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mmu_circBrd1_762
Basic information of circular RNA
PanCircBase ID:
mmu_circBrd1_762
mm39_Chr. Position ID:
chr15|88575410|88585473|-
Gene name:
Brd1
Transcript:
ENSMUST00000109381.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,9,8
Exon/intron offsets:
0,541,9565
Genomic length:
10063
Exon/intron sizes in nt:
128,136,498
Flanking exon/introns:
chr15:88574174-88575410|chr15:88585473-88591236
Splice length:
762
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTAACTCTCCCCCTAAACTTGAACCATCAGATGCATTACCTCTTCCTTCAAACTCGGAGACTAACTCAGAACCACCAACCCTCAACCCAGTAGAACTCCACCCCGAGCAGAGTAAACTATTCAAAAGAGTCACATTTGATAATGAATCACATAGCACTTGCACTCAGAGCGCACTGGTAAGCGGACACCCTCCAGAGCCCACCCTCGCCAGTAGTGGCGATGTGCCGGCGGCGGCGGCCTCCGCAGTGGCGGAGCCATCAAGCGATGTAAACAGACGCACTTCTGTTCTCTTCTGCAAATCGAAAAGTGTAAGCCCCCCAAAGTCTGCCAAGAACACTGAAACCCAGCCAACTTCTCCTCAGCTAGGGACCAAAACCTTTTTGTCTGTAGTCCTTCCGAGGTTGGAGACTCTACTGCAGCCAAGGAAAAGGTCGAGGAGCACATGTGGAGACTCCGAAGTGGAGGAGGAGTCCCCGGGAAAGCGCCTGGACACAGGTCTCACCAATGGCTTTGGGGGTGCTAGAAGCGAACAGGAGCCAGGAGGGGGCCCAGGGAGGAAAGCTGCGCCCCGGCGGCGCTGTGCATCTGAATCCAGTATTTGTTCCAGCAACAGCCCACTCTGCGACTCAAGCTTTAGCACACCCAAGTGTGGGCGAGGGAAACCTGCCCTTGTGCGAAGGCACACGCTAGAAGACCGAAGCGAGCTGATATCTTGTATTGAAAATGGAAACTACGCTAAGGCGGCCAGGATTGCAGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGCACACGCTAGAAGACC
60.04
GGTTGAGGGTTGGTGGTTCT
59.81
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACACGCTAGAAGACCGAAGC
60.11
GGTTGAGGGTTGGTGGTTCT
59.81
168
PCR template sequence:
AAACCTGCCCTTGTGCGAAGGCACACGCTAGAAGACCGAAGCGAGCTGATATCTTGTATTGAAAATGGAAACTACGCTAAGGCGGCCAGGATTGCAGCTGGAGCTAACTCTCCCCCTAAACTTGAACCATCAGATGCATTACCTCTTCCTTCAAACTCGGAGACTAACTCAGAACCACCAACCCTCAACCCAGTAGAACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-296-5p(1), mmu-miR-130a-3p(1), mmu-miR-324-5p(1), mmu-miR-326-3p(1), mmu-miR-381-3p(1), mmu-miR-149-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGATTGCAGCTGGAGCTAACTCTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRD1_762_ORF_3
1.1434
-0.026602252
0.090412939
132
ORF sequence:
ATGGAAACTACGCTAAGGCGGCCAGGATTGCAGCTGGAGCTAACTCTCCCCCTAAACTTGAACCATCAGATGCATTACCTCTTCCTTCAAACTCGGAGACTAACTCAGAACCACCAACCCTCAACCCAGTAG
Peptide sequence:
METTLRRPGLQLELTLPLNLNHQMHYLFLQTRRLTQNHQPSTQ
IRESfinder result
IRESfinder score
0.355101581
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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