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mmu_ciAgo3_1232
Basic information of circular RNA
PanCircBase ID:
mmu_ciAgo3_1232
mm39_Chr. Position ID:
chr4|126247566|126248798|-
Gene name:
Ago3
Transcript:
ENSMUST00000069097.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
1232
Exon/intron sizes in nt:
1232
Flanking exon/introns:
chr4:126247564-126248798
Splice length:
1232
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCTTTTCTTTTTCATCCTTTATTTTTCCCCATAAGCTTGAATAACTACAAAAGATATTAACAGACAACCTTAGTGATTCTTGCCTGTGAACTAATCTTAACAAGATTAAGAGATTGTTGGAGCTGGAGACATAATGGTTAAATGCATGCCTTTAATCCCCCAGCACTTGGGTGGCAGAGACAGGTAGATCTCTGTGCACTTGAGACTAGCCTGGTCTGCATATAGAGTTCCAGAACAGCCTGGTATACATAGTGAGTTACAAGCCAGCCAGGACTATACAGTGAGACCCTGTCTTGTTAAACAGGAGATGAGATTTATAAATGAGGCAGAGAATTTAACCAATACATTCAAAAACTAAGAAACAAGCCAATATTTTAATAAATATCTTAACCTTTATTTTATATATATCTCTGTGCACATGTGTGTGCAGCACCTGTGGAAGCCAGAAGATAATGGATCCCAGGACTGGTGTTAGAGAGCTGTGAGCCACCATGTGTGTGCTGAGTCCTCTGGGCAAACAACTGCTGAGGCATCTCTCAGCCCCAGCCCTTTCAATTCTAAAGGATGAAGTTTTAAAATGAAATTTAAAAAATGCTAGGACTTCATGGTTATTAAATATATATTCAAATTTTATTCTTTGGATTAGGAAATAGTGGACTCCTGAAAATGTAAAATAGACTAAAACTAAAAGTCAAAGGCTTGCTGATTCTTTTTGTCCTTAAGTCCCATAGACTTAAAAATGTAAGTAGATTTTTTTTAAATTCATAAAAATTATTGGGATACTATGAAGAAACCTACGATTTTTCCCATTACAGAGAATAATAACATTAGTTTCTTTTACAACCATAGTACCATTGTTTAAAACCTGGTACATCTCACAAGATGTCAGAGAGGCATAGCAGCTTTACTTCATTGACTAGAGATTCCTGAGTTAAGAGGTAGTCATGGGCATGGTGGCACACACCTTTAATCCCAGAATTTGGGAGACAGAAGCAGAGGATCTCTGTGAGTTCTAGAGCAGCCTGGTCTATGTAGTGATTCCCAGGACTGCCAAGGCTATGTAGGAATAAAAACAAAACAAAACACGTTACTCAGCAATTCAAGTCTGGTATGCTGTCTGGTGATTGCCCAGGCTTCCTTTGTACTGTCAGTGGAGTGCAGTTATATTGCAATCATGTGAAACAGGTGAAACAAATGAACTGTCTAACCCTTTAAAAAAATGTGTTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTCAGTGGAGTGCAGTT
59.17
TCACAGGCAAGAATCACTAAGGT
59.67
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTCAGTGGAGTGCAGTT
59.17
CACAGGCAAGAATCACTAAGGT
58.32
177
PCR template sequence:
CCAGGCTTCCTTTGTACTGTCAGTGGAGTGCAGTTATATTGCAATCATGTGAAACAGGTGAAACAAATGAACTGTCTAACCCTTTAAAAAAATGTGTTTAGTAAGCTTTTCTTTTTCATCCTTTATTTTTCCCCATAAGCTTGAATAACTACAAAAGATATTAACAGACAACCTTAGTGATTCTTGCCTGTGAACTAATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-344d-3p(1), mmu-miR-673-5p(1), mmu-miR-5101(1), mmu-miR-3087-3p(1), mmu-miR-452-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
AAAAATGTGTTTAGTAAGCTTTTCTT
siRNA sets
AAGAAAAGCTTACTAAACA, AAAAGCTTACTAAACACAT, AGAAAAGCTTACTAAACAC
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
0.889173621
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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