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mmu_circSuco_1597
Basic information of circular RNA
PanCircBase ID:
mmu_circSuco_1597
mm39_Chr. Position ID:
chr1|161655724|161665378|-
Gene name:
Suco
Transcript:
ENSMUST00000048377.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
21,20,19,18,17
Exon/intron offsets:
0,1080,5260,5880,9563
Genomic length:
9654
Exon/intron sizes in nt:
155,105,88,1158,91
Flanking exon/introns:
chr1:161655317-161655724|chr1:161665378-161666322
Splice length:
1597
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAATAAAAGTATATCTGAGAATGCCACTGCCACAACTGAACCTAAAATGACTGAATCAACTCGTGTTTCAACTCCTGTTCCATCACCTGAATATGTAATCAAGGAAGTCCATACACATGATAGAGAACCATCAACCTCAGATCCTCCAAAAGAGAGTCCGATTGTACAACTGGTTCAGGAGGAAGAAGAGGAAGCGAGTCCATCTACAGTGACCCTTTTGGGCAGTGGTGAACAAGAGGATGAGTCGTCATCCTGGTTTGAGTCTGAGACACACATACTTTGTAGTGAGCTGACTTCAATTTGTTGTATTTCTAGTTTTTCGGAGTACATATATAAATGGTGCTCAGTTAGAATTGCTCTTTATCGACAACGCAGCAGGACTGTGAGTAAAGGAAAAGATTTTGTGCCACCTCAGCCATCACTACTACTTCCTGTAGAATCAGTAGAGGTTTCAGTACCGCAGCCTCCCAGTGGCGATGTGGATAGCGAGAACATGGAAAGAGAAGCTGAAACTGTTGATCTGGATGATTTAAGTAGTGTGCACCAGGGGCATTTGATAAATCACACAGTGGACACAATTGAACTTGAACCAAGCTACCCTCAAACTCTTTCTCAGTCTCTTCTCTTAGATGTTACTCCAGAAATGAATTCACTGTCTAAAGTAGAAGGATCTGAGTCTGTTAAATCTGAAGGAGGATATATTCCATCACAATTGATGACCCAAGAGAGTTCTGTTGAGTTTGATGATAAAACAGAAAAAAAGACCGAGAGCTTTAGTTCTGCTGAGAAGCTCTCTGTTATTTATGAAACAAGTAAAGTTAATGAGGTGATGGACAATACTGTGAAAGAAGACATACTCTCCACAGAAGTTGTCACCAAGTTCCCTGAAACAGTAGTACCACCACCTATGAACACAGCCACTGTGCCAGAGGGTGAAAGTGTGGAAACCAAACCTAGTATAGCTGATACACTAAAGCATACAGTGACTCCAGTTATGGATCCTTCATTGCCTGAAGTGAAAGAGGATGAACAGTCTCCAGAGGATGCCCTTTTAAGAGGGTTACAGAGGACAGCTACAGATTTCTATGCTGAATTACAAAATTCTACTGATCTGGGATATGGTAATGGAAATCTTGTGCATGGATCAAATCAGAAGGAGTCAGTATTTATGAGGCTTAATAATCGTATTAAAGCCTTAGAAGTTAACATGTCTCTCAGTGGTCGCTATCTGGAGGAGCTTAGTCAAAGGTACCGCAAACAAATGGAAGAAATGCAGAAGGCTTTCAATAAGACAATAGTTAAGCTTCAGAATACTTCACGGATAGCAGAAGAGCAGGATCAGCGGCAAACTGAAGCCATCCACTTGCTCCAGGCACAACTGACCAACATGACACAGCTTGTTTCAAACCTATCAGCAACTGTAGCAGAATTAAAGCGGGAGGTTTCAGATCGTCAGAGTTACCTTGTCATGTCTTTGGTTTTATGTGTTGTCTTGGGACTGATGCTCTGTATGCAACGCTGTCGAACTACTTCTCAATTTGATGGAGATTACATTTCAAAACTTCCCAAAAGTAATCAGTATCCAAGCCCTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATGCTCTGTATGCAACGCTG
60
AGGTTCAGTTGTGGCAGTGG
60.47
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGATGCTCTGTATGCAACGC
60
AGGTTCAGTTGTGGCAGTGG
60.47
142
PCR template sequence:
GACTGATGCTCTGTATGCAACGCTGTCGAACTACTTCTCAATTTGATGGAGATTACATTTCAAAACTTCCCAAAAGTAATCAGTATCCAAGCCCTAAAAGGAAATAAAAGTATATCTGAGAATGCCACTGCCACAACTGAACCTAAAATGACTGAATCAACTCGTGTTTCAACTCCTGTTCCATCACCTGAATATGTAAT
