top of page
mmu_circBcap29_287
Basic information of circular RNA
PanCircBase ID:
mmu_circBcap29_287
mm39_Chr. Position ID:
chr12|31674113|31676875|-
Gene name:
Bcap29
Transcript:
ENSMUST00000177962.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,2611
Genomic length:
2762
Exon/intron sizes in nt:
1,36,151
Flanking exon/introns:
chr12:31667179-31674113|chr12:31676875-31680791
Splice length:
287
Other database IDs:
circAtlas: mmu-Bcap29_0004
Human Ortholog IDs:
Mature spliced Sequence:
ATGCCGTGAGAGAAGTAAGAAAGTATTCGTCCACGAATGTTGTAGAGAAGAACTCAGCCATCAGACCGAGTGCCTTTGAGCACACACAGATGAAGCTCTTCAGGTCTCAAAGAAATCTGTATATTTCTGGATTCTCATTATTTTTTTGGCTAGTGTTGAGACGTCTGGTTACGCTTATTACTCAGCTGGCAAAAGAAATAGCAAACAAAGGAGTGCTTAAAATTCAAGCAGAAAATACCAATAAGGCTGCCAAGAAATTCATGGAAGAGAATGAAAAACTAAAATTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAATAAGGCTGCCAAGAA
57.4
TCTGTGTGTGCTCAAAGGCA
60.11
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGCCAAGAAATTCATGGA
59.17
AGCTTCATCTGTGTGTGCTCA
59.93
140
PCR template sequence:
GGCAAAAGAAATAGCAAACAAAGGAGTGCTTAAAATTCAAGCAGAAAATACCAATAAGGCTGCCAAGAAATTCATGGAAGAGAATGAAAAACTAAAATTGATGCCGTGAGAGAAGTAAGAAAGTATTCGTCCACGAATGTTGTAGAGAAGAACTCAGCCATCAGACCGAGTGCCTTTGAGCACACACAGATGAAGCTCTT
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-124-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAACTAAAATTGATGCCGTGAGAGA
siRNA sets
TCACGGCATCAATTTTAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBCAP29_287_ORF_1
0.9722
-0.079494691
0.092808136
207
ORF sequence:
ATGAAGCTCTTCAGGTCTCAAAGAAATCTGTATATTTCTGGATTCTCATTATTTTTTTGGCTAGTGTTGAGACGTCTGGTTACGCTTATTACTCAGCTGGCAAAAGAAATAGCAAACAAAGGAGTGCTTAAAATTCAAGCAGAAAATACCAATAAGGCTGCCAAGAAATTCATGGAAGAGAATGAAAAACTAAAATTGATGCCGTGA
Peptide sequence:
MKLFRSQRNLYISGFSLFFWLVLRRLVTLITQLAKEIANKGVLKIQAENTNKAAKKFMEENEKLKLMP
IRESfinder result
IRESfinder score
0.649366582
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page