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mmu_circNcor1_441
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor1_441
mm39_Chr. Position ID:
chr11|62285963|62295292|-
Gene name:
Ncor1
Transcript:
ENSMUST00000101066.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,3127,6063,8661,9272
Genomic length:
9329
Exon/intron sizes in nt:
91,173,67,53,57
Flanking exon/introns:
chr11:62283509-62285963|chr11:62295292-62301645
Splice length:
441
Other database IDs:
circAtlas: mmu-Ncor1_0033
circBase: hsa_circ_0106261, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_77856
Human Ortholog IDs:
Mature spliced Sequence:
AAAAAAGCAGAAGAAGCTCATAAAATATTTGAAGGTCTTGGCCCAAAAGTTGAACTGCCACTCTATAACCAGCCATCAGATACCAAGGTGTACCATGAGAACATCAAGACAAACCAGGTGATGAGGAAAAAACTCATTTTATTTTTTAAAAGAAGAAATCATGCAAGAAAACAAAGGGAACAAAAAATCTGCCAGCGCTATGATCAGCTCATGGAAGCGTGGGAGAAAAAAGTGGACAGAATAGAAAATAATCCCCGGAGGAAAGCAAAAGAAAGCAAAACAAGGGAATACTATGAGAAGCAGTTTCCAGAAATTCGAAAACAAAGAGAACAGCAAGAAAGATTTCAGCGAGTTGGTCAGAGGGGAGCTGGTCTTTCAGCCACCATTGCTAGGAGTGAGCATGAGATTTCTGAAATTATTGATGGTCTTTCTGAACAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGGGGAGCTGGTCTTTCA
60.18
GGCAGTTCAACTTTTGGGCC
60.25
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAGGGGAGCTGGTCTTT
60.18
GGCAGTTCAACTTTTGGGCC
60.25
144
PCR template sequence:
ATTTCAGCGAGTTGGTCAGAGGGGAGCTGGTCTTTCAGCCACCATTGCTAGGAGTGAGCATGAGATTTCTGAAATTATTGATGGTCTTTCTGAACAGGAGAAAAAAGCAGAAGAAGCTCATAAAATATTTGAAGGTCTTGGCCCAAAAGTTGAACTGCCACTCTATAACCAGCCATCAGATACCAAGGTGTACCATGAGA
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-216a-5p(1), mmu-miR-29b-1-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTGAACAGGAGAAAAAAGCAGAAG
siRNA sets
TTTTTTCTCCTGTTCAGAA, CTTTTTTCTCCTGTTCAGA, TTCTGCTTTTTTCTCCTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR1_441_ORF_1
0.967
0.066883686
0.909442468
762
ORF sequence:
ATGAGGAAAAAACTCATTTTATTTTTTAAAAGAAGAAATCATGCAAGAAAACAAAGGGAACAAAAAATCTGCCAGCGCTATGATCAGCTCATGGAAGCGTGGGAGAAAAAAGTGGACAGAATAGAAAATAATCCCCGGAGGAAAGCAAAAGAAAGCAAAACAAGGGAATACTATGAGAAGCAGTTTCCAGAAATTCGAAAACAAAGAGAACAGCAAGAAAGATTTCAGCGAGTTGGTCAGAGGGGAGCTGGTCTTTCAGCCACCATTGCTAGGAGTGAGCATGAGATTTCTGAAATTATTGATGGTCTTTCTGAACAGGAGAAAAAAGCAGAAGAAGCTCATAAAATATTTGAAGGTCTTGGCCCAAAAGTTGAACTGCCACTCTATAACCAGCCATCAGATACCAAGGTGTACCATGAGAACATCAAGACAAACCAGGTGATGAGGAAAAAACTCATTTTATTTTTTAAAAGAAGAAATCATGCAAGAAAACAAAGGGAACAAAAAATCTGCCAGCGCTATGATCAGCTCATGGAAGCGTGGGAGAAAAAAGTGGACAGAATAGAAAATAATCCCCGGAGGAAAGCAAAAGAAAGCAAAACAAGGGAATACTATGAGAAGCAGTTTCCAGAAATTCGAAAACAAAGAGAACAGCAAGAAAGATTTCAGCGAGTTGGTCAGAGGGGAGCTGGTCTTTCAGCCACCATTGCTAGGAGTGAGCATGAGATTTCTGAAATTATTGATGGTCTTTCTGAACAGGAG
Peptide sequence:
MRKKLILFFKRRNHARKQREQKICQRYDQLMEAWEKKVDRIENNPRRKAKESKTREYYEKQFPEIRKQREQQERFQRVGQRGAGLSATIARSEHEISEIIDGLSEQEKKAEEAHKIFEGLGPKVELPLYNQPSDTKVYHENIKTNQVMRKKLILFFKRRNHARKQREQKICQRYDQLMEAWEKKVDRIENNPRRKAKESKTREYYEKQFPEIRKQREQQERFQRVGQRGAGLSATIARSEHEISEIIDGLSEQE
IRESfinder result
IRESfinder score
0.583216348
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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