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mmu_circCacnb2_598
Basic information of circular RNA
PanCircBase ID:
mmu_circCacnb2_598
mm39_Chr. Position ID:
chr2|14965465|14980050|+
Gene name:
Cacnb2
Transcript:
ENSMUST00000114723.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
5,6,7,8,9,10
Exon/intron offsets:
0,3251,7287,10907,11407,14475
Genomic length:
14585
Exon/intron sizes in nt:
13,77,71,34,81,59,110
Flanking exon/introns:
chr2:14963699-14965465|chr2:14980050-14986116
Splice length:
598
Other database IDs:
circAtlas: mmu-Cacnb2_0002
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AAATTTAATAATGACTGGTGGATAGGACGGCTGGTTAAAGAAGGCTGTGAAATCGGATTTATTCCAAGCCCAGTCAAACTAGAGAACATGAGGCTACAGCACGAACAGAGAGCCAAGCAAGGGAAATTCTATTCCAGTAAATCAGGAGGGAATTCATCATCCAGTTTGGGTGACATAGTGCCCAGTTCCAGAAAATCGACACCGCCGTCATCTGCTATAGACATAGATGCTACTGGCTTAGATGCAGAAGAGAATGATATTCCAGCAAACCACCGCTCCCCTAAGCCCAGTGCAAACAGTGTAACATCACCCCACTCCAAAGAGAAAAGAATGCCCTTCTTTAAGAAGACAGAGCACACTCCTCCTTATGATGTGGTACCTTCCATGCGACCAGTGGTGCTGGTGGGCCCGTCTCTGAAGGGGTATGAGGTCACAGATATGATGCAAAAAGCACTGTTTGATTTTCTAAAACACAGATTTGAAGGGCGGATATCCATCACAAGAGTCACTGCTGACATCTCCCTTGCCAAACGCTCAGTATTAAACAATCCCAGTAAGCATGCAATCATAGAAAGATCCAACACAAGGTCCAGCTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCACTGCTGACATCTCCCT
59.1
AGCCTTCTTTAACCAGCCGT
59.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCTGACATCTCCCTTGC
60.04
CACAGCCTTCTTTAACCAGCC
59.46
140
PCR template sequence:
ACAAGAGTCACTGCTGACATCTCCCTTGCCAAACGCTCAGTATTAAACAATCCCAGTAAGCATGCAATCATAGAAAGATCCAACACAAGGTCCAGCTTAGAAATTTAATAATGACTGGTGGATAGGACGGCTGGTTAAAGAAGGCTGTGAAATCGGATTTATTCCAAGCCCAGTCAAACTAGAGAACATGAGGCTACAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-182-5p(1), mmu-miR-669d-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGTCCAGCTTAGAAATTTAATAATG
siRNA sets
ATTAAATTTCTAAGCTGGA, TATTAAATTTCTAAGCTGG, TAAATTTCTAAGCTGGACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCACNB2_598_ORF_1
0.6674
0.106635195
0.537750476
519
ORF sequence:
ATGAGGCTACAGCACGAACAGAGAGCCAAGCAAGGGAAATTCTATTCCAGTAAATCAGGAGGGAATTCATCATCCAGTTTGGGTGACATAGTGCCCAGTTCCAGAAAATCGACACCGCCGTCATCTGCTATAGACATAGATGCTACTGGCTTAGATGCAGAAGAGAATGATATTCCAGCAAACCACCGCTCCCCTAAGCCCAGTGCAAACAGTGTAACATCACCCCACTCCAAAGAGAAAAGAATGCCCTTCTTTAAGAAGACAGAGCACACTCCTCCTTATGATGTGGTACCTTCCATGCGACCAGTGGTGCTGGTGGGCCCGTCTCTGAAGGGGTATGAGGTCACAGATATGATGCAAAAAGCACTGTTTGATTTTCTAAAACACAGATTTGAAGGGCGGATATCCATCACAAGAGTCACTGCTGACATCTCCCTTGCCAAACGCTCAGTATTAAACAATCCCAGTAAGCATGCAATCATAGAAAGATCCAACACAAGGTCCAGCTTAGAAATTTAA
Peptide sequence:
MRLQHEQRAKQGKFYSSKSGGNSSSSLGDIVPSSRKSTPPSSAIDIDATGLDAEENDIPANHRSPKPSANSVTSPHSKEKRMPFFKKTEHTPPYDVVPSMRPVVLVGPSLKGYEVTDMMQKALFDFLKHRFEGRISITRVTADISLAKRSVLNNPSKHAIIERSNTRSSLEI
IRESfinder result
IRESfinder score
0.464172398
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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