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mmu_ciNcor1_1316
Basic information of circular RNA
PanCircBase ID:
mmu_ciNcor1_1316
mm39_Chr. Position ID:
chr11|62274227|62275543|-
Gene name:
Ncor1
Transcript:
ENSMUST00000101066.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
14
Exon/intron offsets:
0
Genomic length:
1316
Exon/intron sizes in nt:
1316
Flanking exon/introns:
chr11:62274201-62275543
Splice length:
1316
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTCGAGCAGTTAGATATATGCTATTGTTCAGATCTGAAGCTGTATCTGTGTTTTCAGGAACATATGCTTTGACTAACGGGTTCTTGGCATGATGAAGAAATTCAGTATTAGGGAATGGAGAAGGAGGGGGTAGGGGATTTTCGGAGGGGAAACTAGGAAAGGGGATAACATTTGAAATGTAAATAAAGAAAATATTTAAAAAAAAAAAAAGAAAGAAAAGAAATTCAGTATTAGTCAGGCGGTAATGACACACACAGGCCTTTAAATCTAGTACTGGGGAGGCAGAGAAAAAGAAAAGAAAGAAACAAAGAAAGAAATGGATGTTTTAGTAAATAGAATGTTTGAATTAACGACCTTATTTTGCAGGGATGTTATTTTATGTATACATGCACACTTGTTTTGTTTTATTTTGTTTGAGATGGGTTCTCTGAGTAGCCCTGACTGTGTGGAACTCACTCTATAGACCAGGCTAGCCTCAAACTCAAAATGGGCCTGCTTCTGCCTTCTGAGTGCTGGGGTTATAGGCATGCACCCCCCCCCCCCCAGCGTCCTAGGTTTCTTTGTAGTGAAATTTCTGTCCACTCTTAGTCTCGGATTAATAATGTTCTAGAATTAAGTATAAATGGAGTTAGCATTCCATCACTATAAGAAAAAAAACCCCTATGTCATAATCAACTTAGAAATAGAAAATTTTTTTAGCTTACAGTTTTAGAAGTAGTAATTTGACTGGTTGGTTCCATTAATCATTTTACAGAGAGAAAGGAAATAAGGAAAGAGGGTGAGAGATCTCTCGTTATACCTTTTATGCTAACACTGACACAAAGACCTACTAGGTCTTACCTCTTCCAACACTTGTAAACAGCACCCATTAGGACCAAGTTTTAACACTTCATTGTTTGCAGGATGTTTAAGAGTCAATGCTTACCAAGTATGTGTGGCTTTTTCTTATTTAGCCTATAGAAGAGTCACCTGCTTTAACCTCACTTCATAGAGTAAACTTTAACAGGATTTAACAAAAGCAAAAAGCCATTGCTATAAAGTCTTTCTGCTCCATCTCAGGTCTGGGTGGTTCTGTTATCATTTCATATTTTCTTATGAATGTCTGGATTTTAAGTTAACATGAAACATGTTTACAGTTTAAGTCTATTCTTCTGGCATGTCTTGAATCTCTCAAAGCTATTAAAATCTCACATGATAAAGTTCTCACATAAAGTTTTTCACAAGATAGAGTTTAAAAGTTAAAGAGTGGATAAATTTATGCAGTTTCTATTTAAAGAATACTCTTTGCTGTATCCATAATTTTAGATCACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTGGATAAATTTATGCAGTTTCT
57.19
TCATCATGCCAAGAACCCGT
59.67
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGTGGATAAATTTATGCAGTTTCT
55.93
TCATCATGCCAAGAACCCGT
59.67
168
PCR template sequence:
GTTTTTCACAAGATAGAGTTTAAAAGTTAAAGAGTGGATAAATTTATGCAGTTTCTATTTAAAGAATACTCTTTGCTGTATCCATAATTTTAGATCACAAGTGAGTCGAGCAGTTAGATATATGCTATTGTTCAGATCTGAAGCTGTATCTGTGTTTTCAGGAACATATGCTTTGACTAACGGGTTCTTGGCATGATGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-30b-5p(2), mmu-miR-136-5p(2), mmu-miR-429-3p(1), mmu-miR-135a-5p(1), mmu-miR-30e-5p(1), mmu-miR-146a-5p(1), mmu-miR-30c-5p(1), mmu-miR-709(1), mmu-miR-203-3p(1), mmu-miR-181b-5p(1), mmu-miR-434-5p(1), mmu-miR-342-5p(1), mmu-miR-697(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTAGATCACAAGTGAGTCGAGCAG
siRNA sets
NA
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
0.883319508
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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