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mmu_circFubp3_571
Basic information of circular RNA
PanCircBase ID:
mmu_circFubp3_571
mm39_Chr. Position ID:
chr2|31488549|31495355|+
Gene name:
Fubp3
Transcript:
ENSMUST00000113482.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,8,9,10,11
Exon/intron offsets:
0,1915,4673,6076,6705
Genomic length:
6806
Exon/intron sizes in nt:
1,63,99,10,51,03,101
Flanking exon/introns:
chr2:31486663-31488549|chr2:31495355-31498096
Splice length:
571
Other database IDs:
CIRCpedia: HSA_CIRCpedia_112381
Human Ortholog IDs:
Mature spliced Sequence:
ACAAGCCAAACGGCTCCTGGGGCAGATCGTGGATCGATGTCGGAATGGGCCTGGCTTTCACAACGATATGGATGGCAACAGCACAATCCAGGAACTTCTTATCCCTGCATCTAAAGTGGGGCTGGTCATCGGCAAAGGAGGGGAAACGATCAAGCAGTTGCAGGAGCGAACGGGTGTGAAAATGGTCATGATCCAGGATGGCCCGCTGCCTACAGGAGCAGACAAGCCTCTCCGCATCACTGGAGACCCATTTAAAGTACAGCAAGCAAGAGAAATGGTTCTAGAGATTATCCGAGAGAAAGATCAGGCTGACTTCCGGGGTGTGCGCAGCGATTTCACCTCCCGAGCAGGCGGAGGTAGTATAGAGGTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGGAACGGAGAAATGATTAAGAAGATCCAGAACGACGCTGGTGTGAGGATCCAATTCAAACCAGATGACGGGATTAGTCCAGAAAGAGCAGCGCAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCTCGCATCATCAATGAGCTCATTCTCACGGCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGTCCAGAAAGAGCAGCGC
60.11
GGATTGTGCTGTTGCCATCC
59.83
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGATCGGTGTCAGCATG
59.82
GGATTGTGCTGTTGCCATCC
59.83
147
PCR template sequence:
TGACGGGATTAGTCCAGAAAGAGCAGCGCAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCTCGCATCATCAATGAGCTCATTCTCACGGCACAGACAAGCCAAACGGCTCCTGGGGCAGATCGTGGATCGATGTCGGAATGGGCCTGGCTTTCACAACGATATGGATGGCAACAGCACAATCCAGGAACTTCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-495-3p(1), mmu-miR-29b-1-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCACGGCACAGACAAGCCAAACGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFUBP3_571_ORF_1
0.9475
0.356831015
0.942702268
672
ORF sequence:
ATGACGGGATTAGTCCAGAAAGAGCAGCGCAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCTCGCATCATCAATGAGCTCATTCTCACGGCACAGACAAGCCAAACGGCTCCTGGGGCAGATCGTGGATCGATGTCGGAATGGGCCTGGCTTTCACAACGATATGGATGGCAACAGCACAATCCAGGAACTTCTTATCCCTGCATCTAAAGTGGGGCTGGTCATCGGCAAAGGAGGGGAAACGATCAAGCAGTTGCAGGAGCGAACGGGTGTGAAAATGGTCATGATCCAGGATGGCCCGCTGCCTACAGGAGCAGACAAGCCTCTCCGCATCACTGGAGACCCATTTAAAGTACAGCAAGCAAGAGAAATGGTTCTAGAGATTATCCGAGAGAAAGATCAGGCTGACTTCCGGGGTGTGCGCAGCGATTTCACCTCCCGAGCAGGCGGAGGTAGTATAGAGGTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGGAACGGAGAAATGATTAAGAAGATCCAGAACGACGCTGGTGTGAGGATCCAATTCAAACCAGATGACGGGATTAGTCCAGAAAGAGCAGCGCAGGTCATGGGCCCTCCAGATCGGTGTCAGCATGCAGCTCGCATCATCAATGAGCTCATTCTCACGGCACAG
Peptide sequence:
MTGLVQKEQRRSWALQIGVSMQLASSMSSFSRHRQAKRLLGQIVDRCRNGPGFHNDMDGNSTIQELLIPASKVGLVIGKGGETIKQLQERTGVKMVMIQDGPLPTGADKPLRITGDPFKVQQAREMVLEIIREKDQADFRGVRSDFTSRAGGGSIEVSVPRFVVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGISPERAAQVMGPPDRCQHAARIINELILTAQ
IRESfinder result
IRESfinder score
0.265573558
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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