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mmu_circRbm33_2306
Basic information of circular RNA
PanCircBase ID:
mmu_circRbm33_2306
mm39_Chr. Position ID:
chr5|28563271|28599668|+
Gene name:
Rbm33
Transcript:
ENSMUST00000114884.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
7,8,9,10,11,12,13,14
Exon/intron offsets:
0,3672,9981,28213,29373,31229,32610,35728
Genomic length:
36397
Exon/intron sizes in nt:
209,289,59,133,344,315,288,669
Flanking exon/introns:
chr5:28557641-28563271|chr5:28599668-28613249
Splice length:
2306
Other database IDs:
circBase: mmu_circ_0012505, CIRCpedia: MMU_CIRCpedia_15179, circAtlas: mmu-Rbm33_0005
circAtlas: hsa-RBM33_0007, CIRCpedia: HSA_CIRCpedia_356278
Human Ortholog IDs:
Mature spliced Sequence:
AACTTTCTGCAGAAGCCAAAGCTGCATTGCTGGAATTTGAAGAAAGAGAACGACAGCATAAACAGGGACGCTATGGTTCCCGGCGGGGAGGAAGGCGAGGAGGTTCTCTGATGTGCCGTGGAATGGGAGACCAGAGGCGAGACAACAGCGAAAGGGGAAGGATGAAGGAGCACAGGCCTGCCCTGCTTCCTACACAGCCGTCTGTTGTGGCTCACTCTCCAAGATTAATCCCTCCTCCACAGCCACAGCCTCCTCCTCCACCACCACCACCACCACCTCAGCAGCAGCCAATCAGAAGTCTGTTCCAGCAACAGCAGCTGCAGCCTCTACTCCCCTTACAGCATCCGCATCACCCCTCCCCACCACAGGGAGTGCACATGCCCCCCCAGATTGAGACTCCAAGGATGATGTTGACCCCTCCCCCAGTGACTCCTCAGCAGCCCAAGAACATCCACATCAACCCACACTTCAAGGGGACAGTGGTAACCCCTGTTCAAGTGCCCTTGCTGCCAGTTCCAAGCCAGCCGAGGCCTGCCGTGGGACCCCAAAGATTTCCAGGCCCTCCAGAATTTCCACAGCACACACCTGGACCTGTTCCCAACAGTTTTAACCAGCCACCTAGACTTCCTCTCCAGGACCAGTGGAGAGCCCCACCCCCACCTCAGGAACGAGACCCTTTCTTCTTAGGAGTTTCAGGTGAACCAAGATTCCCCAGTCATCTTTTTTTGGAACAGCGAAGTCCTCCTCCACCGCCGCCTCCTCCCACGCTCCTGAACAGCAGCCATCCTGTTCCTACTCAGAGTCCCTTACCGTTCACTCAGCCTGGACCAGCTTTTAATCAGCAAGGACAGCAGCCAGTGTTCCCTCGAGAGAGGCCTGTAAGACCAGCCCTGCAGCCCCCAGGCCCAGTGGGGATCCTGCACTTTAGCCAGCCAGGGTCAGCAACTGCCAGGCCTTTCATTCCTCCTAGACAGCCATTTCTACCCAGCCCGGGACAGCCATTCCTGCCTACACATGCACAGCCTAACCTTCAGGGACCCTTGCATCCTCCGTTGCCACCACCTCATCAACCACAGCCCCAGCCGCAACAGCCCCAACAGCAGCCCCAGCATCACCAGCACCAGCCGCCCCTTCAGCCTCCCCTCCAGCCTCCACACCAGCCTCCCCCACAGCATCAGCCTCCCCCTCAGCATCAGCCACAGCAGCACCAGCATCATCATCACCTTTCTGCTCCTCCCCCTCCTCTGATGCCCATGTCTCAGCCGCAGTTCAGGCCGCATGTACAGACTGCCCAGCCACAGCCCAGCAGCAGTCGGATGCAGTGTACCCCACATCAGGGGCTCCGGCATAATGCAGCATCTCAGAATATAAGCAAACGGCCCATGCAGCAGATGCAACCCACTGCTCCCAGGAACAGTAATCTCCGTGAACTCCCCATAGCACCTTCACATGTTTTGGAGATGAGTGGTAACCGATGCTCCTCTACACCTGTTGCTCAGGTGAAGTCCATTGTCAACACATCCCCACCTTGTAGGGCTGTGGTGTCTTCCAGGAGCTCACAGGGCAATACTGATGCAAAAGCCAAGCCACTTAGTCCTGAAGCTCAACCTAAGGAAGAAGCAAAACCAGAAGCAGAGTTTCCTGATGAAGATGAAGAGACAAGGTTATATCGCTTAAAGATAGAGGAGCAGAAGCGCCTGAGAGAAGAAATCCTGAAGCAGAAGGAACTACGAAGGCAACAGCAGGCTGGTGCCAGAAAGAAGGAGTTACTGGAAAGGCTTGCGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCACCAGCCGCAGCAGCAGCAGCAGCAGCCGCAGCAGATCTATGGCTCGCAGACCTCCATGGAACAAGAGGAACTGGCAGCTACACCATCACCTACCAATGGTAACCCATTGTTGCCCTTTCCAGGGGCACAATGCAGGCAGAATGTGAAAACCAGACTTCTTGTTAAAAACCAAGACATCACCACTGCTAGCGTTCAGCCCAAAGCGGTAAACTTTGTCCCACCTGGTGCTAACGTGCAGCATCAAGGGCAACACTTGAGACCATTGAAGCATCTGCGACAGCTGCCACACAAAGTCCTTCAGGTCAAACCTATGGATATGGAGGAGACCCCCCACTCCCCACAGGCCGCCAGAGTGACATCCCTTCAGGGCCGGCCTCAGGACACCAAGCCAGGGGTGAAGAGGACTGTCATGCACAGGGCCAACAGTGGAGGTGGTGGAGATGGGCCACATGTCAGCTCCAAGGTCAGGGTGATTAAGTTGTCTGGAGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGTGGAGGTGGTGGAGAT
60.18
GGAACCATAGCGTCCCTGTT
59.75
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGGTGAAGAGGACTGTCA
59.81
GGAACCATAGCGTCCCTGTT
59.75
180
PCR template sequence:
AGGGGTGAAGAGGACTGTCATGCACAGGGCCAACAGTGGAGGTGGTGGAGATGGGCCACATGTCAGCTCCAAGGTCAGGGTGATTAAGTTGTCTGGAGGGAACTTTCTGCAGAAGCCAAAGCTGCATTGCTGGAATTTGAAGAAAGAGAACGACAGCATAAACAGGGACGCTATGGTTCCCGGCGGGGAGGAAGGCGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(5), mmu-miR-541-5p(2), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-93-5p(1), mmu-miR-205-5p(1), mmu-miR-328-3p(1), mmu-miR-217-5p(1), mmu-miR-320-3p(1), mmu-miR-431-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-362-5p(1), mmu-miR-705(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-300-3p(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGTCTGGAGGGAACTTTCTGCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBM33_2306_ORF_1
1.2446
0.178656593
0.999999409
2307
ORF sequence:
ATGTGCCGTGGAATGGGAGACCAGAGGCGAGACAACAGCGAAAGGGGAAGGATGAAGGAGCACAGGCCTGCCCTGCTTCCTACACAGCCGTCTGTTGTGGCTCACTCTCCAAGATTAATCCCTCCTCCACAGCCACAGCCTCCTCCTCCACCACCACCACCACCACCTCAGCAGCAGCCAATCAGAAGTCTGTTCCAGCAACAGCAGCTGCAGCCTCTACTCCCCTTACAGCATCCGCATCACCCCTCCCCACCACAGGGAGTGCACATGCCCCCCCAGATTGAGACTCCAAGGATGATGTTGACCCCTCCCCCAGTGACTCCTCAGCAGCCCAAGAACATCCACATCAACCCACACTTCAAGGGGACAGTGGTAACCCCTGTTCAAGTGCCCTTGCTGCCAGTTCCAAGCCAGCCGAGGCCTGCCGTGGGACCCCAAAGATTTCCAGGCCCTCCAGAATTTCCACAGCACACACCTGGACCTGTTCCCAACAGTTTTAACCAGCCACCTAGACTTCCTCTCCAGGACCAGTGGAGAGCCCCACCCCCACCTCAGGAACGAGACCCTTTCTTCTTAGGAGTTTCAGGTGAACCAAGATTCCCCAGTCATCTTTTTTTGGAACAGCGAAGTCCTCCTCCACCGCCGCCTCCTCCCACGCTCCTGAACAGCAGCCATCCTGTTCCTACTCAGAGTCCCTTACCGTTCACTCAGCCTGGACCAGCTTTTAATCAGCAAGGACAGCAGCCAGTGTTCCCTCGAGAGAGGCCTGTAAGACCAGCCCTGCAGCCCCCAGGCCCAGTGGGGATCCTGCACTTTAGCCAGCCAGGGTCAGCAACTGCCAGGCCTTTCATTCCTCCTAGACAGCCATTTCTACCCAGCCCGGGACAGCCATTCCTGCCTACACATGCACAGCCTAACCTTCAGGGACCCTTGCATCCTCCGTTGCCACCACCTCATCAACCACAGCCCCAGCCGCAACAGCCCCAACAGCAGCCCCAGCATCACCAGCACCAGCCGCCCCTTCAGCCTCCCCTCCAGCCTCCACACCAGCCTCCCCCACAGCATCAGCCTCCCCCTCAGCATCAGCCACAGCAGCACCAGCATCATCATCACCTTTCTGCTCCTCCCCCTCCTCTGATGCCCATGTCTCAGCCGCAGTTCAGGCCGCATGTACAGACTGCCCAGCCACAGCCCAGCAGCAGTCGGATGCAGTGTACCCCACATCAGGGGCTCCGGCATAATGCAGCATCTCAGAATATAAGCAAACGGCCCATGCAGCAGATGCAACCCACTGCTCCCAGGAACAGTAATCTCCGTGAACTCCCCATAGCACCTTCACATGTTTTGGAGATGAGTGGTAACCGATGCTCCTCTACACCTGTTGCTCAGGTGAAGTCCATTGTCAACACATCCCCACCTTGTAGGGCTGTGGTGTCTTCCAGGAGCTCACAGGGCAATACTGATGCAAAAGCCAAGCCACTTAGTCCTGAAGCTCAACCTAAGGAAGAAGCAAAACCAGAAGCAGAGTTTCCTGATGAAGATGAAGAGACAAGGTTATATCGCTTAAAGATAGAGGAGCAGAAGCGCCTGAGAGAAGAAATCCTGAAGCAGAAGGAACTACGAAGGCAACAGCAGGCTGGTGCCAGAAAGAAGGAGTTACTGGAAAGGCTTGCGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCACCAGCCGCAGCAGCAGCAGCAGCAGCCGCAGCAGATCTATGGCTCGCAGACCTCCATGGAACAAGAGGAACTGGCAGCTACACCATCACCTACCAATGGTAACCCATTGTTGCCCTTTCCAGGGGCACAATGCAGGCAGAATGTGAAAACCAGACTTCTTGTTAAAAACCAAGACATCACCACTGCTAGCGTTCAGCCCAAAGCGGTAAACTTTGTCCCACCTGGTGCTAACGTGCAGCATCAAGGGCAACACTTGAGACCATTGAAGCATCTGCGACAGCTGCCACACAAAGTCCTTCAGGTCAAACCTATGGATATGGAGGAGACCCCCCACTCCCCACAGGCCGCCAGAGTGACATCCCTTCAGGGCCGGCCTCAGGACACCAAGCCAGGGGTGAAGAGGACTGTCATGCACAGGGCCAACAGTGGAGGTGGTGGAGATGGGCCACATGTCAGCTCCAAGGTCAGGGTGATTAAGTTGTCTGGAGGGAACTTTCTGCAGAAGCCAAAGCTGCATTGCTGGAATTTGAAGAAAGAGAACGACAGCATAAACAGGGACGCTATGGTTCCCGGCGGGGAGGAAGGCGAGGAGGTTCTCTGA
Peptide sequence:
MCRGMGDQRRDNSERGRMKEHRPALLPTQPSVVAHSPRLIPPPQPQPPPPPPPPPPQQQPIRSLFQQQQLQPLLPLQHPHHPSPPQGVHMPPQIETPRMMLTPPPVTPQQPKNIHINPHFKGTVVTPVQVPLLPVPSQPRPAVGPQRFPGPPEFPQHTPGPVPNSFNQPPRLPLQDQWRAPPPPQERDPFFLGVSGEPRFPSHLFLEQRSPPPPPPPPTLLNSSHPVPTQSPLPFTQPGPAFNQQGQQPVFPRERPVRPALQPPGPVGILHFSQPGSATARPFIPPRQPFLPSPGQPFLPTHAQPNLQGPLHPPLPPPHQPQPQPQQPQQQPQHHQHQPPLQPPLQPPHQPPPQHQPPPQHQPQQHQHHHHLSAPPPPLMPMSQPQFRPHVQTAQPQPSSSRMQCTPHQGLRHNAASQNISKRPMQQMQPTAPRNSNLRELPIAPSHVLEMSGNRCSSTPVAQVKSIVNTSPPCRAVVSSRSSQGNTDAKAKPLSPEAQPKEEAKPEAEFPDEDEETRLYRLKIEEQKRLREEILKQKELRRQQQAGARKKELLERLAQQQQQQQQQQHQPQQQQQQPQQIYGSQTSMEQEELAATPSPTNGNPLLPFPGAQCRQNVKTRLLVKNQDITTASVQPKAVNFVPPGANVQHQGQHLRPLKHLRQLPHKVLQVKPMDMEETPHSPQAARVTSLQGRPQDTKPGVKRTVMHRANSGGGGDGPHVSSKVRVIKLSGGNFLQKPKLHCWNLKKENDSINRDAMVPGGEEGEEVL
IRESfinder result
IRESfinder score
0.536042168
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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