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mmu_circBrwd1_616
Basic information of circular RNA
PanCircBase ID:
mmu_circBrwd1_616
mm39_Chr. Position ID:
chr16|95828544|95835093|-
Gene name:
Brwd1
Transcript:
ENSMUST00000099502.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
29,28,27,26,25,24
Exon/intron offsets:
0,832,3290,4182,6240,6423
Genomic length:
6549
Exon/intron sizes in nt:
6,21,12,83,12,51,08,120
Flanking exon/introns:
chr16:95825076-95828544|chr16:95835093-95837061
Splice length:
616
Other database IDs:
circAtlas: mmu-Brwd1_0021
circBase: hsa_circ_0061726, circAtlas: hsa-BRWD1_0050, CIRCpedia: HSA_CIRCpedia_35523
Human Ortholog IDs:
Mature spliced Sequence:
AGTTTACGAAGGATGACTCCAGCAGAACTTGCAAATATGGAACACCTATATGAGTTTCACCCTCCTGTGTGGATAACGGACACCACACTTCGGAAGTCTCCCTTTGTTCCTCAGATGGGTGATGAGGTGATGTACTTCCGTCAGGGTCATGAAGCTTATATTGAAGCTGTCAGAAGAAATAACATTTATGAACTAAATCCTCACAAGGAGCCATGGAGGAAAATGGATCTTAGGGATCAAGAACTGGTCAAAATTGTTGGACTAAGGTATGAGGTTGGACCACCTACACTTTGTTGCCTCAAACTAGCATTTATAGATCCAGCGACTGGCAGACTGACGGATAAATCTTTCTCTATTAGATATCATGACATGCCAGATGTTATTGATTTTCTTGTGTTGCGCCAATTTTATGATGAAGCAAGACAGAGAAACTGGCAGCCTTGTGACAGATTTCGATCTATAATTGATGATGCTTGGTGGTTTGGAACCGTGTTGAGTCAAGAACCGTATCAACCCCAGTATCCTGACAGTCACTTCCAGTGTTACATTGTTAGGTGGGACAACACCGAGACTGAAAAGCTTAGCCCTTGGGACATGGAACCGATTCCTGACAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGACAACACCGAGACTGAA
59.61
CCGAAGTGTGGTGTCCGTTA
59.97
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGACAACACCGAGACTGAA
59.61
ACTTCCGAAGTGTGGTGTCC
59.89
157
PCR template sequence:
CAGTATCCTGACAGTCACTTCCAGTGTTACATTGTTAGGTGGGACAACACCGAGACTGAAAAGCTTAGCCCTTGGGACATGGAACCGATTCCTGACAATGAGTTTACGAAGGATGACTCCAGCAGAACTTGCAAATATGGAACACCTATATGAGTTTCACCCTCCTGTGTGGATAACGGACACCACACTTCGGAAGTCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-125a-5p(1), mmu-miR-411-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCCTGACAATGAGTTTACGAAGGA
siRNA sets
TCGTAAACTCATTGTCAGG,CTTCGTAAACTCATTGTCA,TTCGTAAACTCATTGTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRWD1_616_ORF_1
0.9508
0.041366741
0.803213322
657
ORF sequence:
ATGACTCCAGCAGAACTTGCAAATATGGAACACCTATATGAGTTTCACCCTCCTGTGTGGATAACGGACACCACACTTCGGAAGTCTCCCTTTGTTCCTCAGATGGGTGATGAGGTGATGTACTTCCGTCAGGGTCATGAAGCTTATATTGAAGCTGTCAGAAGAAATAACATTTATGAACTAAATCCTCACAAGGAGCCATGGAGGAAAATGGATCTTAGGGATCAAGAACTGGTCAAAATTGTTGGACTAAGGTATGAGGTTGGACCACCTACACTTTGTTGCCTCAAACTAGCATTTATAGATCCAGCGACTGGCAGACTGACGGATAAATCTTTCTCTATTAGATATCATGACATGCCAGATGTTATTGATTTTCTTGTGTTGCGCCAATTTTATGATGAAGCAAGACAGAGAAACTGGCAGCCTTGTGACAGATTTCGATCTATAATTGATGATGCTTGGTGGTTTGGAACCGTGTTGAGTCAAGAACCGTATCAACCCCAGTATCCTGACAGTCACTTCCAGTGTTACATTGTTAGGTGGGACAACACCGAGACTGAAAAGCTTAGCCCTTGGGACATGGAACCGATTCCTGACAATGAGTTTACGAAGGATGACTCCAGCAGAACTTGCAAATATGGAACACCTATATGA
Peptide sequence:
MTPAELANMEHLYEFHPPVWITDTTLRKSPFVPQMGDEVMYFRQGHEAYIEAVRRNNIYELNPHKEPWRKMDLRDQELVKIVGLRYEVGPPTLCCLKLAFIDPATGRLTDKSFSIRYHDMPDVIDFLVLRQFYDEARQRNWQPCDRFRSIIDDAWWFGTVLSQEPYQPQYPDSHFQCYIVRWDNTETEKLSPWDMEPIPDNEFTKDDSSRTCKYGTPI
IRESfinder result
IRESfinder score
0.578158591
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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