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mmu_ci4932438A13Rik_4073
Basic information of circular RNA
PanCircBase ID:
mmu_ci4932438A13Rik_4073
mm39_Chr. Position ID:
chr3|36924273|36928346|+
Gene name:
4932438A13Rik
Transcript:
ENSMUST00000198742.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
4073
Exon/intron sizes in nt:
4073
Flanking exon/introns:
chr3:36924273-36928346
Splice length:
4073
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAGACTGTGTATTTTCTGCATGCATTAACAACGGCCAGATTTTAGGCAGTGGCTGACTGAACCTGGAGTGCTATAGCAGCATCCGTTTATCTTTAGGAAAGGGAGTTTGTGTATGTCGTTTGAATATTTGCTCTGGAAATTGCTCTGTATTTTCCCCTCTTAGGCTGCCTAGTTATATGTCTTAAGAGAGGTGGGGGAGAAAAAACATTGATTGTCTTTAGCTTATTTTGCATGTTTTAAATTACCTTCCACATCCCTGCTCCAACACATACACAAACATTTTTATTATAAGTGTAATAAATGTCCACGGTAAACATTTTATAGTGAAACAACATATATTTAATACTTTATTTTCTTCTCAGTTGGGGGAAAATGGCAGTGGCTTATGCTATCTATACCTTTTTTATATAATGGTATAGAAGTTTTCTAGGTATGCACATAGTTCATTCAAACAGTGCATAATTAAATGTTAGAGAAGGGAAGGGAGGAAATGAGTGAATGAGTGGCTAACTGATTATGAAGGAGAAAAGGTAGAAAAATAATACTAGTGAAAAGAGGCTGTTACTGTGCACAAATCGACATGAAATTGTGCTGTTTAAGTTGAGTAGAAACTTGAAGCGTAGAAGGGAAAATAGGGAGGGTAGAAAGGAAAAGGAGACTTACCTGATACGCTTCCGATCTTTGCTATACTGAGTGCAATAGGAAGTTTGCATGTGTTGTTTCAACACACAAAGCAGTTTTATGAAGATAGGCTTTAATTTTTTCCATTTTAATCTGTTGGACCACTGTGGTCCATGGACCTTAAATAAGGTCCATGGATTGCATAGCTCCTTTCCCTGCGTGCATGCTTTTGCCTCTTTCATGATTTGATGCCATATGCTATAAGGCAGGGGTATGGGTGGAAGTGACACATATACCGAAGGAATAATGATGTTTCATAATTTGTAGGTAGGATTGAATTACAGTTTAGACTTTGAGTTCTGTATTTTCCATTTGACAAAACTACTGTAAATTCTTAATGAAAGCCAAAAACTAAAATGAATATTTTCAGTGCCCTGTACTCTTGGGTCCTAGAATCCTAATGAGGTAAGGTGAGGAAATGAAGACAGACACACATACAGAAGGAGTCAGGTGAGCACACTATGATGAAGTGGCACCCACTGCCTCATGACCCAAAACCTCAGTGTATTTATTAAGGACAGCACTGGGGAGGGGCTGGCTAGTCTCAGTGAGAGGTCTCTGTAGAGCAGTCTCAGGCTGTGAATCAATATTAGAGGAGGAGGAAAGCTGTAGCTGCTGGCTTGTTATGTACCTGGTTACTCATCTGTACTCTCACCCCTGAGGGAAGCTTTGCATTCTTCTGAGCTTCACCTGGGCAAGACTTGCAACTCCCATGGGGCTGAGACTTAGTCCCCAACATGGCTGTGCTTATGTCAACCTTCACTCTGTCAGGCTTCCTCTATTTCCTACAAATACTGACTATTTGTATGAAATAGAACTCAAATATTAGTGTGAAATTCATAAAAGCAGCATTGGAAATGACCTGAGTTTGATTAAGTTGCAGAATTTTTCCTTATTTCAGATTTGTTCCATTCCTGTCATGTACAGCTCCTGTCTATATAAACTTTTTTTTTTTTTTTGGAAATAAAACAGTAGCAATAAAAAGAGAATTTTTCTAAGAACAGTTTTTGTGGTGAAATTGTAGTACTTATGTAACAAAGCTGACAGAGCTGTTGTGGCTGGTGCGTTTAAGAAATATGGTGTTCTCTTAGGACTTGCTTACTGTTCTAAAAACTCTGCAACGAAAGTTTGAACAAACTTAAGATTTTACTGTGATGTTGGTAGGTCACATCTTAACCTACACATTGCTTTCACCTTTTTTAGAAAGACTTACACATTAAAAGCAAAGGGCAACTCATTACTTTTTGTATTTTTCCTTTTGTGTATTCATGAATAAGGTGTCTTAAAAATATAAATCTTGTAGATGACTATTCATAACTAACTAGACTATCATTTGCTCTACCATAATCAGTGACATTCTTCAAAAGTAGGGTATTGTCATAACAGTTACTATAGATATTTAGAATAAGGCAGCCTATTTAATGTTCCTTTTGACAAAAAGTCCTGTTTTACTGATTTTTATTTTGTATGTGCATATGCACATGATGGTGTGTGTGTGTGATGTCTGTGTTTTGTGGAGACTAGAGTTGACATCAGGTGCTTTCCTCAGTCTCTCTTCTGTCTTATATCTTAAGACAGGGTCCTTGAACAAAGTTGGAGCTCATTGCTTCCACTAGGCTGGTTAGCCGATGAACTCTGGGGATCCTACTCTTTCTAGCTCCCCAGGTCTGTTTTACAATTGCATGGTGCCATACCTATCTTTTATAGGGGTACTGGAGATCCAAGCTCAGTGCTTCATGCAAGCACTATACCAGCTAAGCCATTTCCCTGGCCCTGCTTATCTAAAAGTAGAGATTGTTGATTCATAATTTTTAACAATGATTTTTTCTAAGTTGAAAAAACTCATTAAGAAGGATGGCTGAGGTCTAAACTGGAGTGACTTGATTGTTGTGGCAGCAGCTCTTAAGCAGCTTACCTGTCTCTTAAGCTGAGCCATTGTTCCTTACTGGCTCCTTGCAGCAGGCTTCTGCTGGGCAGGGCAGGGCAGGGCATACTGAGAGGAATAGAGATGCTGTTAGAATCTTTGGGGATTAAACTGGGTATGGATACCCAGTAAGCCATGGATGGAAGAAAAACAGTAGCTTCAGTAGTGAAAGGACAAAAAAATTGGAAAACAAGTCTTTGGGACTATGTGGAGGGGGAGGTGGCATTGTGCTCTGGGCTTTTTCCTTCACTGTTACTGACTATTGCCTTGTTGCACACTGTGTTTTGTACTCATTCAAAATTATTAGGGTCGGAACAACTGTTAATTAAAGATTATTCTGTTTTCATAATAGATTGCCTTGCAGTCAGTAGTGACTTGTTCTCAGAGCTGAGTCAAGTCCAATGGGGAAAATGACACCTTAACCATATTACAATATAGTTCCACTTGAACAGTGCACATACTTGCATTGAAAAAAAATGTGGGTGATTAAAAATGACCTAATTTCAGATGCTTATATCCCAACACAGACCTGCAAGAAACATAAAAAAGCAAGGTTGTACTATGCATTTGAAAATTCCTGTGTGTGGGGAAGTTATAGGGAACTTTTGGGATAGCATTTGAAATGTATATAAAGAAAATATCTAATAAAAAAAGAGAAAATTCCTAATTAGATAATAAGAGACTCCAGTGAGAGCAAATTAGATGAAATCTCAAGGAAGTTAAAAAAGAATAATAAAGGATGTTCAGTGAAAGGAGAGGACATGAATAAACTGAGCAAATTAAAAAAGCATGAACAATTGAATGAAATTAAGATGTCAATACATAGATAAGAAAGAGGTGTTCATTAGAGACACTGGAAGTGCTGAAAATAAATTGGTTTGGAAATTTGGAAATGAAAATGCCAATAAATTAAAAATAAAAAATCTTAGAGAAAGTCTCACCAATAAAATAAATAGATCAAATGAAAAGTGAATTCCAGGGCTTGAAGAGATGATAGATGAATAGAATATCCCGAGAGTAATCAAGGTGAAATAGTAAGACAGTATGAAGAGAACACACAGGATTTGTGGAGTACCATTGGATGGATCAACTTGGAATCCGTGGGCAGAGAAGAGGGGGTAAACGGTATGCAGAGCAGAGGAAGAGTGGTGCAGGCTGTGACACACATAACGGCAGATACCTGTCAGAAGAACTCCTTCCTTATTTTAGTTTTTTTAACCAAAAATGAAGGCAGAGGCATGGAGCAATGCCTACAAGTTCTTGAAACGTTCCACTTTAATCTGATCAGAACCTACATTTAAAATTTTTTAATTATAATTTTTTGTTTGGCAGGTAACTAGGAAAATAAAATTTATGTAGGAAAGAAGCAATCCATGATTTTTAAGATTGCAAGTATTGTCAGAGTACAGATTACTATATGATAGTACATTTTGTTTTTACTGACTTGTTTTTCCTCTCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATGATTTTTAAGATTGCAAGT
55.57
CTCCAGGTTCAGTCAGCCAC
60.32
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATGATTTTTAAGATTGCAAGT
55.57
CACTCCAGGTTCAGTCAGCC
60.32
168
PCR template sequence:
GAAGCAATCCATGATTTTTAAGATTGCAAGTATTGTCAGAGTACAGATTACTATATGATAGTACATTTTGTTTTTACTGACTTGTTTTTCCTCTCAACAGGTAAGTAGACTGTGTATTTTCTGCATGCATTAACAACGGCCAGATTTTAGGCAGTGGCTGACTGAACCTGGAGTGCTATAGCAGCATCCGTTTATCTTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
27
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-32-5p(1), mmu-miR-199a-5p(1), mmu-miR-25-3p(1), mmu-miR-339-5p(1), mmu-miR-24-3p(1), mmu-miR-153-3p(1), mmu-miR-127-5p(1), mmu-miR-192-5p(1), mmu-miR-511-3p(1), mmu-miR-370-3p(1), mmu-miR-183-5p(1), mmu-miR-215-5p(1), mmu-miR-324-3p(1), mmu-miR-297a-5p(1), mmu-miR-224-5p(1), mmu-miR-377-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-673-5p(1), mmu-miR-188-3p(1), mmu-miR-3105-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCTCTCAACAGGTAAGTAGACTGT
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
0.814943095
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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