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mmu_circBrpf3_303
Basic information of circular RNA
PanCircBase ID:
mmu_circBrpf3_303
mm39_Chr. Position ID:
chr17|29037309|29037612|+
Gene name:
Brpf3
Transcript:
ENSMUST00000004985.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
303
Exon/intron sizes in nt:
303
Flanking exon/introns:
chr17:29036772-29037309|chr17:29037612-29040059
Splice length:
303
Other database IDs:
CIRCpedia: MMU_CIRCpedia_229285
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_54871
Human Ortholog IDs:
Mature spliced Sequence:
TGGACAACATCCTTATCCCAGAGAACCGGGCCCATCTGTCCCCAGAGGCACAGCTGAAGGAACTGCTGGAGAAACTGGATCTGGTGAGCACCATGCGGTCCAGCGGGGCCCGCACCCGTCGTGTCCGCATGCTGCGCAGGGAGATCAATGCCCTTCGGCAAAAGCTAGCACAGCCACCGCCACCACAGCTCCTGTCACTGAACAAGACTGTGCCCAACGGGGAGCTGCCAGCAGGATCTCGGGGGGATACAGCTGTCCTGGAGCAGGCTCAGCAGGAGGAGCCAGAAGAGGAAGGGGACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCTGCCAGCAGGATCTC
60.23
TTCCTTCAGCTGTGCCTCTG
59.96
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCTGCCAGCAGGATCTC
60.23
GTTCCTTCAGCTGTGCCTCT
59.96
145
PCR template sequence:
AAGACTGTGCCCAACGGGGAGCTGCCAGCAGGATCTCGGGGGGATACAGCTGTCCTGGAGCAGGCTCAGCAGGAGGAGCCAGAAGAGGAAGGGGACAGAGTGGACAACATCCTTATCCCAGAGAACCGGGCCCATCTGTCCCCAGAGGCACAGCTGAAGGAACTGCTGGAGAAACTGGATCTGGTGAGCACCATGCGGTC
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-103-3p(1), mmu-miR-149-5p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGGGGACAGAGTGGACAACATCCT
siRNA sets
TGTTGTCCACTCTGTCCCC, ATGTTGTCCACTCTGTCCC, TTGTCCACTCTGTCCCCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRPF3_303_ORF_1
1.1632
0.558761006
0.947467149
513
ORF sequence:
ATGCGGTCCAGCGGGGCCCGCACCCGTCGTGTCCGCATGCTGCGCAGGGAGATCAATGCCCTTCGGCAAAAGCTAGCACAGCCACCGCCACCACAGCTCCTGTCACTGAACAAGACTGTGCCCAACGGGGAGCTGCCAGCAGGATCTCGGGGGGATACAGCTGTCCTGGAGCAGGCTCAGCAGGAGGAGCCAGAAGAGGAAGGGGACAGAGTGGACAACATCCTTATCCCAGAGAACCGGGCCCATCTGTCCCCAGAGGCACAGCTGAAGGAACTGCTGGAGAAACTGGATCTGGTGAGCACCATGCGGTCCAGCGGGGCCCGCACCCGTCGTGTCCGCATGCTGCGCAGGGAGATCAATGCCCTTCGGCAAAAGCTAGCACAGCCACCGCCACCACAGCTCCTGTCACTGAACAAGACTGTGCCCAACGGGGAGCTGCCAGCAGGATCTCGGGGGGATACAGCTGTCCTGGAGCAGGCTCAGCAGGAGGAGCCAGAAGAGGAAGGGGACAGA
Peptide sequence:
MRSSGARTRRVRMLRREINALRQKLAQPPPPQLLSLNKTVPNGELPAGSRGDTAVLEQAQQEEPEEEGDRVDNILIPENRAHLSPEAQLKELLEKLDLVSTMRSSGARTRRVRMLRREINALRQKLAQPPPPQLLSLNKTVPNGELPAGSRGDTAVLEQAQQEEPEEEGDR
IRESfinder result
IRESfinder score
0.300456943
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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