCCTAAGAAGAAGGAGAATAATGCTCTGCTTAGATACCTGCTGGACAGGGATGACCCCAGTGATGTGCTTGCCAAAGAGCTGCAGCCCCAGGCCGACAGTGGGGACAGTAAACTGAGTCAGTGCAGCTGCTCCACCAATCCCAGCTCTGGCCAAGAGAAAGACCCCAAAATTAAGACCGAGACGAACGAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCACCAATCCCAGCTCTG
60.11
TTTGGAGACATGCTCACGCC
60.96
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCACCAATCCCAGCTCTG
60.11
GATTTGGAGACATGCTCACGC
59.94
156
PCR template sequence:
CGACAGTGGGGACAGTAAACTGAGTCAGTGCAGCTGCTCCACCAATCCCAGCTCTGGCCAAGAGAAAGACCCCAAAATTAAGACCGAGACGAACGAGGAGAGAACAGAATGGATACAGACCAAACCCAAATCCCGCAGGACAAGGCATCCGACCTCCTGCAGCAGGGTGTGGCGTGAGCATGTCTCCAAATCAGAATGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-214-3p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-339-5p(1), mmu-miR-433-3p(1), mmu-miR-182-5p(1), mmu-miR-532-5p(1), mmu-miR-670-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACGAACGAGGAGAGAACAGAATGGA
siRNA sets
TCTGTTCTCTCCTCGTTCG, TTCTGTTCTCTCCTCGTTC, ATTCTGTTCTCTCCTCGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOA3_1246_ORF_1
0.8015
0.237305523
0.99887985
1335
ORF sequence:
ATGTCTCCAAATCAGAATGTACAGATGATGGGCAGCCGGACCTATGGCGTGCCAGACCCCAGCAACACAGGGCAGATGGGTGGAGCTAGGTACGGGGCTTCTAGTAGCGTAGCCTCACTGACGCCAGGACAAAGCCTACAGTCGCCATCTTCCTATCAGAACAGCAGCTATGGGCTCAGCATGAGCAGTCCCCCCCACGGCAGTCCTGGTCTTGGTCCCAACCAGCAGAACATCATGATTTCCCCTCGGAATCGTGGCAGCCCAAAGATGGCCTCCCACCAGTTCTCTCCTGCTGCAGGTGCACACTCACCCATGGGACCTTCTGGCAACACAGGGAGCCACAGCTTTTCTAGCAGCTCCCTCAGTGCCTTGCAAGCCATCAGTGAAGGCGTGGGGACCTCTCTTTTATCTACTCTGTCCTCACCAGGCCCCAAACTGGATAATTCTCCCAATATGAATATAAGCCAGCCAAGTAAAGTGAGTGGTCAGGACTCTAAGAGCCCCCTAGGCTTATACTGTGAACAGAATCCAGTGGAGAGTTCAGTGTGTCAGTCAAACAGCAGAGATCACCCAAGTGAAAAAGAAAGCAAGGAGAGCAGTGGGGAGGTGTCAGAGACGCCCAGGGGACCTCTGGAAAGCAAAGGCCACAAGAAACTGCTGCAGTTACTCACGTGCTCCTCCGACGACCGAGGCCATTCCTCCTTGACCAACTCTCCCCTGGATCCAAACTGCAAAGACTCTTCCGTTAGTGTCACCAGCCCCTCTGGAGTGTCCTCCTCAACATCAGGGACAGTGTCTTCCACCTCCAATGTGCATGGGTCTCTGTTGCAAGAGAAACACCGGATTTTGCACAAGTTGCTGCAGAATGGCAACTCCCCAGCGGAGGTCGCCAAGATCACTGCAGAGGCCACTGGGAAGGACACGAGCAGCACTGCTTCCTGTGGAGAGGGGACAACCAGGCAGGAGCAGCTGAGTCCTAAGAAGAAGGAGAATAATGCTCTGCTTAGATACCTGCTGGACAGGGATGACCCCAGTGATGTGCTTGCCAAAGAGCTGCAGCCCCAGGCCGACAGTGGGGACAGTAAACTGAGTCAGTGCAGCTGCTCCACCAATCCCAGCTCTGGCCAAGAGAAAGACCCCAAAATTAAGACCGAGACGAACGAGGAGAGAACAGAATGGATACAGACCAAACCCAAATCCCGCAGGACAAGGCATCCGACCTCCTGCAGCAGGGTGTGGCGTGAGCATGTCTCCAAATCAGAATGTACAGATGATGGGCAGCCGGACCTATGGCGTGCCAGACCCCAGCAACACAGGGCAGATGGGTGGAGCTAG
Peptide sequence:
MSPNQNVQMMGSRTYGVPDPSNTGQMGGARYGASSSVASLTPGQSLQSPSSYQNSSYGLSMSSPPHGSPGLGPNQQNIMISPRNRGSPKMASHQFSPAAGAHSPMGPSGNTGSHSFSSSSLSALQAISEGVGTSLLSTLSSPGPKLDNSPNMNISQPSKVSGQDSKSPLGLYCEQNPVESSVCQSNSRDHPSEKESKESSGEVSETPRGPLESKGHKKLLQLLTCSSDDRGHSSLTNSPLDPNCKDSSVSVTSPSGVSSSTSGTVSSTSNVHGSLLQEKHRILHKLLQNGNSPAEVAKITAEATGKDTSSTASCGEGTTRQEQLSPKKKENNALLRYLLDRDDPSDVLAKELQPQADSGDSKLSQCSCSTNPSSGQEKDPKIKTETNEERTEWIQTKPKSRRTRHPTSCSRVWREHVSKSECTDDGQPDLWRARPQQHRADGWS
IRESfinder result
IRESfinder score
0.473029641
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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