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mmu_ciSt18_2136
Basic information of circular RNA
PanCircBase ID:
mmu_ciSt18_2136
mm39_Chr. Position ID:
chr1|6888020|6890156|+
Gene name:
St18
Transcript:
ENSMUST00000140079.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
2136
Exon/intron sizes in nt:
2136
Flanking exon/introns:
chr1:6888020-6890157
Splice length:
2136
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCTTCAAATTTGAATACTAACACTCATTATCCCAAAGAGCATCTATGTAGAGGTTTATTATATTATATATTATACAAATATGTAATGTCCTCCTTAGACATGACAGGAAAGAATAGTGAAATAAGTAAGTTAACCCTTATTACTAAATTTATGACAATGTTACACCAAATATTATAAATTATTAGTTATTTCAAAGATAGTGCCATTATTTTTTTTTTGAGACAGTTTTTCTCTGTGTAACCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATTTGCTTGCCTCTGCCTCCCAAGTGCTGTGAGACAGTGCCATTATTGAATCTAACTGTAACAGTGCTAAAGAGATAATTAGGATCATGGTAAATGTATTGAAGGCTACAACAGCTATTACATTATTTCAATTTATGTTATGATTATAGCAACATAATAAGATAAAATATGTCACACTGTTTAAAATATTAATGAAATCAACAAAAGCCATCAGACCAAAGCTAGAAAAAGCTGAAAAATCCAAGGAACTCAATTCAGGAATCTGAAACTTACTAGGATAAAAATAGATAACTGTCAAAATGTTCATTAGTAAGTTTAAGAATTAATACAAAAACCTTTAAAACAGGTTAAATAGTATTCTTGTTAATTCTGACACATTCATGGAGAAGACTGAACTGAATGGCTATACAGAGTATAAAGACTTGATGGTCTTGCTTAAACATTTCTCTTAAGTATGCTAATGAAGAGATGAACAGGTAGGTGTTGGGAACAAATGCAGAAAATGATGGGTAATGCACCTTCAATAAGAAGCACACACCCATTGGAGTCCTCTGTGCGATACACATTTTTTACATACTTAAAAATCTATGACTCACTTCAACCTTTTACCTGAATGGTGTGAGCATCTGGTGAGTCTAGTATTTGCTTCATTTGTGTCATTGTTGACTTGCAATTGCAGGAACATAGAAGGCTACCTAGAAGTCTACCTAAAACTTGGCAATGGGGATAGGGATGCAACCTATAGATGGAGTGTGTTGCATGTGCAAAGTCTAGGTTTTCTCCCTGTATCGCCCTGAAAGAGGTCCACAAATTTGAAAGGTATTCGTCAATCATTGATGGGTACATTAAATAAAATCTACCTAGACTTGTTCAAAAGAGGTCCCATCAAACCTGAGTAGCTATTGACAATTTGGTAGACTCAGAAAAAAATTACGTACACACATAATGTTTTTATCTATCAGTCTAATTTGTGTAAATATTTTAATATATATACACACAATGTATGCATGTACATACATACTTAATTCACATGAAAGTGAATGAAGAGTGCACTGTTGGTGCATATTGTTCAGTTATTGATTGTAAAATCCTTAACAGAGTTAGTAACAAATTTTGTTTCCTTGTACTTAAAAGAATAATATTCAATAATATCTTTTATTTAAAAATGGGCAGATCTTTAAAATATGTACCGTATAATATAAAACTAACAGTAAGTGTTTCTGTATCTTTACATTTTGTGTTTCTCCCATACCATGAGTAGTGCTCACAAACAGCCCACGGTGGAGAAAGAATTGCATAATTATGTCCCTCAGAAAAGCTATGATACCAACAACAAAACTCAGAAAGTTTCCCTTGGTGACTCAATGGTCTTTCTCTTCACCTTGAGTGCAGGCCCTCTGTGTACCCTGCTCAGCTCACTGAGGACTCTGTCCCAGTTAAGTATAGAACAAGTATGCATTCTGAGTAATAAAAATGCAACCTATGTTTAGTAGAAACCACTATGAGAGCAGGCACACTCCCAAGCCATGGTTCTCAGCCCTTTCACATACCTGTCCTGAGCTTTTGCAGGATGTGGTGCCCTGTAACATTAGTGATGGAGTTTCTGTCACCTATAGTGAAAATACAAGAACTTAAGAGAATAGGCCCCTTTCATCATCAGCTTTGTGAATCTGATGAAATCCAGCTAAGTAACTTCCAATTAACATACCAACAGATAATGTTTCTGCTTTAATTTATTATTTGAGTATTTTAATCATAGAAGTTCTGTCTTAAAAAAAAATCTTTGGTAACTGAAGCCACCACGTACATGCAATTGCTAATCAAATCTCTCTTCAACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
NA
NA
NA
NA
NA
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
NA
NA
NA
NA
NA
PCR template sequence:
ATTTGAGTATTTTAATCATAGAAGTTCTGTCTTAAAAAAAAATCTTTGGTAACTGAAGCCACCACGTACATGCAATTGCTAATCAAATCTCTCTTCAACAGTAAGCTTCAAATTTGAATACTAACACTCATTATCCCAAAGAGCATCTATGTAGAGGTTTATTATATTATATATTATACAAATATGTAATGTCCTCCTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-183-5p(2), mmu-miR-466a-5p(2), mmu-miR-1187(2), mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-135a-5p(1), mmu-miR-148a-3p(1), mmu-miR-18a-5p(1), mmu-miR-298-5p(1), mmu-miR-196a-5p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-185-5p(1), mmu-miR-411-3p(1), mmu-miR-297a-5p(1), mmu-miR-325-3p(1), mmu-miR-466p-5p(1), mmu-miR-669d-5p(1), mmu-miR-350-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCTCTTCAACAGTAAGCTTCAAAT
siRNA sets
ATTTGAAGCTTACTGTTGA, GAAGCTTACTGTTGAAGAG, TGAAGCTTACTGTTGAAGA
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
0.858470637
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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