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mmu_circBrwd1_929
Basic information of circular RNA
PanCircBase ID:
mmu_circBrwd1_929
mm39_Chr. Position ID:
chr16|95834784|95845847|-
Gene name:
Brwd1
Transcript:
ENSMUST00000099502.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
25,24,23,22,21,20,19
Exon/intron offsets:
0,183,2277,4306,7667,9416,10879
Genomic length:
11063
Exon/intron sizes in nt:
10,81,26,19,09,51,32,90,000
Flanking exon/introns:
chr16:95832851-95834784|chr16:95845847-95847544
Splice length:
929
Other database IDs:
circAtlas: mmu-Brwd1_0110
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTAGAAGACTGAGTTTAGACATTCAGTCTCCTCCAAACATCGGTCTCCGTCGGAGTGGGCAGGTTGAAGGTGTTCGTCAGATGCATCAGAACGCTCCTCGGAGTCAGATTGCTACAGAGCGTGACCTCCAGGCTTGGAAGCGGAGAGTAGTTGTTCCAGAGGCACCGCCTGGCATGTTCAGGCGGTTGGAAGACATTCGCATAGAGAGAGGCGAGGAGGAGAGGAACCTGTATGTAATAGGGAGAAAGAAGAAGACTTTCCAGGTCCCACAAAAGTCCAATTCGATGGTTTTGGTGTCCCAGTCTAGACAACGGACGTGTAGGCGTAAATATGCAAATTATAGTAGAAGAAACGCTGACCAGTGTGAATTATCTTCTGGAAATGAATCTTCAGGCTCTGTTAGACATGAGACATCTTATGATCAGAGTGAAGGTTCTTGTTCTTCAGAAGATGACGAGTGGAGAAATGACAGAAGAAGTGGTAGTGACAGCGACAGCTCAAGTGACTCTTCATCTCAGTATTCTGATTGGACAGCTGACACGGGGATCAACTTGCAGCCTCCTCTCAGGATGTCATGTCGTCGTCGAGTAACTCGATTCTGCAGTACTTCAGAGGACGAAATGTCCATGGAGAACATATCACCTCCTAAACGAAGGCGGAAAAGAAGGAAAGAAAGCAAGCCTAAGAGGGAGAGTTTACGAAGGATGACTCCAGCAGAACTTGCAAATATGGAACACCTATATGAGTTTCACCCTCCTGTGTGGATAACGGACACCACACTTCGGAAGTCTCCCTTTGTTCCTCAGATGGGTGATGAGGTGATGTACTTCCGTCAGGGTCATGAAGCTTATATTGAAGCTGTCAGAAGAAATAACATTTATGAACTAAATCCTCACAAGGAGCCATGGAGGAAAATGGATCTTAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGTCAGGGTCATGAAGCTT
60.04
GAACACCTTCAACCTGCCCA
60.47
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCGTCAGGGTCATGAAGC
60.04
GAACACCTTCAACCTGCCCA
60.47
177
PCR template sequence:
CTTCCGTCAGGGTCATGAAGCTTATATTGAAGCTGTCAGAAGAAATAACATTTATGAACTAAATCCTCACAAGGAGCCATGGAGGAAAATGGATCTTAGGGTTTTAGAAGACTGAGTTTAGACATTCAGTCTCCTCCAAACATCGGTCTCCGTCGGAGTGGGCAGGTTGAAGGTGTTCGTCAGATGCATCAGAACGCTCC
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-143-3p(1), mmu-miR-190b-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AATGGATCTTAGGGTTTTAGAAGACT
siRNA sets
CTTCTAAAACCCTAAGATC,TTCTAAAACCCTAAGATCC,TCTAAAACCCTAAGATCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRWD1_929_ORF_1
0.7548
0.124832845
0.944838536
861
ORF sequence:
ATGCATCAGAACGCTCCTCGGAGTCAGATTGCTACAGAGCGTGACCTCCAGGCTTGGAAGCGGAGAGTAGTTGTTCCAGAGGCACCGCCTGGCATGTTCAGGCGGTTGGAAGACATTCGCATAGAGAGAGGCGAGGAGGAGAGGAACCTGTATGTAATAGGGAGAAAGAAGAAGACTTTCCAGGTCCCACAAAAGTCCAATTCGATGGTTTTGGTGTCCCAGTCTAGACAACGGACGTGTAGGCGTAAATATGCAAATTATAGTAGAAGAAACGCTGACCAGTGTGAATTATCTTCTGGAAATGAATCTTCAGGCTCTGTTAGACATGAGACATCTTATGATCAGAGTGAAGGTTCTTGTTCTTCAGAAGATGACGAGTGGAGAAATGACAGAAGAAGTGGTAGTGACAGCGACAGCTCAAGTGACTCTTCATCTCAGTATTCTGATTGGACAGCTGACACGGGGATCAACTTGCAGCCTCCTCTCAGGATGTCATGTCGTCGTCGAGTAACTCGATTCTGCAGTACTTCAGAGGACGAAATGTCCATGGAGAACATATCACCTCCTAAACGAAGGCGGAAAAGAAGGAAAGAAAGCAAGCCTAAGAGGGAGAGTTTACGAAGGATGACTCCAGCAGAACTTGCAAATATGGAACACCTATATGAGTTTCACCCTCCTGTGTGGATAACGGACACCACACTTCGGAAGTCTCCCTTTGTTCCTCAGATGGGTGATGAGGTGATGTACTTCCGTCAGGGTCATGAAGCTTATATTGAAGCTGTCAGAAGAAATAACATTTATGAACTAAATCCTCACAAGGAGCCATGGAGGAAAATGGATCTTAGGGTTTTAGAAGACTGA
Peptide sequence:
MHQNAPRSQIATERDLQAWKRRVVVPEAPPGMFRRLEDIRIERGEEERNLYVIGRKKKTFQVPQKSNSMVLVSQSRQRTCRRKYANYSRRNADQCELSSGNESSGSVRHETSYDQSEGSCSSEDDEWRNDRRSGSDSDSSSDSSSQYSDWTADTGINLQPPLRMSCRRRVTRFCSTSEDEMSMENISPPKRRRKRRKESKPKRESLRRMTPAELANMEHLYEFHPPVWITDTTLRKSPFVPQMGDEVMYFRQGHEAYIEAVRRNNIYELNPHKEPWRKMDLRVLED
IRESfinder result
IRESfinder score
0.333048702
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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