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mmu_circAgo3_1681
Basic information of circular RNA
PanCircBase ID:
mmu_circAgo3_1681
mm39_Chr. Position ID:
chr4|126240423|126265619|-
Gene name:
Ago3
Transcript:
ENSMUST00000069097.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
18,17,16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,1137,3555,4224,7050,8375,17015,21017,21853,23632,24837,25108
Genomic length:
25196
Exon/intron sizes in nt:
200,102,135,195,91,160,185,134,123,120,148,88
Flanking exon/introns:
chr4:126239375-126240423|chr4:126265619-126270699
Splice length:
1681
Other database IDs:
circAtlas: mmu-Ago3_0035
Human Ortholog IDs:
Mature spliced Sequence:
GTCTGAAAGTTGAAGTGACTCATTGTGGAACAATGAGACGGAAATACCGTGTTTGTAATGTAACGAGAAGGCCTGCCAGCCACCAAACCTTTCCTTTACAGCTAGAAAATGGCCAAACTGTGGAGAGGACTGTGGCTCAGTATTTCAGAGAAAAGTACACGCTGCAGCTGAAGTACCCACACCTTCCCTGCCTGCAAGTGGGGCAGGAGCAGAAGCATACATACCTGCCACTAGAAGTCTGTAATATTGTGGCTGGGCAAAGGTGTATCAAGAAACTAACGGACAATCAGACTTCTACAATGATAAAGGCAACAGCAAGATCTGCACCAGATAGACAAGAGGAAATTAGCAGATTGGTAAGAAGTGCAAATTATGAAACAGATCCATTTGTTCAGGAGTTTCAGTTTAAAGTGCGGGATGAAATGGCCCATGTGACAGGACGTGTACTTCCAGCACCTATGCTCCAGTACGGAGGACGGAACCGGACAGTAGCCACACCCAGCCACGGAGTATGGGACATGCGAGGAAAACAGTTCCACACAGGAGTCGAAATCAAAATGTGGGCTATTGCTTGCTTTGCCACACAGAGGCAGTGCAGAGAAGAAATACTAAAAGGTTTCACAGACCAGCTTCGGAAGATTTCCAAGGATGCAGGGATGCCCATCCAGGGTCAGCCATGCTTCTGCAAATACGCACAGGGGGCAGACAGCGTGGAGCCCATGTTCCGGCATCTCAAGAACACCTACTCAGGACTGCAGCTCATTATCGTCATCCTGCCCGGGAAGACACCAGTGTATGCGGAAGTGAAACGTGTGGGAGATACACTTTTGGGTATGGCCACACAGTGTGTACAAGTCAAGAATGTAATAAAAACATCTCCTCAAACTCTTTCAAACTTGTGCCTAAAGATCAATGTTAAACTTGGAGGAATCAATAATATTCTTGTACCTCATCAAAGACCTTCTGTGTTCCAGCAACCAGTGATCTTCCTGGGCGCAGATGTCACACACCCGCCTGCTGGTGACGGAAAAAAGCCCTCCATTGCTGCTGTTGTAGGTAGTATGGATGCCCATCCAAGCAGATACTGTGCCACAGTAAGAGTTCAGAGACCCCGACAGGAAATCATCCAGGACTTGGCCTCCATGGTCCGGGAACTGCTCATCCAATTTTATAAATCAACCCGATTCAAACCTACTCGTATAATCTTCTATCGGGATGGTGTTTCAGAAGGACAGTTCAGACAGGTATTATATTATGAGCTACTGGCAATTCGAGAAGCCTGTATCAGTTTGGAAAAAGACTATCAACCTGGAATAACCTACATTGTTGTTCAGAAGAGACATCATACACGGTTGTTCTGTGCTGATAGGACAGAAAGGGTTGGAAGAAGCGGCAACATCCCAGCTGGAACCACGGTGGATACCGACATTACTCACCCATATGAATTCGACTTTTATCTCTGTAGCCATGCTGGAATACAGGGTACCAGCCGTCCTTCACACTATCATGTTTTATGGGATGACAACTTCTTTACTGCAGATGAACTTCAGCTGCTCACTTACCAGCTCTGTCACACTTACGTACGCTGTACAAGATCTGTTTCTATCCCTGCACCAGCATATTACGCTCACCTGGTGGCATTCAGAGCCAGATATCATCTTGTGGACAAGGAACATGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TATTACGCTCACCTGGTGGC
59.82
AGGAAAGGTTTGGTGGCTGG
60.47
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACCTGGTGGCATTCAGAG
59.67
AGGAAAGGTTTGGTGGCTGG
60.47
149
PCR template sequence:
TACGCTGTACAAGATCTGTTTCTATCCCTGCACCAGCATATTACGCTCACCTGGTGGCATTCAGAGCCAGATATCATCTTGTGGACAAGGAACATGACAGGTCTGAAAGTTGAAGTGACTCATTGTGGAACAATGAGACGGAAATACCGTGTTTGTAATGTAACGAGAAGGCCTGCCAGCCACCAAACCTTTCCTTTACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-298-5p(1), mmu-miR-324-5p(1), mmu-miR-138-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-149-5p(1), mmu-miR-362-5p(1), mmu-miR-324-3p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-325-3p(1), mmu-miR-369-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAACATGACAGGTCTGAAAGTTGA
