top of page
mmu_circNcor2_351
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor2_351
mm39_Chr. Position ID:
chr5|125179706|125187136|-
Gene name:
Ncor2
Transcript:
ENSMUST00000111402.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,3556,7250
Genomic length:
7430
Exon/intron sizes in nt:
5,71,14,180
Flanking exon/introns:
chr5:125175063-125179706|chr5:125187136-125195680
Splice length:
351
Other database IDs:
circAtlas: mmu-Ncor2_0002
circAtlas: hsa-NCOR2_0002
Human Ortholog IDs:
Mature spliced Sequence:
GACCGTAGCCTGGCAGGCAAGCTGGAGCCTGTGTCACCTCCCAGTCCCCCGCACGCTGACCCTGAGCTAGAGCTGGCGCCATCTCGACTGTCCAAGGAGGAGCTGATCCAGAACATGGACCGCGTGGACCGTGAGATCACCATGGTAGAGCAGCAGATCTCCAAGCTGAAGAAGAAGCAGCAACAGTTGGAGGAGGAGGCCGCCAAGCCGCCCGAACCCGAGAAGCCTGTGTCGCCACCACCCATAGAATCAAAGCACCGAAGCCTGGTCCAGATCATCTACGATGAGAACCGGAAGAAAGCCGAAGCCGCACACCGGATCCTAGAAGGCCTGGGGCCCCAGGTGGAGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCACACCGGATCCTAGAAG
60.25
CCTTGGACAGTCGAGATGGC
60.46
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACACCGGATCCTAGAAGGC
59.89
CTCCTTGGACAGTCGAGATGG
59.86
140
PCR template sequence:
AAAGCACCGAAGCCTGGTCCAGATCATCTACGATGAGAACCGGAAGAAAGCCGAAGCCGCACACCGGATCCTAGAAGGCCTGGGGCCCCAGGTGGAGCTGGACCGTAGCCTGGCAGGCAAGCTGGAGCCTGTGTCACCTCCCAGTCCCCCGCACGCTGACCCTGAGCTAGAGCTGGCGCCATCTCGACTGTCCAAGGAGG
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-484(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGGTGGAGCTGGACCGTAGCCTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR2_351_ORF_1
1.1935
0.73358931
0.985261914
588
ORF sequence:
ATGGACCGCGTGGACCGTGAGATCACCATGGTAGAGCAGCAGATCTCCAAGCTGAAGAAGAAGCAGCAACAGTTGGAGGAGGAGGCCGCCAAGCCGCCCGAACCCGAGAAGCCTGTGTCGCCACCACCCATAGAATCAAAGCACCGAAGCCTGGTCCAGATCATCTACGATGAGAACCGGAAGAAAGCCGAAGCCGCACACCGGATCCTAGAAGGCCTGGGGCCCCAGGTGGAGCTGGACCGTAGCCTGGCAGGCAAGCTGGAGCCTGTGTCACCTCCCAGTCCCCCGCACGCTGACCCTGAGCTAGAGCTGGCGCCATCTCGACTGTCCAAGGAGGAGCTGATCCAGAACATGGACCGCGTGGACCGTGAGATCACCATGGTAGAGCAGCAGATCTCCAAGCTGAAGAAGAAGCAGCAACAGTTGGAGGAGGAGGCCGCCAAGCCGCCCGAACCCGAGAAGCCTGTGTCGCCACCACCCATAGAATCAAAGCACCGAAGCCTGGTCCAGATCATCTACGATGAGAACCGGAAGAAAGCCGAAGCCGCACACCGGATCCTAGAAGGCCTGGGGCCCCAGGTGGAGCTG
Peptide sequence:
MDRVDREITMVEQQISKLKKKQQQLEEEAAKPPEPEKPVSPPPIESKHRSLVQIIYDENRKKAEAAHRILEGLGPQVELDRSLAGKLEPVSPPSPPHADPELELAPSRLSKEELIQNMDRVDREITMVEQQISKLKKKQQQLEEEAAKPPEPEKPVSPPPIESKHRSLVQIIYDENRKKAEAAHRILEGLGPQVEL
IRESfinder result
IRESfinder score
0.270024938
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page