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mmu_circRbm6_1710
Basic information of circular RNA
PanCircBase ID:
mmu_circRbm6_1710
mm39_Chr. Position ID:
chr9|107724466|107730873|-
Gene name:
Rbm6
Transcript:
ENSMUST00000035201.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,3647,4857
Genomic length:
6407
Exon/intron sizes in nt:
7,09,01,550
Flanking exon/introns:
chr9:107710706-107724466|chr9:107730873-107737547
Splice length:
1710
Other database IDs:
CIRCpedia: MMU_CIRCpedia_2195, circAtlas: mmu-Rbm6_0003
circAtlas: hsa-RBM6_0002, CIRCpedia: HSA_CIRCpedia_138279
Human Ortholog IDs:
Mature spliced Sequence:
GACTGGGTGAAAGCTTTTTCTGCAGCAGTCATGTTGAAAACCTTGTGTTGACTTACCTCGTGTTCTGAAATGGGAGCATAAAAGTTTACTCGGACACCTCATCTTAAAATAGCAAAACTTGCTGTTTTCTGCAGATCTAGGACCTTGTTACAGAACTCTGCCCCCCAAAATATGTTTACAGAAGAATATGCTGTGATTAGAGAAGAATATGCTGGTGTGTAGATTTCAAACTCTCTGGACAATATGAATAACCCTGTCTTTGTTTCTACAGTGGGAGCCAAGAAGAAAGGTTTGCTCCCGGGTGGAACAGGGATTATCCTCCTCCTCCCCTTAAGAGTCATGCTCAAGAGAGACACTCTGGCAACTTTCCTGGCAGAGATTCACTTCCCTTTGATTTCCAGGGGCATTCAGGACCTCCCTTTGCAAATGTAGAGGAGCATTCTTTCAGCTATGGAGGTAGAGATGGACCACATGGTGACTATCAAGGAGGGGAGGGACCTGGACACGATTTCAGAGGGGGAGATTTTTCATCTTCGGATTTCCAGAGTAGAGATTCAGCACAGTTGGACTTCAGGAACAGGGACATACATTCTGGGGATTTTCGGGATAGAGAAGGACCACCTATGGACTACAGGGGTGGAGATGGTACTCCTATGGATTATAGAGGTAGGGAGACACCTCATATGAATTATAGAGACAGGGATTCTCATACTGTTGACTTTAGAAGTAGAGATGTCCCTCCAACTGACTTTAGGGGGCGGGGCACATATGATTTAGATTTTAGAGGCCGAGAGGGATCCCATTCAGATTTTAGGGGAAGAGATTTATCAGATTTGGATTTTAGATCCAGAGATCAGTCTCGTTCTGATTTTAGGAACAGAGATGTATCTGATTTGGACTTCAGGGATAAAGATGGAACACAGGTGGACTTTAGAGGCCGAGGTTCAGCTACTACTGATCTAGACTTTAGGAACAGGGATACACCACATTCGGATTTCAGAGGTAGACATCGTACTAGGACTTACCAAGATTTTCGGGGCAGAGAGGTAGGACCTTGTATGGAATTTAAAGATAGGGAGATGCCTCCTATGGATCCAAAAGTTTTGGATTACATTCAGCCTTCTCCACAAGAGAGAGAACATTCTGGTATGAATATGAACAAGAGAGAAGAATCCATACATGACCATGCAATGGAAAGACCTGCTTTTGGTGTTCAGAAGGGAGAATTTGAGCATTCAGAAACAAGAGAAGGAGAAACACAAAGTGGAACTTTTGAACATGAATCTCAATCAGACTTTCAAAACAGCCAAAGTCCAGTTCAAGAACAAGATAAGCCAAAGCTTTCTGGAGGTGAACAACAGAGTTCAGATGCTGGTCTGTTTAAAGAAGAAGGTGATTTGGACTTTCTTGGCCAACAAGACACTGATTACAGAAGCATTGAATACTGTGATGTGGATCACAGGTTGCCAGGAAACCAGATTTTTGGCTATGGCCAGAGCAAGTCATTTTCTCAGGGCAAAATGTCCAGAGATGCCCAACAAGACCTTCAGGATCAAGATTATAGGACTGGCCCAAGCGAGGAGAAACCTAACAGGCTTATTCGATTAAGTGGGGTTCCAGAAAATGCCACAAAAGAAGAGATTCTTAATGCCTTTCGAACTTCTGATGGCATACCTGTAAAGGACTTGCAGTTGAAGGAGTATAACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGTTCCAGAAAATGCCAC
59.39
TGCTCCCATTTCAGAACACGA
59.93