siRNA sets
TTTCAGACCTGTCATGTTC, AACTTTCAGACCTGTCATG, TTCAGACCTGTCATGTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGO3_1681_ORF_1
0.7856
0.103229421
0.999970071
1920
ORF sequence:
ATGAATTCGACTTTTATCTCTGTAGCCATGCTGGAATACAGGGTACCAGCCGTCCTTCACACTATCATGTTTTATGGGATGACAACTTCTTTACTGCAGATGAACTTCAGCTGCTCACTTACCAGCTCTGTCACACTTACGTACGCTGTACAAGATCTGTTTCTATCCCTGCACCAGCATATTACGCTCACCTGGTGGCATTCAGAGCCAGATATCATCTTGTGGACAAGGAACATGACAGGTCTGAAAGTTGAAGTGACTCATTGTGGAACAATGAGACGGAAATACCGTGTTTGTAATGTAACGAGAAGGCCTGCCAGCCACCAAACCTTTCCTTTACAGCTAGAAAATGGCCAAACTGTGGAGAGGACTGTGGCTCAGTATTTCAGAGAAAAGTACACGCTGCAGCTGAAGTACCCACACCTTCCCTGCCTGCAAGTGGGGCAGGAGCAGAAGCATACATACCTGCCACTAGAAGTCTGTAATATTGTGGCTGGGCAAAGGTGTATCAAGAAACTAACGGACAATCAGACTTCTACAATGATAAAGGCAACAGCAAGATCTGCACCAGATAGACAAGAGGAAATTAGCAGATTGGTAAGAAGTGCAAATTATGAAACAGATCCATTTGTTCAGGAGTTTCAGTTTAAAGTGCGGGATGAAATGGCCCATGTGACAGGACGTGTACTTCCAGCACCTATGCTCCAGTACGGAGGACGGAACCGGACAGTAGCCACACCCAGCCACGGAGTATGGGACATGCGAGGAAAACAGTTCCACACAGGAGTCGAAATCAAAATGTGGGCTATTGCTTGCTTTGCCACACAGAGGCAGTGCAGAGAAGAAATACTAAAAGGTTTCACAGACCAGCTTCGGAAGATTTCCAAGGATGCAGGGATGCCCATCCAGGGTCAGCCATGCTTCTGCAAATACGCACAGGGGGCAGACAGCGTGGAGCCCATGTTCCGGCATCTCAAGAACACCTACTCAGGACTGCAGCTCATTATCGTCATCCTGCCCGGGAAGACACCAGTGTATGCGGAAGTGAAACGTGTGGGAGATACACTTTTGGGTATGGCCACACAGTGTGTACAAGTCAAGAATGTAATAAAAACATCTCCTCAAACTCTTTCAAACTTGTGCCTAAAGATCAATGTTAAACTTGGAGGAATCAATAATATTCTTGTACCTCATCAAAGACCTTCTGTGTTCCAGCAACCAGTGATCTTCCTGGGCGCAGATGTCACACACCCGCCTGCTGGTGACGGAAAAAAGCCCTCCATTGCTGCTGTTGTAGGTAGTATGGATGCCCATCCAAGCAGATACTGTGCCACAGTAAGAGTTCAGAGACCCCGACAGGAAATCATCCAGGACTTGGCCTCCATGGTCCGGGAACTGCTCATCCAATTTTATAAATCAACCCGATTCAAACCTACTCGTATAATCTTCTATCGGGATGGTGTTTCAGAAGGACAGTTCAGACAGGTATTATATTATGAGCTACTGGCAATTCGAGAAGCCTGTATCAGTTTGGAAAAAGACTATCAACCTGGAATAACCTACATTGTTGTTCAGAAGAGACATCATACACGGTTGTTCTGTGCTGATAGGACAGAAAGGGTTGGAAGAAGCGGCAACATCCCAGCTGGAACCACGGTGGATACCGACATTACTCACCCATATGAATTCGACTTTTATCTCTGTAGCCATGCTGGAATACAGGGTACCAGCCGTCCTTCACACTATCATGTTTTATGGGATGACAACTTCTTTACTGCAGATGAACTTCAGCTGCTCACTTACCAGCTCTGTCACACTTACGTACGCTGTACAAGATCTGTTTCTATCCCTGCACCAGCATATTACGCTCACCTGGTGGCATTCAGAGCCAGATATCATCTTGTGGACAAGGAACATGAC
Peptide sequence:
MNSTFISVAMLEYRVPAVLHTIMFYGMTTSLLQMNFSCSLTSSVTLTYAVQDLFLSLHQHITLTWWHSEPDIILWTRNMTGLKVEVTHCGTMRRKYRVCNVTRRPASHQTFPLQLENGQTVERTVAQYFREKYTLQLKYPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLVRSANYETDPFVQEFQFKVRDEMAHVTGRVLPAPMLQYGGRNRTVATPSHGVWDMRGKQFHTGVEIKMWAIACFATQRQCREEILKGFTDQLRKISKDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYSGLQLIIVILPGKTPVYAEVKRVGDTLLGMATQCVQVKNVIKTSPQTLSNLCLKINVKLGGINNILVPHQRPSVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMDAHPSRYCATVRVQRPRQEIIQDLASMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFRQVLYYELLAIREACISLEKDYQPGITYIVVQKRHHTRLFCADRTERVGRSGNIPAGTTVDTDITHPYEFDFYLCSHAGIQGTSRPSHYHVLWDDNFFTADELQLLTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYHLVDKEHD
IRESfinder result
IRESfinder score
0.531079597
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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