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mmu_circVil1_381
Basic information of circular RNA
PanCircBase ID:
mmu_circVil1_381
mm39_Chr. Position ID:
chr1|74460411|74461036|+
Gene name:
Vil1
Transcript:
ENSMUST00000027366.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,8,9
Exon/intron offsets:
0,308,526
Genomic length:
625
Exon/intron sizes in nt:
203,79,99
Flanking exon/introns:
chr1:74459064-74460411|chr1:74461036-74462085
Splice length:
381
Other database IDs:
circAtlas: mmu-Vil1_0003
Human Ortholog IDs:
Mature spliced Sequence:
GGCATGGCCTTGGCCAAAGAGATCCGAGACCAGGAACGGGGTGGACGTACCTACGTAGGTGTGGTGGACGGGGAGAAGGAAGGGGACTCCCCACAGCTGATGGCAATTATGAACCACGTGCTGGGCCCACGCAAAGAACTGAAGGCTGCTATTTCTGACTCAGTGGTGGAGCCGGCCGCTAAGGCTGCACTCAAGCTGTACCATGTGTCTGACTCCGAAGGAAAACTGGTGGTTAGAGAAGTTGCTACTCGGCCACTCACACAAGACCTGCTCAAGCATGAGGACTGTTACATCCTGGACCAGGGAGGCCTGAAGATCTTTGTGTGGAAGGGAAAAAATGCCAACGCTCAGGAGAGGAGCGGAGCCATGAGCCAGGCCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGGAGGCCTGAAGATCT
60.69
CGTCCACCACACCTACGTAG
59.83
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGGGAGGCCTGAAGATC
60.99
CGTCCACCACACCTACGTAG
59.83
153
PCR template sequence:
GGACTGTTACATCCTGGACCAGGGAGGCCTGAAGATCTTTGTGTGGAAGGGAAAAAATGCCAACGCTCAGGAGAGGAGCGGAGCCATGAGCCAGGCCTTGGGCATGGCCTTGGCCAAAGAGATCCGAGACCAGGAACGGGGTGGACGTACCTACGTAGGTGTGGTGGACGGGGAGAAGGAAGGGGACTCCCCACAGCTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-132-3p(1), mmu-miR-149-5p(1), mmu-miR-411-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCCAGGCCTTGGGCATGGCCTTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCVIL1_381_ORF_1
1.2259
0.48654482
0.988851892
759
ORF sequence:
ATGGCCTTGGCCAAAGAGATCCGAGACCAGGAACGGGGTGGACGTACCTACGTAGGTGTGGTGGACGGGGAGAAGGAAGGGGACTCCCCACAGCTGATGGCAATTATGAACCACGTGCTGGGCCCACGCAAAGAACTGAAGGCTGCTATTTCTGACTCAGTGGTGGAGCCGGCCGCTAAGGCTGCACTCAAGCTGTACCATGTGTCTGACTCCGAAGGAAAACTGGTGGTTAGAGAAGTTGCTACTCGGCCACTCACACAAGACCTGCTCAAGCATGAGGACTGTTACATCCTGGACCAGGGAGGCCTGAAGATCTTTGTGTGGAAGGGAAAAAATGCCAACGCTCAGGAGAGGAGCGGAGCCATGAGCCAGGCCTTGGGCATGGCCTTGGCCAAAGAGATCCGAGACCAGGAACGGGGTGGACGTACCTACGTAGGTGTGGTGGACGGGGAGAAGGAAGGGGACTCCCCACAGCTGATGGCAATTATGAACCACGTGCTGGGCCCACGCAAAGAACTGAAGGCTGCTATTTCTGACTCAGTGGTGGAGCCGGCCGCTAAGGCTGCACTCAAGCTGTACCATGTGTCTGACTCCGAAGGAAAACTGGTGGTTAGAGAAGTTGCTACTCGGCCACTCACACAAGACCTGCTCAAGCATGAGGACTGTTACATCCTGGACCAGGGAGGCCTGAAGATCTTTGTGTGGAAGGGAAAAAATGCCAACGCTCAGGAGAGGAGCGGAGCCATGAGCCAGGCCTTG
Peptide sequence:
MALAKEIRDQERGGRTYVGVVDGEKEGDSPQLMAIMNHVLGPRKELKAAISDSVVEPAAKAALKLYHVSDSEGKLVVREVATRPLTQDLLKHEDCYILDQGGLKIFVWKGKNANAQERSGAMSQALGMALAKEIRDQERGGRTYVGVVDGEKEGDSPQLMAIMNHVLGPRKELKAAISDSVVEPAAKAALKLYHVSDSEGKLVVREVATRPLTQDLLKHEDCYILDQGGLKIFVWKGKNANAQERSGAMSQAL
IRESfinder result
IRESfinder score
0.153347704
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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