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mmu_circSuco_1406
Basic information of circular RNA
PanCircBase ID:
mmu_circSuco_1406
mm39_Chr. Position ID:
chr1|161660984|161666391|-
Gene name:
Suco
Transcript:
ENSMUST00000048377.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
19,18,17,16
Exon/intron offsets:
0,620,4303,5338
Genomic length:
5407
Exon/intron sizes in nt:
88,1158,91,69
Flanking exon/introns:
chr1:161656909-161660984|chr1:161666391-161671570
Splice length:
1406
Other database IDs:
circAtlas: mmu-Suco_0015
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATGCCATTCTAAATATGGTGAATATTGCTGCTAATATTCTGGGAGCAAAAACTGAAGACTTGACAGAAGGAAATAAAAGTATATCTGAGAATGCCACTGCCACAACTGAACCTAAAATGACTGAATCAACTCGTGTTTCAACTCCTGTTCCATCACCTGAATATGTAATCAAGGAAGTCCATACACATGATAGAGAACCATCAACCTCAGATCCTCCAAAAGAGAGTCCGATTGTACAACTGGTTCAGGAGGAAGAAGAGGAAGCGAGTCCATCTACAGTGACCCTTTTGGGCAGTGGTGAACAAGAGGATGAGTCGTCATCCTGGTTTGAGTCTGAGACACACATACTTTGTAGTGAGCTGACTTCAATTTGTTGTATTTCTAGTTTTTCGGAGTACATATATAAATGGTGCTCAGTTAGAATTGCTCTTTATCGACAACGCAGCAGGACTGTGAGTAAAGGAAAAGATTTTGTGCCACCTCAGCCATCACTACTACTTCCTGTAGAATCAGTAGAGGTTTCAGTACCGCAGCCTCCCAGTGGCGATGTGGATAGCGAGAACATGGAAAGAGAAGCTGAAACTGTTGATCTGGATGATTTAAGTAGTGTGCACCAGGGGCATTTGATAAATCACACAGTGGACACAATTGAACTTGAACCAAGCTACCCTCAAACTCTTTCTCAGTCTCTTCTCTTAGATGTTACTCCAGAAATGAATTCACTGTCTAAAGTAGAAGGATCTGAGTCTGTTAAATCTGAAGGAGGATATATTCCATCACAATTGATGACCCAAGAGAGTTCTGTTGAGTTTGATGATAAAACAGAAAAAAAGACCGAGAGCTTTAGTTCTGCTGAGAAGCTCTCTGTTATTTATGAAACAAGTAAAGTTAATGAGGTGATGGACAATACTGTGAAAGAAGACATACTCTCCACAGAAGTTGTCACCAAGTTCCCTGAAACAGTAGTACCACCACCTATGAACACAGCCACTGTGCCAGAGGGTGAAAGTGTGGAAACCAAACCTAGTATAGCTGATACACTAAAGCATACAGTGACTCCAGTTATGGATCCTTCATTGCCTGAAGTGAAAGAGGATGAACAGTCTCCAGAGGATGCCCTTTTAAGAGGGTTACAGAGGACAGCTACAGATTTCTATGCTGAATTACAAAATTCTACTGATCTGGGATATGGTAATGGAAATCTTGTGCATGGATCAAATCAGAAGGAGTCAGTATTTATGAGGCTTAATAATCGTATTAAAGCCTTAGAAGTTAACATGTCTCTCAGTGGTCGCTATCTGGAGGAGCTTAGTCAAAGGTACCGCAAACAAATGGAAGAAATGCAGAAGGCTTTCAATAAGACAATAGTTAAGCTTCAGAATACTTCACGGATAGCAGAAGAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTAGTCAAAGGTACCGCA
57.91
TGCTCCCAGAATATTAGCAGCA
59.56
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCAAAGGTACCGCAAACA
57.66
TGCTCCCAGAATATTAGCAGCA
59.56
143
PCR template sequence:
GCTTAGTCAAAGGTACCGCAAACAAATGGAAGAAATGCAGAAGGCTTTCAATAAGACAATAGTTAAGCTTCAGAATACTTCACGGATAGCAGAAGAGCAGATGCCATTCTAAATATGGTGAATATTGCTGCTAATATTCTGGGAGCAAAAACTGAAGACTTGACAGAAGGAAATAAAAGTATATCTGAGAATGCCACTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