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGTTCCAGAAAATGCCAC
59.39
TGCTCCCATTTCAGAACACG
58.48
178
PCR template sequence:
GGGGTTCCAGAAAATGCCACAAAAGAAGAGATTCTTAATGCCTTTCGAACTTCTGATGGCATACCTGTAAAGGACTTGCAGTTGAAGGAGTATAACACAGGACTGGGTGAAAGCTTTTTCTGCAGCAGTCATGTTGAAAACCTTGTGTTGACTTACCTCGTGTTCTGAAATGGGAGCATAAAAGTTTACTCGGACACCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-125b-5p(1), mmu-miR-381-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-383-5p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-300-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTATAACACAGGACTGGGTGAAAG
siRNA sets
TTTCACCCAGTCCTGTGTT,CTTTCACCCAGTCCTGTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBM6_1710_ORF_1
1.049
0.032101452
0.993903076
1155
ORF sequence:
ATGGACTACAGGGGTGGAGATGGTACTCCTATGGATTATAGAGGTAGGGAGACACCTCATATGAATTATAGAGACAGGGATTCTCATACTGTTGACTTTAGAAGTAGAGATGTCCCTCCAACTGACTTTAGGGGGCGGGGCACATATGATTTAGATTTTAGAGGCCGAGAGGGATCCCATTCAGATTTTAGGGGAAGAGATTTATCAGATTTGGATTTTAGATCCAGAGATCAGTCTCGTTCTGATTTTAGGAACAGAGATGTATCTGATTTGGACTTCAGGGATAAAGATGGAACACAGGTGGACTTTAGAGGCCGAGGTTCAGCTACTACTGATCTAGACTTTAGGAACAGGGATACACCACATTCGGATTTCAGAGGTAGACATCGTACTAGGACTTACCAAGATTTTCGGGGCAGAGAGGTAGGACCTTGTATGGAATTTAAAGATAGGGAGATGCCTCCTATGGATCCAAAAGTTTTGGATTACATTCAGCCTTCTCCACAAGAGAGAGAACATTCTGGTATGAATATGAACAAGAGAGAAGAATCCATACATGACCATGCAATGGAAAGACCTGCTTTTGGTGTTCAGAAGGGAGAATTTGAGCATTCAGAAACAAGAGAAGGAGAAACACAAAGTGGAACTTTTGAACATGAATCTCAATCAGACTTTCAAAACAGCCAAAGTCCAGTTCAAGAACAAGATAAGCCAAAGCTTTCTGGAGGTGAACAACAGAGTTCAGATGCTGGTCTGTTTAAAGAAGAAGGTGATTTGGACTTTCTTGGCCAACAAGACACTGATTACAGAAGCATTGAATACTGTGATGTGGATCACAGGTTGCCAGGAAACCAGATTTTTGGCTATGGCCAGAGCAAGTCATTTTCTCAGGGCAAAATGTCCAGAGATGCCCAACAAGACCTTCAGGATCAAGATTATAGGACTGGCCCAAGCGAGGAGAAACCTAACAGGCTTATTCGATTAAGTGGGGTTCCAGAAAATGCCACAAAAGAAGAGATTCTTAATGCCTTTCGAACTTCTGATGGCATACCTGTAAAGGACTTGCAGTTGAAGGAGTATAACACAGGACTGGGTGAAAGCTTTTTCTGCAGCAGTCATGTTGAAAACCTTGTGTTGACTTACCTCGTGTTCTGA
Peptide sequence:
MDYRGGDGTPMDYRGRETPHMNYRDRDSHTVDFRSRDVPPTDFRGRGTYDLDFRGREGSHSDFRGRDLSDLDFRSRDQSRSDFRNRDVSDLDFRDKDGTQVDFRGRGSATTDLDFRNRDTPHSDFRGRHRTRTYQDFRGREVGPCMEFKDREMPPMDPKVLDYIQPSPQEREHSGMNMNKREESIHDHAMERPAFGVQKGEFEHSETREGETQSGTFEHESQSDFQNSQSPVQEQDKPKLSGGEQQSSDAGLFKEEGDLDFLGQQDTDYRSIEYCDVDHRLPGNQIFGYGQSKSFSQGKMSRDAQQDLQDQDYRTGPSEEKPNRLIRLSGVPENATKEEILNAFRTSDGIPVKDLQLKEYNTGLGESFFCSSHVENLVLTYLVF
IRESfinder result
IRESfinder score
0.655539511
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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