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mmu_ciAp3d1_1964
Basic information of circular RNA
PanCircBase ID:
mmu_ciAp3d1_1964
mm39_Chr. Position ID:
chr10|80563847|80565811|-
Gene name:
Ap3d1
Transcript:
ENSMUST00000020420.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1964
Exon/intron sizes in nt:
1964
Flanking exon/introns:
chr10:80563823-80565811
Splice length:
1964
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGCCCTGATGCTTTCCTGCCACTCAAGTGAGCCACAAAAGATCAGCTAGCTGACAGTCCCACCTGCCTGGGGTAGCTTTTCAAAGCTTTCTCACTCATATCCCCTGTGTCTCAGCAGATGAGAGATCTGGTCTCAGCAAGCATGGGCCTTCACATTCTAGAGGGCTTCAGGCTGGAGTACATGCCCCTCCTCCCTTCCCTGCTCAATGCACACTGCTACAGCCTGTCCCTGTCCACACTGGGCTCCTGCCTGCCTGCTGGCTCCCAGGCCTCTAGATGGTCAGTGAGGGAGTGTGTGAGGGACTGAACATGAGGGAGTGGGTGTGAGTGTGAGGGAGGGAGTGTGTGAGAAAGTGTGAGGGAGGGAGTGTAAGGGAGGAAGTGTTGGAGTGGAAGTGTGAGGGAGTGAATGTGAGAGAGTGAAGGAGTGTGAAGGAGGGAGTGGATGAGTCCTCCTTGACACCATCCTGCTCCTGCCTACCTTGTGCTGAAAACCACAGGGTGCTGGCTGTTCTTTGTTTCAGCCCCTTTATAATTCCTGCCATAAAGTGCACCCCTCTGTTCTCAAATGCTGGAACAAGGGCAGGACTCCCTCAGTGTGAGGTGGCAGGTGTGTGTTATAGGCAACTGTCAGGTGGAAGAGGAATGAATATGGGAGCTACAGTAGCATAGCTGGGCTCATGGTGCTGGCTGAGGGCAGGGGTGAGGTGGGAGGTGCAGGGCTGTGTGGTGTTATGCTGCAAGCCACATGGGCAGTGTCTCTGGGTTATGGGGTCAGGCAGGAGGCCTGGGTGAGCCAGAGCTATTTGGAGGAGCAGATAACCTGAGTTGGCCAGGCCTTTGAGAAGAGCAAGGGTCTGAGTGATTAGGGCCCTCTGAAGGAGGCTCCTGGGTGCTATTCCTGCATGCATGAGCCTTATGAGAAGAAGCTGGACTTGAGTGGCCAGGCTCTGGGAGGACTGGACATGTGAGCTCTAGGAGGAAGGGGAGTGGGATACAGAGGTGAGCAGTTGGGTTGAGGCTGAGGCTGGCTCTAGCCACAACAGCATCTCACTGTCTGTATGCCTGCAGTGTGTGAGGCTGTGGGTCAGGCCTTCCTCTCTAAGACACAGGAGCTCAGCTTCATAAGAGAAGGTGTCCTACTACTGAGGATAGCAGTAACTTGCTGATGTCCTGGTTGGGACCTGGTATATGTGCAGCTGAGATCTCTGCCCACACAGCAGGGCACATGTCCCAGGCCTCTGCAGCCGCTGTGTCTCTAGACCAGCATGGGATCTGGGCATGGGATTCTCAAGGCCAAGCTCCAGGCCATCTGTCACCTCTGTGTGTCTTCCTGATGAGCTTTCCTAGTAGGGGGCAGTGCTTCCATTGATTCTACTGCTTTCCTTTCTGTCCCTTTGGGAGATGGCACTGCAAATTTTGGACACTGAGGGTAAAGGGCTGATCATAGCTTCTGATGCTGTTTAGCTTACCCTAAAGCTCACAACATTCTGTTAATAATCATGAGACCAGCACTCTGAGCATGCCCCATGTACAACATAACTGAAGTACACCCTCCTAGCATCAGGCACACTGCCTTAGAGTGGGGAGTCAGGGCACTGGGAAGAAGTTGCCTCAGTCTTCTGCCTTAGGCCCTATACATTAAAAGGATGAACTCCTTCTAATCGGCCCAGAGCATCTCAGATCAGAACAGCCAAAGGACTGTTCCTGGTATTATGAGGGAGTTGCTGAATAGAAAAGGTTCCTATAGCATTGCCAGGAACCAGGAAGTTGTCCAGGAGTTGTGACTTGCAAAGGAATCTCTGTCCCCAAGGAGCCCAGAGACCTGGTGGCTTCCACACAGAGTTTTTTGTGTTCTCTGCCTCTGACCTGTGTTCCAATTCTTGATGACAGTAGAGGAGCTGTGAGAGGCTCCCTCGTGCTGGGTTACAGACATACAGATAGTCCCAAGGGACTGCCACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGAGGAGCTGTGAGAGGCT
59.37
TGAAAAGCTACCCCAGGCAG
59.96
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTAGAGGAGCTGTGAGAGGC
59.26
TGAAAAGCTACCCCAGGCAG
59.96
155
PCR template sequence:
CTCTGACCTGTGTTCCAATTCTTGATGACAGTAGAGGAGCTGTGAGAGGCTCCCTCGTGCTGGGTTACAGACATACAGATAGTCCCAAGGGACTGCCACTGTAGGCCCTGATGCTTTCCTGCCACTCAAGTGAGCCACAAAAGATCAGCTAGCTGACAGTCCCACCTGCCTGGGGTAGCTTTTCAAAGCTTTCTCACTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(2), mmu-miR-324-3p(2), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-29b-3p(1), mmu-miR-709(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-382-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-340-5p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-342-5p(1), mmu-miR-342-3p(1), mmu-miR-673-5p(1), mmu-miR-540-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGACTGCCACTGTAGGCCCTGATG
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
0.563831102
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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