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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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