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-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(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
AGCAGAAGAGCAGATGCCATTCTAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSUCO_1406_ORF_1
1.0403
0.0684533
0.99912234
1404
ORF sequence:
ATGGTGAATATTGCTGCTAATATTCTGGGAGCAAAAACTGAAGACTTGACAGAAGGAAATAAAAGTATATCTGAGAATGCCACTGCCACAACTGAACCTAAAATGACTGAATCAACTCGTGTTTCAACTCCTGTTCCATCACCTGAATATGTAATCAAGGAAGTCCATACACATGATAGAGAACCATCAACCTCAGATCCTCCAAAAGAGAGTCCGATTGTACAACTGGTTCAGGAGGAAGAAGAGGAAGCGAGTCCATCTACAGTGACCCTTTTGGGCAGTGGTGAACAAGAGGATGAGTCGTCATCCTGGTTTGAGTCTGAGACACACATACTTTGTAGTGAGCTGACTTCAATTTGTTGTATTTCTAGTTTTTCGGAGTACATATATAAATGGTGCTCAGTTAGAATTGCTCTTTATCGACAACGCAGCAGGACTGTGAGTAAAGGAAAAGATTTTGTGCCACCTCAGCCATCACTACTACTTCCTGTAGAATCAGTAGAGGTTTCAGTACCGCAGCCTCCCAGTGGCGATGTGGATAGCGAGAACATGGAAAGAGAAGCTGAAACTGTTGATCTGGATGATTTAAGTAGTGTGCACCAGGGGCATTTGATAAATCACACAGTGGACACAATTGAACTTGAACCAAGCTACCCTCAAACTCTTTCTCAGTCTCTTCTCTTAGATGTTACTCCAGAAATGAATTCACTGTCTAAAGTAGAAGGATCTGAGTCTGTTAAATCTGAAGGAGGATATATTCCATCACAATTGATGACCCAAGAGAGTTCTGTTGAGTTTGATGATAAAACAGAAAAAAAGACCGAGAGCTTTAGTTCTGCTGAGAAGCTCTCTGTTATTTATGAAACAAGTAAAGTTAATGAGGTGATGGACAATACTGTGAAAGAAGACATACTCTCCACAGAAGTTGTCACCAAGTTCCCTGAAACAGTAGTACCACCACCTATGAACACAGCCACTGTGCCAGAGGGTGAAAGTGTGGAAACCAAACCTAGTATAGCTGATACACTAAAGCATACAGTGACTCCAGTTATGGATCCTTCATTGCCTGAAGTGAAAGAGGATGAACAGTCTCCAGAGGATGCCCTTTTAAGAGGGTTACAGAGGACAGCTACAGATTTCTATGCTGAATTACAAAATTCTACTGATCTGGGATATGGTAATGGAAATCTTGTGCATGGATCAAATCAGAAGGAGTCAGTATTTATGAGGCTTAATAATCGTATTAAAGCCTTAGAAGTTAACATGTCTCTCAGTGGTCGCTATCTGGAGGAGCTTAGTCAAAGGTACCGCAAACAAATGGAAGAAATGCAGAAGGCTTTCAATAAGACAATAGTTAAGCTTCAGAATACTTCACGGATAGCAGAAGAGCAGATGCCATTCTAA
Peptide sequence:
MVNIAANILGAKTEDLTEGNKSISENATATTEPKMTESTRVSTPVPSPEYVIKEVHTHDREPSTSDPPKESPIVQLVQEEEEEASPSTVTLLGSGEQEDESSSWFESETHILCSELTSICCISSFSEYIYKWCSVRIALYRQRSRTVSKGKDFVPPQPSLLLPVESVEVSVPQPPSGDVDSENMEREAETVDLDDLSSVHQGHLINHTVDTIELEPSYPQTLSQSLLLDVTPEMNSLSKVEGSESVKSEGGYIPSQLMTQESSVEFDDKTEKKTESFSSAEKLSVIYETSKVNEVMDNTVKEDILSTEVVTKFPETVVPPPMNTATVPEGESVETKPSIADTLKHTVTPVMDPSLPEVKEDEQSPEDALLRGLQRTATDFYAELQNSTDLGYGNGNLVHGSNQKESVFMRLNNRIKALEVNMSLSGRYLEELSQRYRKQMEEMQKAFNKTIVKLQNTSRIAEEQMPF
IRESfinder result
IRESfinder score
0.652961734
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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