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mmu_circNucb2_840
Basic information of circular RNA
PanCircBase ID:
mmu_circNucb2_840
mm39_Chr. Position ID:
chr7|116108689|116127057|+
Gene name:
Nucb2
Transcript:
ENSMUST00000032895.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,12382,14844,16506,16845,18182
Genomic length:
18368
Exon/intron sizes in nt:
1,71,14,41,08,12,71,04,000
Flanking exon/introns:
chr7:116103719-116108689|chr7:116127057-116127234
Splice length:
840
Other database IDs:
circAtlas: mmu-Nucb2_0012
Human Ortholog IDs:
Mature spliced Sequence:
AACACACCAGTCAGTTTTTCAAGGGAAAATCCTGGGCCAGGAGCCAAGTCCTGATCTCTACAAACTTAATATTGTGTAGATTATTTTACCACCTGAGATCTCAGTGGCCTCATCTGTGCAAGAAAGAGAAAATTAAATAATAAAAAAGATAAAACCTTGGCCTGTCTGAAGATGAGGTGGAGGATCATCCAAGTACAGTACTGTTTTCTCTTGGTTCCGTGCATGCTGACCGCTCTGGAAGCTGTTCCTATCGATGTGGACAAGACCAAAGTACACAACACTGAGCCAGTGGAAAATGCAAGGATAGAGCCACCAGATACTGGACTTTATTATGATGAATACCTCAAGCAAGTGATTGAAGTCTTGGAAACAGATCCACATTTCAGAGAAAAGCTCCAGAAAGCAGACATAGAGGAGATAAGGAGCGGGAGGCTGAGTCAAGAGCTGGACTTAGTAAGTCACAAAGTGAGGACGAGACTGGATGAGCTGAAGAGGCAAGAAGTAGGAAGACTGCGGATGCTCATCAAAGCTAAGCTGGATGCCCTTCAAGACACTGGCATGAATCACCACCTTCTTCTGAAGCAGTTTGAACACCTGAACCACCAGAATCCTAACACATTTGAATCCAGAGATTTGGATATGCTAATCAAAGCAGCTACCGCGGATCTGGAGCAATATGACCGGACTCGGCATGAAGAGTTTAAGAAGTACGAGATGATGAAGGAACACGAGCGGAGAGAGTATTTAAAAACGCTGAGTGAGGAGAAGAGGAAAGAAGAAGAGTCTAAGTTTGAAGAGATGAAGAGGAAGCACGAAGACCACCCCAAAGTTAATCATCCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTGAGTGAGGAGAAGAGG
59.54
AGAGATCAGGACTTGGCTCCT
59.99
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTGAGTGAGGAGAAGAGG
59.54
GAGATCAGGACTTGGCTCCT
58.51
147
PCR template sequence:
GTATTTAAAAACGCTGAGTGAGGAGAAGAGGAAAGAAGAAGAGTCTAAGTTTGAAGAGATGAAGAGGAAGCACGAAGACCACCCCAAAGTTAATCATCCCAACACACCAGTCAGTTTTTCAAGGGAAAATCCTGGGCCAGGAGCCAAGTCCTGATCTCTACAAACTTAATATTGTGTAGATTATTTTACCACCTGAGATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-9-5p(1), mmu-miR-101a-3p(1), mmu-miR-149-5p(1), mmu-miR-758-3p(1), mmu-miR-207(1), mmu-miR-452-3p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTAATCATCCCAACACACCAGTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUCB2_840_ORF_1
1.2359
0.267101447
0.965291282
723
ORF sequence:
ATGAGGTGGAGGATCATCCAAGTACAGTACTGTTTTCTCTTGGTTCCGTGCATGCTGACCGCTCTGGAAGCTGTTCCTATCGATGTGGACAAGACCAAAGTACACAACACTGAGCCAGTGGAAAATGCAAGGATAGAGCCACCAGATACTGGACTTTATTATGATGAATACCTCAAGCAAGTGATTGAAGTCTTGGAAACAGATCCACATTTCAGAGAAAAGCTCCAGAAAGCAGACATAGAGGAGATAAGGAGCGGGAGGCTGAGTCAAGAGCTGGACTTAGTAAGTCACAAAGTGAGGACGAGACTGGATGAGCTGAAGAGGCAAGAAGTAGGAAGACTGCGGATGCTCATCAAAGCTAAGCTGGATGCCCTTCAAGACACTGGCATGAATCACCACCTTCTTCTGAAGCAGTTTGAACACCTGAACCACCAGAATCCTAACACATTTGAATCCAGAGATTTGGATATGCTAATCAAAGCAGCTACCGCGGATCTGGAGCAATATGACCGGACTCGGCATGAAGAGTTTAAGAAGTACGAGATGATGAAGGAACACGAGCGGAGAGAGTATTTAAAAACGCTGAGTGAGGAGAAGAGGAAAGAAGAAGAGTCTAAGTTTGAAGAGATGAAGAGGAAGCACGAAGACCACCCCAAAGTTAATCATCCCAACACACCAGTCAGTTTTTCAAGGGAAAATCCTGGGCCAGGAGCCAAGTCCTGA
Peptide sequence:
MRWRIIQVQYCFLLVPCMLTALEAVPIDVDKTKVHNTEPVENARIEPPDTGLYYDEYLKQVIEVLETDPHFREKLQKADIEEIRSGRLSQELDLVSHKVRTRLDELKRQEVGRLRMLIKAKLDALQDTGMNHHLLLKQFEHLNHQNPNTFESRDLDMLIKAATADLEQYDRTRHEEFKKYEMMKEHERREYLKTLSEEKRKEEESKFEEMKRKHEDHPKVNHPNTPVSFSRENPGPGAKS
IRESfinder result
IRESfinder score
0.440817725
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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