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mmu_circNucb2_261
Basic information of circular RNA
PanCircBase ID:
mmu_circNucb2_261
mm39_Chr. Position ID:
chr7|116132306|116135267|+
Gene name:
Nucb2
Transcript:
ENSMUST00000032895.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
11,12
Exon/intron offsets:
0,2790
Genomic length:
2961
Exon/intron sizes in nt:
90,171
Flanking exon/introns:
chr7:116128302-116132306|chr7:116135267-116139179
Splice length:
261
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTGATAACAACAAAGACCGATTGGTGACTCTGGAGGAATTCCTGAGAGCTACAGAGAAGAAAGAATTCCTGGAGCCTGATAGCTGGGAGACACTGGACCAGCAACAGTTATTCACCGAGGACGAGCTTAAAGAGTATGAAAGCATTATTGCTATCCAAGAGAACGAGCTTAAGAAGAGGGCGGAAGAGCTGCAGAAACAGAAGGAGGATCTGCAGCGGCAGCACGACCACCTCGAGGCGCAGAAGCAGGAGTATCATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAAGGAGGATCTGCAGCG
60.53
TGTCTCCCAGCTATCAGGCT
60.03
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAAGGAGGATCTGCAGC
59.46
TGTCTCCCAGCTATCAGGCT
60.03
157
PCR template sequence:
GAACGAGCTTAAGAAGAGGGCGGAAGAGCTGCAGAAACAGAAGGAGGATCTGCAGCGGCAGCACGACCACCTCGAGGCGCAGAAGCAGGAGTATCATCAGATTGATAACAACAAAGACCGATTGGTGACTCTGGAGGAATTCCTGAGAGCTACAGAGAAGAAAGAATTCCTGGAGCCTGATAGCTGGGAGACACTGGACC
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-199a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGTATCATCAGATTGATAACAACA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUCB2_261_ORF_1
1.213
-0.145075591
0.07666188
153
ORF sequence:
ATGAAAGCATTATTGCTATCCAAGAGAACGAGCTTAAGAAGAGGGCGGAAGAGCTGCAGAAACAGAAGGAGGATCTGCAGCGGCAGCACGACCACCTCGAGGCGCAGAAGCAGGAGTATCATCAGATTGATAACAACAAAGACCGATTGGTGA
Peptide sequence:
MKALLLSKRTSLRRGRKSCRNRRRICSGSTTTSRRRSRSIIRLITTKTDW
IRESfinder result
IRESfinder score
0.520884434
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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