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mmu_circBrwd1_806
Basic information of circular RNA
PanCircBase ID:
mmu_circBrwd1_806
mm39_Chr. Position ID:
chr16|95828544|95837251|-
Gene name:
Brwd1
Transcript:
ENSMUST00000099502.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
29,28,27,26,25,24,23
Exon/intron offsets:
0,832,3290,4182,6240,6423,8517
Genomic length:
8707
Exon/intron sizes in nt:
62,112,83,125,108,126,190
Flanking exon/introns:
chr16:95825076-95828544|chr16:95837251-95839090
Splice length:
806
Other database IDs:
CIRCpedia: MMU_CIRCpedia_38445, circAtlas: mmu-Brwd1_0031
circBase: hsa_circ_0061727, circAtlas: hsa-BRWD1_0079
Human Ortholog IDs:
Mature spliced Sequence:
TGACTCTTCATCTCAGTATTCTGATTGGACAGCTGACACGGGGATCAACTTGCAGCCTCCTCTCAGGATGTCATGTCGTCGTCGAGTAACTCGATTCTGCAGTACTTCAGAGGACGAAATGTCCATGGAGAACATATCACCTCCTAAACGAAGGCGGAAAAGAAGGAAAGAAAGCAAGCCTAAGAGGGAGAGTTTACGAAGGATGACTCCAGCAGAACTTGCAAATATGGAACACCTATATGAGTTTCACCCTCCTGTGTGGATAACGGACACCACACTTCGGAAGTCTCCCTTTGTTCCTCAGATGGGTGATGAGGTGATGTACTTCCGTCAGGGTCATGAAGCTTATATTGAAGCTGTCAGAAGAAATAACATTTATGAACTAAATCCTCACAAGGAGCCATGGAGGAAAATGGATCTTAGGGATCAAGAACTGGTCAAAATTGTTGGACTAAGGTATGAGGTTGGACCACCTACACTTTGTTGCCTCAAACTAGCATTTATAGATCCAGCGACTGGCAGACTGACGGATAAATCTTTCTCTATTAGATATCATGACATGCCAGATGTTATTGATTTTCTTGTGTTGCGCCAATTTTATGATGAAGCAAGACAGAGAAACTGGCAGCCTTGTGACAGATTTCGATCTATAATTGATGATGCTTGGTGGTTTGGAACCGTGTTGAGTCAAGAACCGTATCAACCCCAGTATCCTGACAGTCACTTCCAGTGTTACATTGTTAGGTGGGACAACACCGAGACTGAAAAGCTTAGCCCTTGGGACATGGAACCGATTCCTGACAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGACAACACCGAGACTGAA
59.61
TCGACGACGACATGACATCC
59.9
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGACAACACCGAGACTGAA
59.61
CGACGACGACATGACATCCT
59.9
144
PCR template sequence:
CAGTATCCTGACAGTCACTTCCAGTGTTACATTGTTAGGTGGGACAACACCGAGACTGAAAAGCTTAGCCCTTGGGACATGGAACCGATTCCTGACAATGTGACTCTTCATCTCAGTATTCTGATTGGACAGCTGACACGGGGATCAACTTGCAGCCTCCTCTCAGGATGTCATGTCGTCGTCGAGTAACTCGATTCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-143-3p(1), mmu-miR-125a-5p(1), mmu-miR-411-3p(1), mmu-miR-190b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCCTGACAATGTGACTCTTCATCT
siRNA sets
ATGAAGAGTCACATTGTCA, TGAAGAGTCACATTGTCAG, GATGAAGAGTCACATTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRWD1_806_ORF_1
0.8398
0.052728722
0.922129407
828
ORF sequence:
ATGTCATGTCGTCGTCGAGTAACTCGATTCTGCAGTACTTCAGAGGACGAAATGTCCATGGAGAACATATCACCTCCTAAACGAAGGCGGAAAAGAAGGAAAGAAAGCAAGCCTAAGAGGGAGAGTTTACGAAGGATGACTCCAGCAGAACTTGCAAATATGGAACACCTATATGAGTTTCACCCTCCTGTGTGGATAACGGACACCACACTTCGGAAGTCTCCCTTTGTTCCTCAGATGGGTGATGAGGTGATGTACTTCCGTCAGGGTCATGAAGCTTATATTGAAGCTGTCAGAAGAAATAACATTTATGAACTAAATCCTCACAAGGAGCCATGGAGGAAAATGGATCTTAGGGATCAAGAACTGGTCAAAATTGTTGGACTAAGGTATGAGGTTGGACCACCTACACTTTGTTGCCTCAAACTAGCATTTATAGATCCAGCGACTGGCAGACTGACGGATAAATCTTTCTCTATTAGATATCATGACATGCCAGATGTTATTGATTTTCTTGTGTTGCGCCAATTTTATGATGAAGCAAGACAGAGAAACTGGCAGCCTTGTGACAGATTTCGATCTATAATTGATGATGCTTGGTGGTTTGGAACCGTGTTGAGTCAAGAACCGTATCAACCCCAGTATCCTGACAGTCACTTCCAGTGTTACATTGTTAGGTGGGACAACACCGAGACTGAAAAGCTTAGCCCTTGGGACATGGAACCGATTCCTGACAATGTGACTCTTCATCTCAGTATTCTGATTGGACAGCTGACACGGGGATCAACTTGCAGCCTCCTCTCAGGATGTCATGTCGTCGTCGAGTAA
Peptide sequence:
MSCRRRVTRFCSTSEDEMSMENISPPKRRRKRRKESKPKRESLRRMTPAELANMEHLYEFHPPVWITDTTLRKSPFVPQMGDEVMYFRQGHEAYIEAVRRNNIYELNPHKEPWRKMDLRDQELVKIVGLRYEVGPPTLCCLKLAFIDPATGRLTDKSFSIRYHDMPDVIDFLVLRQFYDEARQRNWQPCDRFRSIIDDAWWFGTVLSQEPYQPQYPDSHFQCYIVRWDNTETEKLSPWDMEPIPDNVTLHLSILIGQLTRGSTCSLLSGCHVVVE
IRESfinder result
IRESfinder score
0.498279098
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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