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mmu_circBrwd3_659
Basic information of circular RNA
PanCircBase ID:
mmu_circBrwd3_659
mm39_Chr. Position ID:
chrX|107802454|107805803|-
Gene name:
Brwd3
Transcript:
ENSMUST00000150434.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
31,30,29,28,27,26
Exon/intron offsets:
0,757,1022,1450,2387,3224
Genomic length:
3349
Exon/intron sizes in nt:
1,21,15,66,21,12,83,120
Flanking exon/introns:
chrX:107801415-107802454|chrX:107805803-107808735
Splice length:
659
Other database IDs:
circAtlas: mmu-Brwd3_0021
Human Ortholog IDs:
Mature spliced Sequence:
GAGCAAGAATTTGTGAAGATTGTAGGAATCAAATATGAGATTGGACCACCTACGCTATGCTGCTTGAAACTTGCATTTTTGGATCCAATTTCAGGCAAAATGACTGGAGAGTCTTTTTCCATTAAGTATCATGACATGCCAGATGTCATTGATTTCCTTGTGTTACATCAGTTTTATAATGAAGCCAAAGAAAGAAACTGGCAGATTGGTGATAGATTCCGCAGTATAATAGATGATGCCTGGTGGTTTGGGACTGTGGAAAGTCAGCAGCCTTTTCAGCCAGAATATCCTGATAGCTCCTTCCAGTGTTACAGTGTTCACTGGGACAATAATGAAAGAGAAAAAATGAGCCCCTGGGATATGGAGCCGATTCCAGATGGAACTGCTTTTCCAGATGAAGTTGGTGCTGGTATTCCTGTGTCCCAGGAAGAACTAACTGCATTGCTCTACAAACCCCAGGAAGGAGAGTGGGGTGCTCATTCCAGAGATGAGGAGTGTGAACGAGTTATTCAGGGCATCAACAACCTTCTTTCCCTGGATTTTGCCAGCCCTTTTGCTGTTCCAGTGGATCTCAGTGCCTACCCCTTGTATTGTACTGTAGTTGCTTATCCAACTGACCTCAATACCATCAAACAAAGACTTGAAAATCGCTTTTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCAGTGCCTACCCCTTGT
60.18
GCATAGCGTAGGTGGTCCAA
59.82
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCAGTGCCTACCCCTTGT
60.18
AAGCAGCATAGCGTAGGTGG
60.18
155
PCR template sequence:
TTCCAGTGGATCTCAGTGCCTACCCCTTGTATTGTACTGTAGTTGCTTATCCAACTGACCTCAATACCATCAAACAAAGACTTGAAAATCGCTTTTACAGGAGCAAGAATTTGTGAAGATTGTAGGAATCAAATATGAGATTGGACCACCTACGCTATGCTGCTTGAAACTTGCATTTTTGGATCCAATTTCAGGCAAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-103-3p(1), mmu-miR-223-3p(1), mmu-miR-101a-3p(1), mmu-miR-15b-5p(1), mmu-miR-29a-3p(1), mmu-miR-101b-3p(1), mmu-miR-139-5p(1), mmu-miR-381-3p(1), mmu-miR-411-3p(1), mmu-miR-721(1), mmu-miR-107-3p(1), mmu-miR-300-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCGCTTTTACAGGAGCAAGAATTTG
siRNA sets
AAATTCTTGCTCCTGTAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRWD3_659_ORF_1
1.0571
0.114043913
0.788315072
576
ORF sequence:
ATGACTGGAGAGTCTTTTTCCATTAAGTATCATGACATGCCAGATGTCATTGATTTCCTTGTGTTACATCAGTTTTATAATGAAGCCAAAGAAAGAAACTGGCAGATTGGTGATAGATTCCGCAGTATAATAGATGATGCCTGGTGGTTTGGGACTGTGGAAAGTCAGCAGCCTTTTCAGCCAGAATATCCTGATAGCTCCTTCCAGTGTTACAGTGTTCACTGGGACAATAATGAAAGAGAAAAAATGAGCCCCTGGGATATGGAGCCGATTCCAGATGGAACTGCTTTTCCAGATGAAGTTGGTGCTGGTATTCCTGTGTCCCAGGAAGAACTAACTGCATTGCTCTACAAACCCCAGGAAGGAGAGTGGGGTGCTCATTCCAGAGATGAGGAGTGTGAACGAGTTATTCAGGGCATCAACAACCTTCTTTCCCTGGATTTTGCCAGCCCTTTTGCTGTTCCAGTGGATCTCAGTGCCTACCCCTTGTATTGTACTGTAGTTGCTTATCCAACTGACCTCAATACCATCAAACAAAGACTTGAAAATCGCTTTTACAGGAGCAAGAATTTGTGA
Peptide sequence:
MTGESFSIKYHDMPDVIDFLVLHQFYNEAKERNWQIGDRFRSIIDDAWWFGTVESQQPFQPEYPDSSFQCYSVHWDNNEREKMSPWDMEPIPDGTAFPDEVGAGIPVSQEELTALLYKPQEGEWGAHSRDEECERVIQGINNLLSLDFASPFAVPVDLSAYPLYCTVVAYPTDLNTIKQRLENRFYRSKNL
IRESfinder result
IRESfinder score
0.662429787
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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