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mmu_circBrinp2_1559
Basic information of circular RNA
PanCircBase ID:
mmu_circBrinp2_1559
mm39_Chr. Position ID:
chr1|158094031|158095590|-
Gene name:
Brinp2
Transcript:
ENSMUST00000195271.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1559
Exon/intron sizes in nt:
1559
Flanking exon/introns:
chr1:158082649-158094031|chr1:158095590-158122995
Splice length:
1559
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGAGTTTGCCCGATGGAAAGTGAACAACTTGGCCCTAGAAAGGAGAGATTTCTTCAGTTTGCCCCTGCCTCTCGCCCCAGAGTTTGTCCGCAATATCCGCCTCCTTGGAAGGAGACCCAATCTGCAACAGGTTACTGAAAACCTCATCAAAAAGTACGGCACTCATTTCTTACTTTCTGCTACTCTTGGAGGTAAGCAGTATCCTCAGCCCCAAACTGGTTGTTCCATTGTTGAAAATAGCTTTTATGATCTGTTGAGTATCGTTCTATTTCCCTGCATCTTTTTTCTTTCTTGACTTATTTTTGCCTGAGAAATATTTTCTTTCTGGTGCACTGGAGAACAGTGTATTCTCTCGGTACCTAAATCTACCCTAGAACATTTCTATTCTCATCCAGAGGGGAGGGAGTTGCGGGGTAAGGAAGTTAGGGGTGGGGAGGGGAGACAGGGACAGGGAACACACACACACACACACACACACACACACACACACACACACACGGGTTTCTACTAACCATATACCAGCAGGGGGCGCTCCTACTTTTGTTTTGACTAGCCATCTAGCCCATGGACTTCACTTGTTAATTCTTGACTGTGGCTAAAAAAATGTCAGCTGTGTAGGCTCAGAAATAGATAGATGTTCATTGAGTTACTGACCCCTCCTTCCTCACTGTGACGATTGGTAACCAGCCAAACCACAATTCCAACAACTTGGGTGAATCTCCCTCTAATAGAATGGCGGTGGGGACTGGTCTGTGCAAAATGGAGCACGGCCTCTGGACTGGATCACAAGACAGGATCACAGATCACAAGAGTTCTTGCAGCTATGGGAAGAAAGAAAGAAGGGTTTATCATAACATTTAGTTAAGTGTGCTGTAGACAAAGCACAGCTCCCCCGGGGTTGAGGCCAGCTGCCGGCATGTGGCAGGTGGTGAGCATTTGATGGGGAGAGAACAGAAATATAGCCTCAAAGCTTTCGCCCTTTCCCTGGAAGCTGTAATAGCCATGTGGCTTCTTATAAACAACTTGAGAGGGGAGAATTGTGTCTCCCCCTTGGAGGCAGATTGCCTGCCATGGAGATCAATAGAGGATGTTAAATGGAGACACTGCTGAGGGGTAAGCTTTGGGAGGCTTTAAGAGCTAAGAAAGGAGGGCCTCCCAGGCAGGGAGGCCTGTGACCCTGTACACCCTCTGAGAAGAGAGCTCTCAGAATGGAAAGGATGGGGAAGAGGCCCCCAGCAGGGGCAAGGCTCTCTCTTAACTCTGTCTGCCTTGCCCAAGGGCTACAGGTTCATAATGGCAGAGGATCCTGGGGCTGACAACTTCACTAATGAGCTCATGTTTTTGTTATAGGAGAAGAGTCTCTGACCATTTTTGTGGACAAGAGGAAACTAAGCAGAAAGTCAGAAACAACAGGAGGTATCCCTGTAGTTGGGGGCACTGGGAACAGCTCCGCTGTGTCTCTGGAAACCCTGCACCAGCTGGCTGCCTCCTACTTCATTGACAGAGAGAGCACACTGCGCAGACTTCACCATATCCAAATAGCCACAGGGGCCATAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAGAGAGAGCACACTGC
59.68
GACAAACTCTGGGGCGAGAG
60.39
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAGAGAGAGCACACTGC
59.68
ATTGCGGACAAACTCTGGGG
60.61
155
PCR template sequence:
TCTGGAAACCCTGCACCAGCTGGCTGCCTCCTACTTCATTGACAGAGAGAGCACACTGCGCAGACTTCACCATATCCAAATAGCCACAGGGGCCATAAAGGGAGTTTGCCCGATGGAAAGTGAACAACTTGGCCCTAGAAAGGAGAGATTTCTTCAGTTTGCCCCTGCCTCTCGCCCCAGAGTTTGTCCGCAATATCCGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-382-5p(4), mmu-miR-136-5p(2), mmu-miR-1187(2), mmu-miR-574-5p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-let-7e-5p(1), mmu-miR-150-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-222-3p(1), mmu-miR-709(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-218-5p(1), mmu-miR-370-3p(1), mmu-miR-802-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGGCCATAAAGGGAGTTTGCCCGA
siRNA sets
AAACTCCCTTTATGGCCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.772318121
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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