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mmu_circIl1r1_190
Basic information of circular RNA
PanCircBase ID:
mmu_circIl1r1_190
mm39_Chr. Position ID:
chr1|40332617|40332807|+
Gene name:
Il1r1
Transcript:
ENSMUST00000027241.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
190
Exon/intron sizes in nt:
190
Flanking exon/introns:
chr1:40332517-40332617|chr1:40332807-40333917
Splice length:
190
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAACTCAACTTACTGCCTCAAAACTAAAGTAACCGTAACTGTGTTAGAGAATGACCCTGGCTTGTGTTACAGCACACAGGCCACCTTCCCACAGCGGCTCCACATTGCCGGGGATGGAAGTCTTGTGTGCCCTTATGTGAGTTATTTTAAAGATGAAAATAATGAGTTACCCGAGGTCCAGTGGTATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGGATGGAAGTCTTGTGT
59.68
TGCTGTAACACAAGCCAGGG
60.54
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGGATGGAAGTCTTGTGT
59.68
GCTGTAACACAAGCCAGGGT
60.54
155
PCR template sequence:
GGCTCCACATTGCCGGGGATGGAAGTCTTGTGTGCCCTTATGTGAGTTATTTTAAAGATGAAAATAATGAGTTACCCGAGGTCCAGTGGTATAAGAAACTCAACTTACTGCCTCAAAACTAAAGTAACCGTAACTGTGTTAGAGAATGACCCTGGCTTGTGTTACAGCACACAGGCCACCTTCCCACAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-98-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGTGGTATAAGAAACTCAACTTAC
siRNA sets
TTGAGTTTCTTATACCACT, AGTTGAGTTTCTTATACCA, TGAGTTTCTTATACCACTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIL1R1_190_ORF_1
0.6145
0.02275625
0.085417505
228
ORF sequence:
ATGAAAATAATGAGTTACCCGAGGTCCAGTGGTATAAGAAACTCAACTTACTGCCTCAAAACTAAAGTAACCGTAACTGTGTTAGAGAATGACCCTGGCTTGTGTTACAGCACACAGGCCACCTTCCCACAGCGGCTCCACATTGCCGGGGATGGAAGTCTTGTGTGCCCTTATGTGAGTTATTTTAAAGATGAAAATAATGAGTTACCCGAGGTCCAGTGGTATAAG
Peptide sequence:
MKIMSYPRSSGIRNSTYCLKTKVTVTVLENDPGLCYSTQATFPQRLHIAGDGSLVCPYVSYFKDENNELPEVQWYK
IRESfinder result
IRESfinder score
0.641368219
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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