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mmu_circBrwd1_547
Basic information of circular RNA
PanCircBase ID:
mmu_circBrwd1_547
mm39_Chr. Position ID:
chr16|95812909|95817460|-
Gene name:
Brwd1
Transcript:
ENSMUST00000099502.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
38,37,36
Exon/intron offsets:
0,1999,4398
Genomic length:
4551
Exon/intron sizes in nt:
22,71,67,153
Flanking exon/introns:
chr16:95811187-95812909|chr16:95817460-95818780
Splice length:
547
Other database IDs:
circAtlas: mmu-Brwd1_0080
Human Ortholog IDs:
Mature spliced Sequence:
GATTACCGAGATATTATAGATACGCCAATGGATTTTGGAACAGTAAGGGAAACTCTAGAAGCTGGGAATTACGATAGCCCTGTGGAGTTTTGCAAAGACATTCGATTGATATTTAGCAATGCAAAGGCATATACACCGAACAAAAGATCAAAGATTTATAGTATGACCTTGAGATTGTCTGCTTTGTTTGAAGAAAAAATGAAGAAAATCTCCTTTGATTTTAAAATTGGTCAAAAATTCAAGGAGAAACTTCGTAGAAGCCAAAGATTCAAGCAACGACAAAACTGTAACGGTGCTGTCCCTGGTGACAGGCGCAGGAGAAATGTCAAGCAGAAGCAGTTCAAATCTCAGACAAAAGTAATTCCACAGTTGATGTGTCCTCCTTCTCAGTCTACCTCAAGTAAGGTACCTTTGTCTGCAACCCGCAAGACAAGTGCTGGTGTCTCTTCAGGCTTTACTTCTGGGGACTCTTCAGACTCTGCAGGATCTTTAGAAAGAGTCAGAAGACAGAGGCCTGAAGTACTCAGGAGTGGTTCTGTGCTGTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGACTCTTCAGACTCTGC
59.47
TTGCAAAACTCCACAGGGCT
60.4
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGACTCTTCAGACTCTGC
59.47
TGCAAAACTCCACAGGGCTA
59.52
179
PCR template sequence:
TCAGGCTTTACTTCTGGGGACTCTTCAGACTCTGCAGGATCTTTAGAAAGAGTCAGAAGACAGAGGCCTGAAGTACTCAGGAGTGGTTCTGTGCTGTTTGGATTACCGAGATATTATAGATACGCCAATGGATTTTGGAACAGTAAGGGAAACTCTAGAAGCTGGGAATTACGATAGCCCTGTGGAGTTTTGCAAAGACA
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-216a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGTGCTGTTTGGATTACCGAGATA
siRNA sets
TATCTCGGTAATCCAAACA,ATCTCGGTAATCCAAACAG,TCTCGGTAATCCAAACAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRWD1_547_ORF_1
0.6346
-0.034612048
0.519504306
597
ORF sequence:
ATGGATTTTGGAACAGTAAGGGAAACTCTAGAAGCTGGGAATTACGATAGCCCTGTGGAGTTTTGCAAAGACATTCGATTGATATTTAGCAATGCAAAGGCATATACACCGAACAAAAGATCAAAGATTTATAGTATGACCTTGAGATTGTCTGCTTTGTTTGAAGAAAAAATGAAGAAAATCTCCTTTGATTTTAAAATTGGTCAAAAATTCAAGGAGAAACTTCGTAGAAGCCAAAGATTCAAGCAACGACAAAACTGTAACGGTGCTGTCCCTGGTGACAGGCGCAGGAGAAATGTCAAGCAGAAGCAGTTCAAATCTCAGACAAAAGTAATTCCACAGTTGATGTGTCCTCCTTCTCAGTCTACCTCAAGTAAGGTACCTTTGTCTGCAACCCGCAAGACAAGTGCTGGTGTCTCTTCAGGCTTTACTTCTGGGGACTCTTCAGACTCTGCAGGATCTTTAGAAAGAGTCAGAAGACAGAGGCCTGAAGTACTCAGGAGTGGTTCTGTGCTGTTTGGATTACCGAGATATTATAGATACGCCAATGGATTTTGGAACAGTAAGGGAAACTCTAGAAGCTGGGAATTACGATAG
Peptide sequence:
MDFGTVRETLEAGNYDSPVEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKISFDFKIGQKFKEKLRRSQRFKQRQNCNGAVPGDRRRRNVKQKQFKSQTKVIPQLMCPPSQSTSSKVPLSATRKTSAGVSSGFTSGDSSDSAGSLERVRRQRPEVLRSGSVLFGLPRYYRYANGFWNSKGNSRSWELR
IRESfinder result
IRESfinder score
0.687053466
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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