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-27b-3p(2), mmu-miR-9-5p(1), mmu-miR-27a-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-200c-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-196a-5p(1), mmu-miR-324-3p(1), mmu-miR-34b-5p(1), mmu-miR-325-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-466a-5p(1), mmu-miR-5101(1), mmu-miR-1904(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGCCCTAAAAGGAAATAAAAGTAT
siRNA sets
TTTTATTTCCTTTTAGGGC,ACTTTTATTTCCTTTTAGG,TTTATTTCCTTTTAGGGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSUCO_1597_ORF_1
1.0403
0.062441696
0.999846105
1650
ORF sequence:
ATGGAGATTACATTTCAAAACTTCCCAAAAGTAATCAGTATCCAAGCCCTAAAAGGAAATAAAAGTATATCTGAGAATGCCACTGCCACAACTGAACCTAAAATGACTGAATCAACTCGTGTTTCAACTCCTGTTCCATCACCTGAATATGTAATCAAGGAAGTCCATACACATGATAGAGAACCATCAACCTCAGATCCTCCAAAAGAGAGTCCGATTGTACAACTGGTTCAGGAGGAAGAAGAGGAAGCGAGTCCATCTACAGTGACCCTTTTGGGCAGTGGTGAACAAGAGGATGAGTCGTCATCCTGGTTTGAGTCTGAGACACACATACTTTGTAGTGAGCTGACTTCAATTTGTTGTATTTCTAGTTTTTCGGAGTACATATATAAATGGTGCTCAGTTAGAATTGCTCTTTATCGACAACGCAGCAGGACTGTGAGTAAAGGAAAAGATTTTGTGCCACCTCAGCCATCACTACTACTTCCTGTAGAATCAGTAGAGGTTTCAGTACCGCAGCCTCCCAGTGGCGATGTGGATAGCGAGAACATGGAAAGAGAAGCTGAAACTGTTGATCTGGATGATTTAAGTAGTGTGCACCAGGGGCATTTGATAAATCACACAGTGGACACAATTGAACTTGAACCAAGCTACCCTCAAACTCTTTCTCAGTCTCTTCTCTTAGATGTTACTCCAGAAATGAATTCACTGTCTAAAGTAGAAGGATCTGAGTCTGTTAAATCTGAAGGAGGATATATTCCATCACAATTGATGACCCAAGAGAGTTCTGTTGAGTTTGATGATAAAACAGAAAAAAAGACCGAGAGCTTTAGTTCTGCTGAGAAGCTCTCTGTTATTTATGAAACAAGTAAAGTTAATGAGGTGATGGACAATACTGTGAAAGAAGACATACTCTCCACAGAAGTTGTCACCAAGTTCCCTGAAACAGTAGTACCACCACCTATGAACACAGCCACTGTGCCAGAGGGTGAAAGTGTGGAAACCAAACCTAGTATAGCTGATACACTAAAGCATACAGTGACTCCAGTTATGGATCCTTCATTGCCTGAAGTGAAAGAGGATGAACAGTCTCCAGAGGATGCCCTTTTAAGAGGGTTACAGAGGACAGCTACAGATTTCTATGCTGAATTACAAAATTCTACTGATCTGGGATATGGTAATGGAAATCTTGTGCATGGATCAAATCAGAAGGAGTCAGTATTTATGAGGCTTAATAATCGTATTAAAGCCTTAGAAGTTAACATGTCTCTCAGTGGTCGCTATCTGGAGGAGCTTAGTCAAAGGTACCGCAAACAAATGGAAGAAATGCAGAAGGCTTTCAATAAGACAATAGTTAAGCTTCAGAATACTTCACGGATAGCAGAAGAGCAGGATCAGCGGCAAACTGAAGCCATCCACTTGCTCCAGGCACAACTGACCAACATGACACAGCTTGTTTCAAACCTATCAGCAACTGTAGCAGAATTAAAGCGGGAGGTTTCAGATCGTCAGAGTTACCTTGTCATGTCTTTGGTTTTATGTGTTGTCTTGGGACTGATGCTCTGTATGCAACGCTGTCGAACTACTTCTCAATTTGATGGAGATTACATTTCAAAACTTCCCAAAAGTAATCAGTATCCAAGCCCTAAA
Peptide sequence:
MEITFQNFPKVISIQALKGNKSISENATATTEPKMTESTRVSTPVPSPEYVIKEVHTHDREPSTSDPPKESPIVQLVQEEEEEASPSTVTLLGSGEQEDESSSWFESETHILCSELTSICCISSFSEYIYKWCSVRIALYRQRSRTVSKGKDFVPPQPSLLLPVESVEVSVPQPPSGDVDSENMEREAETVDLDDLSSVHQGHLINHTVDTIELEPSYPQTLSQSLLLDVTPEMNSLSKVEGSESVKSEGGYIPSQLMTQESSVEFDDKTEKKTESFSSAEKLSVIYETSKVNEVMDNTVKEDILSTEVVTKFPETVVPPPMNTATVPEGESVETKPSIADTLKHTVTPVMDPSLPEVKEDEQSPEDALLRGLQRTATDFYAELQNSTDLGYGNGNLVHGSNQKESVFMRLNNRIKALEVNMSLSGRYLEELSQRYRKQMEEMQKAFNKTIVKLQNTSRIAEEQDQRQTEAIHLLQAQLTNMTQLVSNLSATVAELKREVSDRQSYLVMSLVLCVVLGLMLCMQRCRTTSQFDGDYISKLPKSNQYPSPK
IRESfinder result
IRESfinder score
0.671370049
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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