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mmu_circNcor1_227
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor1_227
mm39_Chr. Position ID:
chr11|62275543|62280618|-
Gene name:
Ncor1
Transcript:
ENSMUST00000101066.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
14,13
Exon/intron offsets:
0,4973
Genomic length:
5075
Exon/intron sizes in nt:
1,25,102
Flanking exon/introns:
chr11:62274201-62275543|chr11:62280618-62281804
Splice length:
227
Other database IDs:
CIRCpedia: MMU_CIRCpedia_25270, circAtlas: mmu-Ncor1_0126
Human Ortholog IDs:
Mature spliced Sequence:
AGTGTTCCTGATTGTGTTTTATATTACTATTTAACCAAGAAAAATGAGAATTATAAGGCCCTCGTGAGAAGGAATTATGGAAAACGCAGAGGCAGAAATCAGCAGATTGCCCGTCCCTCACAAGAAGAAAAAGTAGAAGAAAAGGAAGAGGATAAAGCAGAAAAAACAGAGAAAAAGGAAGAAGAAAAGAAGGATGATGAAGAAAAAGATGATAAGGAAGACTCTAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAAGGAAGAGGATAAAGCAGA
57.62
TCCTTCTCACGAGGGCCTTA
59.96
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAAGGAAGAGGATAAAGCAGA
57.62
AATTCCTTCTCACGAGGGCC
59.75
166
PCR template sequence:
AAAAAGTAGAAGAAAAGGAAGAGGATAAAGCAGAAAAAACAGAGAAAAAGGAAGAAGAAAAGAAGGATGATGAAGAAAAAGATGATAAGGAAGACTCTAAAGTGTTCCTGATTGTGTTTTATATTACTATTTAACCAAGAAAAATGAGAATTATAAGGCCCTCGTGAGAAGGAATTATGGAAAACGCAGAGGCAGAAATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAAGACTCTAAAGTGTTCCTGATT
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
0.425286057
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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