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mmu_circNcor1_663
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor1_663
mm39_Chr. Position ID:
chr11|62269322|62280618|-
Gene name:
Ncor1
Transcript:
ENSMUST00000101067.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
17,16,15,14,13
Exon/intron offsets:
0,2911,4664,6221,11194
Genomic length:
11296
Exon/intron sizes in nt:
1,58,63,21,51,25,102
Flanking exon/introns:
chr11:62267587-62269322|chr11:62280618-62281804
Splice length:
663
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGTGTTCCTGATTGTGTTTTATATTACTATTTAACCAAGAAAAATGAGAATTATAAGGCCCTCGTGAGAAGGAATTATGGAAAACGCAGAGGCAGAAATCAGCAGATTGCCCGTCCCTCACAAGAAGAAAAAGTAGAAGAAAAGGAAGAGGATAAAGCAGAAAAAACAGAGAAAAAGGAAGAAGAAAAGAAGGATGATGAAGAAAAAGATGATAAGGAAGACTCTAAAGAAACAACCAAGGAAAAGGACAGAACGGAAGCCACAGCAGAAGAACCTGAAGAAAGAGAGCAGGTCACTCCAAGGGGGCGAAAGACTGCTAACAGCCAAGGCCGCCGGAAGGGCCGGGTCACCAGGTCGATGACAAGTGAAGCTGCAGCTGCCAATGCTGCTGCTGCAGCCACTGAGGAGCCCCCGCCACCCCTGCCGCCACCACCAGAGCCCATTTCTACAGAACCTGTTGAGACTTCAAGATGGACAGAAGAAGAAATGGAAGTTGCTAAAAAAGGCCTGGTAGAACATGGTCGTAACTGGGCAGCCATTGCTAAAATGGTGGGAACTAAAAGTGAAGCCCAGTGCAAAAACTTCTATTTTAACTATAAAAGACGGCATAATCTTGACAACCTTTTGCAGCAACATAAACAGAAAGTGAGTAGAGCAGTAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGCCCAGTGCAAAAACT
58.52
TCCTTCTCACGAGGGCCTTA
59.96
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAACCTTTTGCAGCAACA
59.45
TCTGCCTCTGCGTTTTCCAT
59.96
145
PCR template sequence:
TGAAGCCCAGTGCAAAAACTTCTATTTTAACTATAAAAGACGGCATAATCTTGACAACCTTTTGCAGCAACATAAACAGAAAGTGAGTAGAGCAGTAGTGAGTGTTCCTGATTGTGTTTTATATTACTATTTAACCAAGAAAAATGAGAATTATAAGGCCCTCGTGAGAAGGAATTATGGAAAACGCAGAGGCAGAAATC
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-103-3p(1), mmu-miR-107-3p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGAGCAGTAGTGAGTGTTCCTGATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR1_663_ORF_1
1.0897
0.211123326
0.990128348
969
ORF sequence:
ATGACAAGTGAAGCTGCAGCTGCCAATGCTGCTGCTGCAGCCACTGAGGAGCCCCCGCCACCCCTGCCGCCACCACCAGAGCCCATTTCTACAGAACCTGTTGAGACTTCAAGATGGACAGAAGAAGAAATGGAAGTTGCTAAAAAAGGCCTGGTAGAACATGGTCGTAACTGGGCAGCCATTGCTAAAATGGTGGGAACTAAAAGTGAAGCCCAGTGCAAAAACTTCTATTTTAACTATAAAAGACGGCATAATCTTGACAACCTTTTGCAGCAACATAAACAGAAAGTGAGTAGAGCAGTAGTGAGTGTTCCTGATTGTGTTTTATATTACTATTTAACCAAGAAAAATGAGAATTATAAGGCCCTCGTGAGAAGGAATTATGGAAAACGCAGAGGCAGAAATCAGCAGATTGCCCGTCCCTCACAAGAAGAAAAAGTAGAAGAAAAGGAAGAGGATAAAGCAGAAAAAACAGAGAAAAAGGAAGAAGAAAAGAAGGATGATGAAGAAAAAGATGATAAGGAAGACTCTAAAGAAACAACCAAGGAAAAGGACAGAACGGAAGCCACAGCAGAAGAACCTGAAGAAAGAGAGCAGGTCACTCCAAGGGGGCGAAAGACTGCTAACAGCCAAGGCCGCCGGAAGGGCCGGGTCACCAGGTCGATGACAAGTGAAGCTGCAGCTGCCAATGCTGCTGCTGCAGCCACTGAGGAGCCCCCGCCACCCCTGCCGCCACCACCAGAGCCCATTTCTACAGAACCTGTTGAGACTTCAAGATGGACAGAAGAAGAAATGGAAGTTGCTAAAAAAGGCCTGGTAGAACATGGTCGTAACTGGGCAGCCATTGCTAAAATGGTGGGAACTAAAAGTGAAGCCCAGTGCAAAAACTTCTATTTTAACTATAAAAGACGGCATAATCTTGACAACCTTTTGCAGCAACATAAACAGAAAGTGAGTAGAGCAGTAGTG
Peptide sequence:
MTSEAAAANAAAAATEEPPPPLPPPPEPISTEPVETSRWTEEEMEVAKKGLVEHGRNWAAIAKMVGTKSEAQCKNFYFNYKRRHNLDNLLQQHKQKVSRAVVSVPDCVLYYYLTKKNENYKALVRRNYGKRRGRNQQIARPSQEEKVEEKEEDKAEKTEKKEEEKKDDEEKDDKEDSKETTKEKDRTEATAEEPEEREQVTPRGRKTANSQGRRKGRVTRSMTSEAAAANAAAAATEEPPPPLPPPPEPISTEPVETSRWTEEEMEVAKKGLVEHGRNWAAIAKMVGTKSEAQCKNFYFNYKRRHNLDNLLQQHKQKVSRAVV
IRESfinder result
IRESfinder score
0.361110643
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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