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mmu_circNcor1_297
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor1_297
mm39_Chr. Position ID:
chr11|62301645|62310606|-
Gene name:
Ncor1
Transcript:
ENSMUST00000101066.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,8778
Genomic length:
8961
Exon/intron sizes in nt:
1,14,183
Flanking exon/introns:
chr11:62295292-62301645|chr11:62310606-62313700
Splice length:
297
Other database IDs:
CIRCpedia: MMU_CIRCpedia_217158, circAtlas: mmu-Ncor1_0040
circBase: hsa_circ_0106266, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_19419
Human Ortholog IDs:
Mature spliced Sequence:
GATTCAGCATTTGGAAGCAAACATGAAGCTCCATCCTCTCCTTTGGCTGGGCAACCATGTGGAGATGACCAAAATGCTTCACCTTCAAAGCTTTCAAAGGAGGAGTTAATACAGAGTATGGACCGGGTAGACCGAGAGATTGCAAAAGTAGAGCAGCAGATCCTTAAATTGAAAAAGAAACAACAACAGCTAGAAGAAGAAGCAGCTAAGCCCCCTGAACCAGAGAAGCCTGTGTCCCCTCCTCCTGTGGAACAAAAACACCGTAGTATTGTCCAAATTATTTATGATGAGAATCGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTGAACCAGAGAAGCCTG
60.04
ATCTCCACATGGTTGCCCAG
60.03
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTGAACCAGAGAAGCCTG
60.04
TCATCTCCACATGGTTGCCC
60.03
153
PCR template sequence:
AGAAGCAGCTAAGCCCCCTGAACCAGAGAAGCCTGTGTCCCCTCCTCCTGTGGAACAAAAACACCGTAGTATTGTCCAAATTATTTATGATGAGAATCGGGATTCAGCATTTGGAAGCAAACATGAAGCTCCATCCTCTCCTTTGGCTGGGCAACCATGTGGAGATGACCAAAATGCTTCACCTTCAAAGCTTTCAAAGG
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-27a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGATGAGAATCGGGATTCAGCATTTG
siRNA sets
AAATGCTGAATCCCGATTC, ATGCTGAATCCCGATTCTC, AATGCTGAATCCCGATTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR1_297_ORF_1
1.1604
0.277487641
0.814217348
477
ORF sequence:
ATGGACCGGGTAGACCGAGAGATTGCAAAAGTAGAGCAGCAGATCCTTAAATTGAAAAAGAAACAACAACAGCTAGAAGAAGAAGCAGCTAAGCCCCCTGAACCAGAGAAGCCTGTGTCCCCTCCTCCTGTGGAACAAAAACACCGTAGTATTGTCCAAATTATTTATGATGAGAATCGGGATTCAGCATTTGGAAGCAAACATGAAGCTCCATCCTCTCCTTTGGCTGGGCAACCATGTGGAGATGACCAAAATGCTTCACCTTCAAAGCTTTCAAAGGAGGAGTTAATACAGAGTATGGACCGGGTAGACCGAGAGATTGCAAAAGTAGAGCAGCAGATCCTTAAATTGAAAAAGAAACAACAACAGCTAGAAGAAGAAGCAGCTAAGCCCCCTGAACCAGAGAAGCCTGTGTCCCCTCCTCCTGTGGAACAAAAACACCGTAGTATTGTCCAAATTATTTATGATGAGAATCGG
Peptide sequence:
MDRVDREIAKVEQQILKLKKKQQQLEEEAAKPPEPEKPVSPPPVEQKHRSIVQIIYDENRDSAFGSKHEAPSSPLAGQPCGDDQNASPSKLSKEELIQSMDRVDREIAKVEQQILKLKKKQQQLEEEAAKPPEPEKPVSPPPVEQKHRSIVQIIYDENR
IRESfinder result
IRESfinder score
0.66396125
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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