top of page
mmu_ciDennd4a_2260
Basic information of circular RNA
PanCircBase ID:
mmu_ciDennd4a_2260
mm39_Chr. Position ID:
chr9|64814519|64816779|+
Gene name:
Dennd4a
Transcript:
ENSMUST00000038890.6
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
27
Exon/intron offsets:
0
Genomic length:
2260
Exon/intron sizes in nt:
2260
Flanking exon/introns:
chr9:64814519-64816782
Splice length:
2260
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTATGGCTGTGGAGAACTGTAACTACATATATGGTACATGAACAGATGTGAAAGAAGAAAAGTGGACCATTTTAAGGTATAAGTTTCTGTGAAAATATACGTTCCTGTAATTAATCACTGAGTGGTAGAGAAAGGATGATGTTTAAGGATAGTCTTGTTTATATAACAAGATGCCACCTCAAATGGTTGGATGGGTAGATGGTTGGATGGATGAATGGATGGATAGACAGATGGATAGACAGATGGATGGAGAGACAGAGTCCTATGGGGAAAAACATCTTAAGCTTTTTTTTTTTAAGATTTTATTTATTTGTATTTTATATACATGGGTGTTTTGCCTGCATGCATGTTTGGAGACCTGAAGAGGGATTTAAGTCCTCTGAATCTTGAAATAGAGATGGCTGTGAGCCACCATGTGGGTGCTACAGACTGAGCCGGGTCTTCTGCAAGAGCAGCAAATGCTCTCCACTCTGTCTCCAGCGCCTCATTATCTTAAACCCTTATTTCTGATTAAAGCGATGTTAAAGTGCTCTAGTGGCTAACTAGTTAAGTCTAAATGTTTCTATGCTCAACTTTATGAACCTCAAAGGTAATAATAGTGTTTACATGTATTTTGCTTTTGTTTTTGTTTATTTGTATATGTGTTTGTTTTGAGAAAGATCTTGTATAACCCTGATTGGCCTTTAACTTGCTATGTAGTTAAAATGACCATAAATTCCTTATCCTCCTGCCTCCACCTCCCAAGTTCTGCTGCTACAGATGCCACCTTGCTCAGTGGTTTTTCCAGTATCTAAAGATGAAAAAAAAATCTTTAATTCACTTGAAGTTGACTTTGACCAGCTTTTTCTCTATCTCTTTAGGAACTAATAATACCAAGTTCTATTTTAGAATATTTAATTTTCTGTTTATAAATATATAGTAGTATAAGAAAACTTTTGGAGCTGACATAGAACTATAAAATTAAAAGCACATATAGTGATCCAATATAAGTAATCTATATTCATAAGTTATTTCTCCACCAGTGAAATGAGCCAATTCAAGTCAGATTGGCGTATATATAAAGGCAGGTTTATTGGAAAACCACTCCAGACCAAGTTCAATGGTCCCAAGGAATGAAGCCAGGGAAGTTGCCATAGAGAGGGAGACAGAGAAGAGGAGGAAGAGAAAGAGAGAAAGCTTGCAAACAGAGAGAGGGAGAAGAGAAGAGAGAGACCAAACTGTCTAGATTATAAATGAAAAAGCCTCTAAGGAGGGGAAGCCCATTCCCTGGCCTGGAAAGTTGAGTAGAGGGTGGGGTATGCCAGGTAGTCACTGAGGGGATGCTGGGAGAACCTAGAGGCCAGGTCCATTTTGGTATGTTAAACACGTACCTCAGCTGCTTGTCCCAGGTCTGAATCTCAACATATATTTAAATATAGACACTTGACTCTTTTTTGCAAAAGTGCCAGTTTTACCATATGTAGCCATATAGGTCAAGCCATGTTTCAGCTGCATGTGCAGAAAAAGAAAATGCCTATGTAATACTGGCATGGTGAACACAACCCATTTAGTCATAAATACTTACACTATAAAACCCAAAATCTCTGTGCACCTTCTCTCTATGTCCCTTGTGTTTCTCTCTGTCTCTCTCTGTGACTCTCTCTGTCTGTCCCTTTCTCTGTCTCTCTGTCTCTATCTGTCTGTATCTCTTATCTCTGTCTGTCTTTGTCTCTTTCTCTCTGTCTCTCTCTGTCTCTCTGTCTCTCTCTCTCTCTGCAACTTCTAAAAGAATACGTAATCCATTTTCTCTACTGTATATATCAAGGGTTAGTCATGATGCTGTGTAAAATCTATTCACTAAACATTTTGAATAAATGAAATGAACCTTCAAAATTAAAAGTTTGTGTGGTCCAATTATCACACTGCTTAAAATATATCTTATTTCTTAGTTGATGACTGAGTAGCACATTTCCTTTGATTTATTTTGCTATGCCCAGCTCTGATTCTAAAAAGAACCAACATGGTTCTTCTACATAAGATGGGATGAGATAAGATAAGAAAGTCTAGGCACTAACAGGATTTCTTTTTCTTTTCTTTTCTTTTCTTTTTTCTTTTCTTTTCCTTTCCTTTCCTTTCTTTTCTTTTCCTTTCTTTCTTTCTTTCTTTTCCTTCCTTTCTTTCTTCCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCTTCCTTTTTTTTTTTTAAATGTGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTTCCTTCCTTCCTTCCTTCC
59.67
ATGGTCCACTTTTCTTCTTTCACA
58.8
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCCTTCCTTCCTTCCTTCC
60.03
ACCTTAAAATGGTCCACTTTTCT
56.27
143
PCR template sequence:
TTTCTTCCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCTTCCTTTTTTTTTTTTAAATGTGCGTAAGTATGGCTGTGGAGAACTGTAACTACATATATGGTACATGAACAGATGTGAAAGAAGAAAAGTGGACCATTTTAAGGTATAAGTTTCTGTGAAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-335-3p(2), mmu-miR-140-5p(1), mmu-miR-135a-5p(1), mmu-miR-15b-5p(1), mmu-miR-18a-5p(1), mmu-miR-222-3p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-324-5p(1), mmu-miR-495-3p(1), mmu-miR-24-3p(1), mmu-miR-192-5p(1), mmu-miR-215-5p(1), mmu-miR-705(1), mmu-miR-680(1), mmu-miR-544-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTTAAATGTGCGTAAGTATGGCTG
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
0.941601927
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page