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mmu_ciRimbp2_2176
Basic information of circular RNA
PanCircBase ID:
mmu_ciRimbp2_2176
mm39_Chr. Position ID:
chr5|128859678|128861854|-
Gene name:
Rimbp2
Transcript:
ENSMUST00000199537.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
2176
Exon/intron sizes in nt:
2176
Flanking exon/introns:
chr5:128857440-128861854
Splice length:
2176
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGCACTGAGCTCATGACTGGGGGGCCCCGAATCTGGGGGATGCTCCATTCTGTCCTTTCTCCCGGATTATTCCACAAGTGCAGTTAGGAGTTACCAGCTGCTCCTGTCTACTTTGCCAAGAGGTCTGGGTGCTAGAGTTTGGGGGATCCATTTGGGATCCCCTAGACACAGCCAGCACTGTAGTGGGAATAGAGTTATAAGCAGAAGTAGTCCCAAGCCTTACATATTCAGACAGCAGCGGCAGCTTGCCGGTAGCAATGAACTGGCAGTGGAGGGCTGGGTCACACACAACTGCAAGAGAGGAGGGATCTACCCATACAGCTGAGGCCAGAGGAAGCCTAGGACAGCATGTCCATCCCATCACAGAGTTCCTCCCCACGCCCCACCCCCCACGCCGGAAGAGAGTTCATACCATCCGCTGCTGGAGACCTGAGATGGAAGGGTGGCTAATTTATGGGAACGCCTGGGTGGGTGGGGCAGTGAAGCCTGCAGGGTTTATTTCTGCAGAAGTGTGTCACCCTGCACTGTGGCGGACTGAAGACAACACTCATTACTCCTGTCTACTCAGGGCCTCTACAGAGACTGTACGGACGTTTCCCCCCACAAAGGTCTCTGGAGGGGGCTTTGGGGACCTCCATGTGGCCCTCTGTATGGTACAGTTCACACTGGTTCATCGTGCCCCACCCCCTAGCAGGTCCCCACAGGTCTCTCCTGAATCTGAGACTCCTACCTGCCCCAGGCGGAGCTCTGGAGCAGGAACCACCCTGAAAGTGCTCCAGGGTGGCTCAGGGAAAGGCTTTCCACCTTTCGGAAACTCCTCTGCCCAGGACATGGTATTAGAGGCCTCTGCCTTTCAAGCCCTGCTGAGGAAAGTGGAGAGCCAGTGGAGGGTCTTGTGAAGCTGGAGGGGTAGCCCCACCCACCTCTTACAAGCAGACAAGCCGCAGTATCCTAGGGGCATAAGCCACTCACCCATGGGGTTTCTGACTGGTGAGTTTGAGATTCTCCTAATATACTGTCAAGGGCAGTGGGAGCTGTGATCATACTGAGCTACAGTCCCACATGACAGGGAGTGGCTAAGGCAAGCCAGGTTTCCTAGAGGGGATCATGGCCCTTCATCTCCAGCTGGCCCCGCCCATCTGCCTACCCTGTGTTACCCTCTTTTTCAGCTGCCATTCTTCACCTTTATAGCACTCAACACCAAAAATCCTTCAATGTGACACTGTAAAGGAGAAAGATACTCGAATTAGGTCCTGTGCCTACCGACTCATGGGTAGTGGCAGAGGCAAACAGTCGACCACACTAGGTGTCCACAGACCACTGGGGGCAGCTGGCAAGGCCATCCCCACGGGCACCCTATCATAAGACACGCACCCCAGCTCTCAGCAGGGGATAAGAACAGCTTTCCTAGAGTCGGCCATATCTCCTCAAAGGATGGTACAGAGCAGGTGGCTGGCGTCAAAATCCATGCTTTTTGGATAGAGACAAGATGGCTGAGGGCTGGATCTGGCAGGGATGGTGCCTGTGGCGGGTGGCAGGGCAGGTTAAGGCCTGAATGCAGGAGTGTTTGCTTAGTGATCTCAAGAGTAGCCAGCTCAGTGCCAGTGCCAGTGCCAGGCACTGAGACCAGATGGGCCAGATGTGGTAAATCTCAGGTGTGGAGTCAGAGGACCTTGGTCCTTTGTAGTCGGGGTGCTGGGTCTGTTTGACAACATTCACCAGATCACAGGCATGCTATAAAGGACCAAACTCCTCCTCCTGGCTATTAACTAATGGAATAGAGAGTGGGGTCAGCAGGGGTGCTAAGGGCTGGGAAGAGACCAGTCCTGAGGGACAATGTGAGGCCATGGTGGCTGTCCATGGACCTCAGGGAATAAGCCATGGTGGCAGAAAAATTCCCTTTCTACTCTGAGTATCTCCTCAGCATAGGACCAGGGAGAATTGTGTCCTCCCTCTGGCTCACCCGCATGGCGTCTGCTCTGACGTCCCGCTAGCTCATCTGTGTGCTCCCCCTCACCTTGTGCTCTGCACCCCCCCCCAACACGTGGCCCATCTGCTCCATCCCAGAGCCCCCCCCCCAAGCAGGCATGCCGCAGGTCCCCCACGAGCAAAGGCTGCCTCGCGCTGCCCCCCCCCTGCCTCGCTGCCAAGACTAATTCTGTGTGTGTTTTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCCCCCACGAGCAAAGG
60.36
CCGGGAGAAAGGACAGAATGG
60.41
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTCCCCCACGAGCAAAG
60.36
CCGGGAGAAAGGACAGAATGG
60.41
146
PCR template sequence:
CCCCCCAAGCAGGCATGCCGCAGGTCCCCCACGAGCAAAGGCTGCCTCGCGCTGCCCCCCCCCTGCCTCGCTGCCAAGACTAATTCTGTGTGTGTTTTCTGTGAGCACTGAGCTCATGACTGGGGGGCCCCGAATCTGGGGGATGCTCCATTCTGTCCTTTCTCCCGGATTATTCCACAAGTGCAGTTAGGAGTTACCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-296-5p(1), mmu-miR-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-152-3p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-324-5p(1), mmu-miR-125b-5p(1), mmu-miR-23a-3p(1), mmu-miR-143-3p(1), mmu-miR-139-5p(1), mmu-miR-214-3p(1), mmu-miR-30b-5p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-324-3p(1), mmu-miR-342-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-3087-3p(1), mmu-miR-670-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTGTGTTTTCTGTGAGCACTGAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.560823782
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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