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mmu_circRbm6_2533
Basic information of circular RNA
PanCircBase ID:
mmu_circRbm6_2533
mm39_Chr. Position ID:
chr9|107664450|107730602|-
Gene name:
Rbm6
Transcript:
ENSMUST00000183032.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,527,856,1078,2356,3753,4500,9225,13447,46182,60016,63663,64873
Genomic length:
66152
Exon/intron sizes in nt:
14,78,68,24,39,81,61,20,00,00,00,00,00,00,000
Flanking exon/introns:
chr9:107660984-107664450|chr9:107730602-107737547
Splice length:
2533
Other database IDs:
circAtlas: mmu-Rbm6_0020
Human Ortholog IDs:
Mature spliced Sequence:
TGGGAGCCAAGAAGAAAGGTTTGCTCCCGGGTGGAACAGGGATTATCCTCCTCCTCCCCTTAAGAGTCATGCTCAAGAGAGACACTCTGGCAACTTTCCTGGCAGAGATTCACTTCCCTTTGATTTCCAGGGGCATTCAGGACCTCCCTTTGCAAATGTAGAGGAGCATTCTTTCAGCTATGGAGGTAGAGATGGACCACATGGTGACTATCAAGGAGGGGAGGGACCTGGACACGATTTCAGAGGGGGAGATTTTTCATCTTCGGATTTCCAGAGTAGAGATTCAGCACAGTTGGACTTCAGGAACAGGGACATACATTCTGGGGATTTTCGGGATAGAGAAGGACCACCTATGGACTACAGGGGTGGAGATGGTACTCCTATGGATTATAGAGGTAGGGAGACACCTCATATGAATTATAGAGACAGGGATTCTCATACTGTTGACTTTAGAAGTAGAGATGTCCCTCCAACTGACTTTAGGGGGCGGGGCACATATGATTTAGATTTTAGAGGCCGAGAGGGATCCCATTCAGATTTTAGGGGAAGAGATTTATCAGATTTGGATTTTAGATCCAGAGATCAGTCTCGTTCTGATTTTAGGAACAGAGATGTATCTGATTTGGACTTCAGGGATAAAGATGGAACACAGGTGGACTTTAGAGGCCGAGGTTCAGCTACTACTGATCTAGACTTTAGGAACAGGGATACACCACATTCGGATTTCAGAGGTAGACATCGTACTAGGACTTACCAAGATTTTCGGGGCAGAGAGGTAGGACCTTGTATGGAATTTAAAGATAGGGAGATGCCTCCTATGGATCCAAAAGTTTTGGATTACATTCAGCCTTCTCCACAAGAGAGAGAACATTCTGGTATGAATATGAACAAGAGAGAAGAATCCATACATGACCATGCAATGGAAAGACCTGCTTTTGGTGTTCAGAAGGGAGAATTTGAGCATTCAGAAACAAGAGAAGGAGAAACACAAAGTGGAACTTTTGAACATGAATCTCAATCAGACTTTCAAAACAGCCAAAGTCCAGTTCAAGAACAAGATAAGCCAAAGCTTTCTGGAGGTGAACAACAGAGTTCAGATGCTGGTCTGTTTAAAGAAGAAGGTGATTTGGACTTTCTTGGCCAACAAGACACTGATTACAGAAGCATTGAATACTGTGATGTGGATCACAGGTTGCCAGGAAACCAGATTTTTGGCTATGGCCAGAGCAAGTCATTTTCTCAGGGCAAAATGTCCAGAGATGCCCAACAAGACCTTCAGGATCAAGATTATAGGACTGGCCCAAGCGAGGAGAAACCTAACAGGCTTATTCGATTAAGTGGGGTTCCAGAAAATGCCACAAAAGAAGAGATTCTTAATGCCTTTCGAACTTCTGATGGCATACCTGTAAAGGACTTGCAGTTGAAGGAGTATAACACAGGTTACGACTATGGCTATGTCTGCGTGGAATTTTCACTCTTGGAAGATGCCATCGGATGCATGGAGGCCAACCAGGGAACTCTAATGATCCATGACAAAGAGGTCACTCTTGAGTATGTACCAAGCCCAGATTTTTGGTACTGTAAACGATGTAAGGCTAGCACTGGTGGGCATCAGTCTTCTTGTTCATTCTGCAAGGGCCCAAAGGAAGAAGTCAAGCAGGAACTAGTGTCCTATCCTCAACCTCAGAAAACATCCATACCAGTACCTTCAGAAAAACAGCCCAACCAGCCACGACCTGCTGATAAGGAGCATGAACTCAGGAAACGGGAGGAAGGCCAAGAGTCAAGATTAGGACATCAGAAGAGAGATACAGAAAGATACTTCCCTCACTCTCGAAGGGAAGGGCTTACTTTCCGAAGAGACCGGGAAAAGGAGCCATGGTCTGGAGATTCACGCCAGGATGGGGAGAGTAAAACAATCATGCTAAAGCGTATCTATCGTTCCACTCCACCCGAAGTGATAGTCGAAGTGCTGGAGCCCTACGTGCATCTCACTACTGCCAATGTCCGCATCATCAAGAACAGGACTGGCCCCATGGGTCACACTTACGGTTTTATAGACCTTGACTCCCATGCAGAAGCTCTTCGAGTAGTGAAGATTTTGCAGAACCTTGATCCACCATTTAGCATTGATGGGAAGATGGTAGCTGTAAACCTGGCCACTGGAAAACGAAGAAATGATTCTGGGGACCATTCTGACCACATGCATTACTATCAGGGTAAAAAATATTTTCGAGATAGGAGAGGAGGAAACAGAAATTCAGACTGGTCTTCAGATACAAATCGACAAGGGCAACAGTCATCATCTGACTGCTACATATATGATTCTACTACTGGCTACTATTATGACCCCTTGGCAGGAACTTACTATGATCCCAACACCCAGCAAGAAGTCTATGTGCCCCAGGACCCTGAGTCACCTGATGAAGAAGAAATCAAGGAAAAGAAATCTACCAGTCAAGGAAAGTCAAATAGCAAGAAAGAAACATCTAAAAGAGATGGCAAGGAGAAAAAAGACAGAGGAATGACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTCAAGGAAAGTCAAATAGCA
59.24
ACTCTTAAGGGGAGGAGGAGG
59.71
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGTCAAGGAAAGTCAAATAGC
59.24
ACTCTTAAGGGGAGGAGGAGG
59.71
148
PCR template sequence:
AATCAAGGAAAAGAAATCTACCAGTCAAGGAAAGTCAAATAGCAAGAAAGAAACATCTAAAAGAGATGGCAAGGAGAAAAAAGACAGAGGAATGACAAAGTGGGAGCCAAGAAGAAAGGTTTGCTCCCGGGTGGAACAGGGATTATCCTCCTCCTCCCCTTAAGAGTCATGCTCAAGAGAGACACTCTGGCAACTTTCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-199b-3p(2), mmu-miR-199a-3p(2), mmu-miR-680(2), mmu-miR-155-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-101a-3p(1), mmu-miR-101b-3p(1), mmu-miR-7a-5p(1), mmu-miR-125b-5p(1), mmu-miR-381-3p(1), mmu-miR-383-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-300-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAATGACAAAGTGGGAGCCAAGAA
siRNA sets
TTCTTGGCTCCCACTTTGT,CTCCCACTTTGTCATTCCT,TCTTGGCTCCCACTTTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBM6_2533_ORF_1
1.0705
0.123557382
0.999998372
2244
ORF sequence:
ATGGACTACAGGGGTGGAGATGGTACTCCTATGGATTATAGAGGTAGGGAGACACCTCATATGAATTATAGAGACAGGGATTCTCATACTGTTGACTTTAGAAGTAGAGATGTCCCTCCAACTGACTTTAGGGGGCGGGGCACATATGATTTAGATTTTAGAGGCCGAGAGGGATCCCATTCAGATTTTAGGGGAAGAGATTTATCAGATTTGGATTTTAGATCCAGAGATCAGTCTCGTTCTGATTTTAGGAACAGAGATGTATCTGATTTGGACTTCAGGGATAAAGATGGAACACAGGTGGACTTTAGAGGCCGAGGTTCAGCTACTACTGATCTAGACTTTAGGAACAGGGATACACCACATTCGGATTTCAGAGGTAGACATCGTACTAGGACTTACCAAGATTTTCGGGGCAGAGAGGTAGGACCTTGTATGGAATTTAAAGATAGGGAGATGCCTCCTATGGATCCAAAAGTTTTGGATTACATTCAGCCTTCTCCACAAGAGAGAGAACATTCTGGTATGAATATGAACAAGAGAGAAGAATCCATACATGACCATGCAATGGAAAGACCTGCTTTTGGTGTTCAGAAGGGAGAATTTGAGCATTCAGAAACAAGAGAAGGAGAAACACAAAGTGGAACTTTTGAACATGAATCTCAATCAGACTTTCAAAACAGCCAAAGTCCAGTTCAAGAACAAGATAAGCCAAAGCTTTCTGGAGGTGAACAACAGAGTTCAGATGCTGGTCTGTTTAAAGAAGAAGGTGATTTGGACTTTCTTGGCCAACAAGACACTGATTACAGAAGCATTGAATACTGTGATGTGGATCACAGGTTGCCAGGAAACCAGATTTTTGGCTATGGCCAGAGCAAGTCATTTTCTCAGGGCAAAATGTCCAGAGATGCCCAACAAGACCTTCAGGATCAAGATTATAGGACTGGCCCAAGCGAGGAGAAACCTAACAGGCTTATTCGATTAAGTGGGGTTCCAGAAAATGCCACAAAAGAAGAGATTCTTAATGCCTTTCGAACTTCTGATGGCATACCTGTAAAGGACTTGCAGTTGAAGGAGTATAACACAGGTTACGACTATGGCTATGTCTGCGTGGAATTTTCACTCTTGGAAGATGCCATCGGATGCATGGAGGCCAACCAGGGAACTCTAATGATCCATGACAAAGAGGTCACTCTTGAGTATGTACCAAGCCCAGATTTTTGGTACTGTAAACGATGTAAGGCTAGCACTGGTGGGCATCAGTCTTCTTGTTCATTCTGCAAGGGCCCAAAGGAAGAAGTCAAGCAGGAACTAGTGTCCTATCCTCAACCTCAGAAAACATCCATACCAGTACCTTCAGAAAAACAGCCCAACCAGCCACGACCTGCTGATAAGGAGCATGAACTCAGGAAACGGGAGGAAGGCCAAGAGTCAAGATTAGGACATCAGAAGAGAGATACAGAAAGATACTTCCCTCACTCTCGAAGGGAAGGGCTTACTTTCCGAAGAGACCGGGAAAAGGAGCCATGGTCTGGAGATTCACGCCAGGATGGGGAGAGTAAAACAATCATGCTAAAGCGTATCTATCGTTCCACTCCACCCGAAGTGATAGTCGAAGTGCTGGAGCCCTACGTGCATCTCACTACTGCCAATGTCCGCATCATCAAGAACAGGACTGGCCCCATGGGTCACACTTACGGTTTTATAGACCTTGACTCCCATGCAGAAGCTCTTCGAGTAGTGAAGATTTTGCAGAACCTTGATCCACCATTTAGCATTGATGGGAAGATGGTAGCTGTAAACCTGGCCACTGGAAAACGAAGAAATGATTCTGGGGACCATTCTGACCACATGCATTACTATCAGGGTAAAAAATATTTTCGAGATAGGAGAGGAGGAAACAGAAATTCAGACTGGTCTTCAGATACAAATCGACAAGGGCAACAGTCATCATCTGACTGCTACATATATGATTCTACTACTGGCTACTATTATGACCCCTTGGCAGGAACTTACTATGATCCCAACACCCAGCAAGAAGTCTATGTGCCCCAGGACCCTGAGTCACCTGATGAAGAAGAAATCAAGGAAAAGAAATCTACCAGTCAAGGAAAGTCAAATAGCAAGAAAGAAACATCTAAAAGAGATGGCAAGGAGAAAAAAGACAGAGGAATGACAAAGTGGGAGCCAAGAAGAAAGGTTTGCTCCCGGGTGGAACAGGGATTATCCTCCTCCTCCCCTTAA
Peptide sequence:
MDYRGGDGTPMDYRGRETPHMNYRDRDSHTVDFRSRDVPPTDFRGRGTYDLDFRGREGSHSDFRGRDLSDLDFRSRDQSRSDFRNRDVSDLDFRDKDGTQVDFRGRGSATTDLDFRNRDTPHSDFRGRHRTRTYQDFRGREVGPCMEFKDREMPPMDPKVLDYIQPSPQEREHSGMNMNKREESIHDHAMERPAFGVQKGEFEHSETREGETQSGTFEHESQSDFQNSQSPVQEQDKPKLSGGEQQSSDAGLFKEEGDLDFLGQQDTDYRSIEYCDVDHRLPGNQIFGYGQSKSFSQGKMSRDAQQDLQDQDYRTGPSEEKPNRLIRLSGVPENATKEEILNAFRTSDGIPVKDLQLKEYNTGYDYGYVCVEFSLLEDAIGCMEANQGTLMIHDKEVTLEYVPSPDFWYCKRCKASTGGHQSSCSFCKGPKEEVKQELVSYPQPQKTSIPVPSEKQPNQPRPADKEHELRKREEGQESRLGHQKRDTERYFPHSRREGLTFRRDREKEPWSGDSRQDGESKTIMLKRIYRSTPPEVIVEVLEPYVHLTTANVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNLDPPFSIDGKMVAVNLATGKRRNDSGDHSDHMHYYQGKKYFRDRRGGNRNSDWSSDTNRQGQQSSSDCYIYDSTTGYYYDPLAGTYYDPNTQQEVYVPQDPESPDEEEIKEKKSTSQGKSNSKKETSKRDGKEKKDRGMTKWEPRRKVCSRVEQGLSSSSP
IRESfinder result
IRESfinder score
0.535987161
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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