top of page
mmu_circAp3m2_739
Basic information of circular RNA
PanCircBase ID:
mmu_circAp3m2_739
mm39_Chr. Position ID:
chr8|23283081|23294118|-
Gene name:
Ap3m2
Transcript:
ENSMUST00000163739.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,4016,6575,10694
Genomic length:
11037
Exon/intron sizes in nt:
86,13,81,72,343
Flanking exon/introns:
chr8:23282867-23283081|chr8:23294118-23295529
Splice length:
739
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGTTGAAAACTAGCTGAATCCAGAGGCTCGCAGACTGAACCAGCGTTCCTCTCCCACCAGCCTCTCCACCATGATTCACAGCCTTTTCTTGATTAACTCTTCCGGAGATATTTTCCTGGAGAAACACTGGAAAAGTGTGGTCAGCCGCTCTGTGTGTGATTACTTCTTCGAGGCCCAAGAGAGAGCTACCGAGGCAGAAAATGTGCCTCCGGTCATCCCCACCCCTCACCACTACCTCCTGAGTGTTTACCGGCACAAGATCTTCTTTGTGGCTGTAATCCAGACAGAGGTCCCGCCTCTGTTTGTCATTGAATTCCTTCACCGAGTAGTGGATACATTTCAGGACTATTTTGGGGTCTGTTCCGAGCCAGTGATCAAAGACAATGTGGTGGTGGTGTACGAGGTGTTGGAAGAGATGCTGGACAACGGGTTCCCCTTGGCTACGGAGTCAAACATCCTCAAAGAACTGATAAAGCCTCCCACTATTCTCCGGACAGTGGTCAACACCATCACAGGAAGCACCAATGTGGGGGACCAGCTTCCAACTGGGCAGCTGTCGGTGGTGCCTTGGCGACGGACAGGGGTGAAATATACCAACAACGAGGCCTATTTCGATGTGGTGGAAGAGATAGACGCCATCATTGACAAGTCAGGTTCCACAGTCACCGCTGAGATCCAAGGGGTGATCGATGCCTGTGTTAAGCTGACCGGGATGCCGGATCTCACTCTGTCCTTCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCAAGGGGTGATCGATGC
59.89
AATCATGGTGGAGAGGCTGG
59.45
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCAAGGGGTGATCGATGC
59.89
ATCATGGTGGAGAGGCTGGT
60.62
141
PCR template sequence:
CATTGACAAGTCAGGTTCCACAGTCACCGCTGAGATCCAAGGGGTGATCGATGCCTGTGTTAAGCTGACCGGGATGCCGGATCTCACTCTGTCCTTCATGGGTTGAAAACTAGCTGAATCCAGAGGCTCGCAGACTGAACCAGCGTTCCTCTCCCACCAGCCTCTCCACCATGATTCACAGCCTTTTCTTGATTAACTCT
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-134-5p(1), mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-216a-5p(1), mmu-miR-203-3p(1), mmu-miR-339-5p(1), mmu-let-7d-5p(1), mmu-miR-22-3p(1), mmu-miR-705(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGTCCTTCATGGGTTGAAAACTAG
siRNA sets
TAGTTTTCAACCCATGAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP3M2_739_ORF_1
1.288
0.365760913
0.970230147
675
ORF sequence:
ATGATTCACAGCCTTTTCTTGATTAACTCTTCCGGAGATATTTTCCTGGAGAAACACTGGAAAAGTGTGGTCAGCCGCTCTGTGTGTGATTACTTCTTCGAGGCCCAAGAGAGAGCTACCGAGGCAGAAAATGTGCCTCCGGTCATCCCCACCCCTCACCACTACCTCCTGAGTGTTTACCGGCACAAGATCTTCTTTGTGGCTGTAATCCAGACAGAGGTCCCGCCTCTGTTTGTCATTGAATTCCTTCACCGAGTAGTGGATACATTTCAGGACTATTTTGGGGTCTGTTCCGAGCCAGTGATCAAAGACAATGTGGTGGTGGTGTACGAGGTGTTGGAAGAGATGCTGGACAACGGGTTCCCCTTGGCTACGGAGTCAAACATCCTCAAAGAACTGATAAAGCCTCCCACTATTCTCCGGACAGTGGTCAACACCATCACAGGAAGCACCAATGTGGGGGACCAGCTTCCAACTGGGCAGCTGTCGGTGGTGCCTTGGCGACGGACAGGGGTGAAATATACCAACAACGAGGCCTATTTCGATGTGGTGGAAGAGATAGACGCCATCATTGACAAGTCAGGTTCCACAGTCACCGCTGAGATCCAAGGGGTGATCGATGCCTGTGTTAAGCTGACCGGGATGCCGGATCTCACTCTGTCCTTCATGGGTTGA
Peptide sequence:
MIHSLFLINSSGDIFLEKHWKSVVSRSVCDYFFEAQERATEAENVPPVIPTPHHYLLSVYRHKIFFVAVIQTEVPPLFVIEFLHRVVDTFQDYFGVCSEPVIKDNVVVVYEVLEEMLDNGFPLATESNILKELIKPPTILRTVVNTITGSTNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVVEEIDAIIDKSGSTVTAEIQGVIDACVKLTGMPDLTLSFMG
IRESfinder result
IRESfinder score
0.607150953
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page