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mmu_circMgat5_595
Basic information of circular RNA
PanCircBase ID:
mmu_circMgat5_595
mm39_Chr. Position ID:
chr1|127177526|127248502|+
Gene name:
Mgat5
Transcript:
ENSMUST00000038361.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,56844,70814
Genomic length:
70976
Exon/intron sizes in nt:
5,03,83,162
Flanking exon/introns:
chr1:127133164-127177526|chr1:127248502-127292884
Splice length:
595
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213425, circAtlas: mmu-Mgat5_0012
circAtlas: hsa-MGAT5_0026
Human Ortholog IDs:
Mature spliced Sequence:
GAGTGACTCCTACCCAAAAGTGGACTTTGGAGGAGGGTCCATTAGGTCATCAGAATGGAAGCCCAGCAAGGAAACCAGCTGACTCAGGAGCCGGAGTGAGAGCCACGCACTCTCCGCCCCAACCTGCACCATGAACTTGCCTTCCCCTTCTGCTTGTTGAGAGCCAAGGGAATGGTACATTGCTAGAGAGAGATGGCTTTCTTTTCTCCCTGGAAGTTGTCCTCTCAGAAGCTGGGCTTTTTCCTGGTGACTTTCGGCTTCATCTGGGGCATGATGCTTCTGCACTTCACCATCCAGCAGCGGACTCAGCCCGAGAGCAGCTCCATGTTACGGGAGCAGATCCTTGACCTCAGCAAGAGGTACATTAAGGCACTGGCAGAGGAGAACAGGGACGTGGTGGATGGCCCCTACGCTGGTGTCATGACAGCCTATGATCTGAAGAAAACGCTCGCCGTCTTGCTGGATAACATCCTGCAGCGCATTGGCAAGCTCGAGTCAAAGGTGGACAATCTGGTCAACGGCACAGGAGCGAACTCCACCAACTCCACCACGGCTGTCCCCAGCTTGGTGTCGCTTGAGAAAATTAATGTGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACTCCACCAACTCCACCAC
59.82
GCTCCTGAGTCAGCTGGTTT
59.96
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAATCTGGTCAACGGCACA
60.18
TTCCTTGCTGGGCTTCCATT
59.89
163
PCR template sequence:
TCAAAGGTGGACAATCTGGTCAACGGCACAGGAGCGAACTCCACCAACTCCACCACGGCTGTCCCCAGCTTGGTGTCGCTTGAGAAAATTAATGTGGCAGGAGTGACTCCTACCCAAAAGTGGACTTTGGAGGAGGGTCCATTAGGTCATCAGAATGGAAGCCCAGCAAGGAAACCAGCTGACTCAGGAGCCGGAGTGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-29b-1-5p(1), mmu-miR-224-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTAATGTGGCAGGAGTGACTCCTAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMGAT5_595_ORF_1
1.0771
0.340029547
0.880533479
537
ORF sequence:
ATGGCTTTCTTTTCTCCCTGGAAGTTGTCCTCTCAGAAGCTGGGCTTTTTCCTGGTGACTTTCGGCTTCATCTGGGGCATGATGCTTCTGCACTTCACCATCCAGCAGCGGACTCAGCCCGAGAGCAGCTCCATGTTACGGGAGCAGATCCTTGACCTCAGCAAGAGGTACATTAAGGCACTGGCAGAGGAGAACAGGGACGTGGTGGATGGCCCCTACGCTGGTGTCATGACAGCCTATGATCTGAAGAAAACGCTCGCCGTCTTGCTGGATAACATCCTGCAGCGCATTGGCAAGCTCGAGTCAAAGGTGGACAATCTGGTCAACGGCACAGGAGCGAACTCCACCAACTCCACCACGGCTGTCCCCAGCTTGGTGTCGCTTGAGAAAATTAATGTGGCAGGAGTGACTCCTACCCAAAAGTGGACTTTGGAGGAGGGTCCATTAGGTCATCAGAATGGAAGCCCAGCAAGGAAACCAGCTGACTCAGGAGCCGGAGTGAGAGCCACGCACTCTCCGCCCCAACCTGCACCATGA
Peptide sequence:
MAFFSPWKLSSQKLGFFLVTFGFIWGMMLLHFTIQQRTQPESSSMLREQILDLSKRYIKALAEENRDVVDGPYAGVMTAYDLKKTLAVLLDNILQRIGKLESKVDNLVNGTGANSTNSTTAVPSLVSLEKINVAGVTPTQKWTLEEGPLGHQNGSPARKPADSGAGVRATHSPPQPAP
IRESfinder result
IRESfinder score
0.414857229
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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