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mmu_circIl1r1_597
Basic information of circular RNA
PanCircBase ID:
mmu_circIl1r1_597
mm39_Chr. Position ID:
chr1|40332279|40334086|+
Gene name:
Il1r1
Transcript:
ENSMUST00000027241.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,338,1638
Genomic length:
1807
Exon/intron sizes in nt:
23,81,90,169
Flanking exon/introns:
chr1:40321456-40332279|chr1:40334086-40337068
Splice length:
597
Other database IDs:
CIRCpedia: HSA_CIRCpedia_176585
Human Ortholog IDs:
Mature spliced Sequence:
ACGTATGTACAGAATATCCAAATCAGATCGTTTTGTTTTTATCTGTAAATGAAATTGATATTCGCAAGTGTCCTCTTACTCCAAATAAAATGCACGGCGACACCATAATTTGGTACAAGAATGACAGCAAGACCCCCATATCAGCGGACCGGGACTCCAGGATTCATCAGCAGAATGAACATCTTTGGTTTGTACCTGCCAAGGTGGAGGACTCAGGATATTACTATTGTATAGTAAGAAACTCAACTTACTGCCTCAAAACTAAAGTAACCGTAACTGTGTTAGAGAATGACCCTGGCTTGTGTTACAGCACACAGGCCACCTTCCCACAGCGGCTCCACATTGCCGGGGATGGAAGTCTTGTGTGCCCTTATGTGAGTTATTTTAAAGATGAAAATAATGAGTTACCCGAGGTCCAGTGGTATAAGAACTGTAAACCTCTGCTTCTTGACAACGTGAGCTTCTTCGGAGTAAAAGATAAACTGTTGGTGAGGAATGTGGCTGAAGAGCACAGAGGGGACTATATATGCCGTATGTCCTATACGTTCCGGGGGAAGCAATATCCGGTCACACGAGTAATACAATTTATCACAATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTATACGTTCCGGGGGAAGC
59.97
TGGAGTAAGAGGACACTTGCG
59.73
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAAGAGCACAGAGGGGAC
59.75
TGGAGTAAGAGGACACTTGCG
59.73
179
PCR template sequence:
GTGGCTGAAGAGCACAGAGGGGACTATATATGCCGTATGTCCTATACGTTCCGGGGGAAGCAATATCCGGTCACACGAGTAATACAATTTATCACAATAGACGTATGTACAGAATATCCAAATCAGATCGTTTTGTTTTTATCTGTAAATGAAATTGATATTCGCAAGTGTCCTCTTACTCCAAATAAAATGCACGGCGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-206-3p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-298-5p(1), mmu-let-7d-5p(1), mmu-miR-431-5p(1), mmu-miR-98-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTATCACAATAGACGTATGTACAGA
siRNA sets
TGTACATACGTCTATTGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIL1R1_597_ORF_1
0.7072
0.087482019
0.987489523
1104
ORF sequence:
ATGCACGGCGACACCATAATTTGGTACAAGAATGACAGCAAGACCCCCATATCAGCGGACCGGGACTCCAGGATTCATCAGCAGAATGAACATCTTTGGTTTGTACCTGCCAAGGTGGAGGACTCAGGATATTACTATTGTATAGTAAGAAACTCAACTTACTGCCTCAAAACTAAAGTAACCGTAACTGTGTTAGAGAATGACCCTGGCTTGTGTTACAGCACACAGGCCACCTTCCCACAGCGGCTCCACATTGCCGGGGATGGAAGTCTTGTGTGCCCTTATGTGAGTTATTTTAAAGATGAAAATAATGAGTTACCCGAGGTCCAGTGGTATAAGAACTGTAAACCTCTGCTTCTTGACAACGTGAGCTTCTTCGGAGTAAAAGATAAACTGTTGGTGAGGAATGTGGCTGAAGAGCACAGAGGGGACTATATATGCCGTATGTCCTATACGTTCCGGGGGAAGCAATATCCGGTCACACGAGTAATACAATTTATCACAATAGACGTATGTACAGAATATCCAAATCAGATCGTTTTGTTTTTATCTGTAAATGAAATTGATATTCGCAAGTGTCCTCTTACTCCAAATAAAATGCACGGCGACACCATAATTTGGTACAAGAATGACAGCAAGACCCCCATATCAGCGGACCGGGACTCCAGGATTCATCAGCAGAATGAACATCTTTGGTTTGTACCTGCCAAGGTGGAGGACTCAGGATATTACTATTGTATAGTAAGAAACTCAACTTACTGCCTCAAAACTAAAGTAACCGTAACTGTGTTAGAGAATGACCCTGGCTTGTGTTACAGCACACAGGCCACCTTCCCACAGCGGCTCCACATTGCCGGGGATGGAAGTCTTGTGTGCCCTTATGTGAGTTATTTTAAAGATGAAAATAATGAGTTACCCGAGGTCCAGTGGTATAAGAACTGTAAACCTCTGCTTCTTGACAACGTGAGCTTCTTCGGAGTAAAAGATAAACTGTTGGTGAGGAATGTGGCTGAAGAGCACAGAGGGGACTATATATGCCGTATGTCCTATACGTTCCGGGGGAAGCAATATCCGGTCACACGAGTAATACAATTTATCACAATA
Peptide sequence:
MHGDTIIWYKNDSKTPISADRDSRIHQQNEHLWFVPAKVEDSGYYYCIVRNSTYCLKTKVTVTVLENDPGLCYSTQATFPQRLHIAGDGSLVCPYVSYFKDENNELPEVQWYKNCKPLLLDNVSFFGVKDKLLVRNVAEEHRGDYICRMSYTFRGKQYPVTRVIQFITIDVCTEYPNQIVLFLSVNEIDIRKCPLTPNKMHGDTIIWYKNDSKTPISADRDSRIHQQNEHLWFVPAKVEDSGYYYCIVRNSTYCLKTKVTVTVLENDPGLCYSTQATFPQRLHIAGDGSLVCPYVSYFKDENNELPEVQWYKNCKPLLLDNVSFFGVKDKLLVRNVAEEHRGDYICRMSYTFRGKQYPVTRVIQFITI
IRESfinder result
IRESfinder score
0.545224782
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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