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mmu_circBrd1_731
Basic information of circular RNA
PanCircBase ID:
mmu_circBrd1_731
mm39_Chr. Position ID:
chr15|88596818|88601265|-
Gene name:
Brd1
Transcript:
ENSMUST00000109381.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,682,1270,4290
Genomic length:
4447
Exon/intron sizes in nt:
3,13,12,91,32,157
Flanking exon/introns:
chr15:88591497-88596818|chr15:88601265-88613526
Splice length:
731
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223247, circAtlas: mmu-Brd1_0004
circBase: hsa_circ_0116823, circAtlas: hsa-BRD1_0003, CIRCpedia: HSA_CIRCpedia_37132
Human Ortholog IDs:
Mature spliced Sequence:
ATTAAATAGGATTGCGAATCAGGTGGCCATTCAGCGGAAGAAGCAGTTTGTGGAGCGAGCCCACAGCTACTGGTTGCTCAAAAGGCTGTCTAGGAATGGTGCTCCCCTGTTGCGGCGGCTCCAGTCCAGCCTGCAGTCCCAGAGAAACACGCAGCAGAGAGAAAATGATGAAGAGATGAAAGCTGCCAAAGAGAAGCTAAAGTACTGGCAGCGGCTGCGACATGACCTAGAGCGTGCACGCCTGCTAATTGAGCTGCTGCGCAAGCGGGAGAAACTCAAGAGAGAGCAGGTGAAGGTGGAGCAGATGGCTATGGAGCTCCGGCTGACGCCGCTAACTGTGCTGCTACGCTCAGTCCTGGAGCAGCTACAGGAGAAGGACCCTGCAAAGATCTTTGCCCAGCCCGTGAGTCTCAAGGAGGTACCAGATTATTTGGATCACATTAAACACCCCATGGACTTTGCTACAATGAGGAAACGGCTAGAAGCTCAAGGGTATAAAAACCTCCATGCCTTTGAGGAGGATTTTAATCTCATTGTAGATAACTGCATGAAGTACAATGCCAAGGACACCGTGTTTTATAGAGCTGCAGTGAGGCTGCGCGACCAGGGAGGGGTTGTCCTGAGGCAGGCCCGGCGAGAGGTGGAGAGCATTGGCCTGGAAGAGGCCTCGGGAATGCACCTGCCTGAGCGACCCATCGCAGCCCCTCGGCGGCCCTTCTCCTGGGAAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGAGGTGGAGAGCATTGG
60.18
TGAGCAACCAGTAGCTGTGG
59.96
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGAGGTGGAGAGCATTGG
60.18
CCACAAACTGCTTCTTCCGC
60.04
150
PCR template sequence:
CGGCGAGAGGTGGAGAGCATTGGCCTGGAAGAGGCCTCGGGAATGCACCTGCCTGAGCGACCCATCGCAGCCCCTCGGCGGCCCTTCTCCTGGGAAGAGGATTAAATAGGATTGCGAATCAGGTGGCCATTCAGCGGAAGAAGCAGTTTGTGGAGCGAGCCCACAGCTACTGGTTGCTCAAAAGGCTGTCTAGGAATGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-384-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TCCTGGGAAGAGGATTAAATAGGATT
siRNA sets
TATTTAATCCTCTTCCCAG, AATCCTATTTAATCCTCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRD1_731_ORF_1
1.2756
0.450136352
0.95183038
561
ORF sequence:
ATGAAAGCTGCCAAAGAGAAGCTAAAGTACTGGCAGCGGCTGCGACATGACCTAGAGCGTGCACGCCTGCTAATTGAGCTGCTGCGCAAGCGGGAGAAACTCAAGAGAGAGCAGGTGAAGGTGGAGCAGATGGCTATGGAGCTCCGGCTGACGCCGCTAACTGTGCTGCTACGCTCAGTCCTGGAGCAGCTACAGGAGAAGGACCCTGCAAAGATCTTTGCCCAGCCCGTGAGTCTCAAGGAGGTACCAGATTATTTGGATCACATTAAACACCCCATGGACTTTGCTACAATGAGGAAACGGCTAGAAGCTCAAGGGTATAAAAACCTCCATGCCTTTGAGGAGGATTTTAATCTCATTGTAGATAACTGCATGAAGTACAATGCCAAGGACACCGTGTTTTATAGAGCTGCAGTGAGGCTGCGCGACCAGGGAGGGGTTGTCCTGAGGCAGGCCCGGCGAGAGGTGGAGAGCATTGGCCTGGAAGAGGCCTCGGGAATGCACCTGCCTGAGCGACCCATCGCAGCCCCTCGGCGGCCCTTCTCCTGGGAAGAGGATTAA
Peptide sequence:
MKAAKEKLKYWQRLRHDLERARLLIELLRKREKLKREQVKVEQMAMELRLTPLTVLLRSVLEQLQEKDPAKIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHAFEEDFNLIVDNCMKYNAKDTVFYRAAVRLRDQGGVVLRQARREVESIGLEEASGMHLPERPIAAPRRPFSWEED
IRESfinder result
IRESfinder score
0.220749269
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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