top of page
mmu_circAtp2a2_810
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp2a2_810
mm39_Chr. Position ID:
chr5|122598703|122604144|-
Gene name:
Atp2a2
Transcript:
ENSMUST00000179939.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
14,13,12,11
Exon/intron offsets:
0,925,1222,5309
Genomic length:
5441
Exon/intron sizes in nt:
336,219,123,132
Flanking exon/introns:
chr5:122598259-122598703|chr5:122604144-122604890
Splice length:
810
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAAAGGGTGTGTATGAGAAAGTTGGAGAAGCTACCGAGACTGCTCTCACGTGCCTGGTGGAGAAGATGAATGTATTTGATACTGAGCTGAAGGGGCTTTCTAAAATAGAGCGTGCAAACGCCTGCAACTCGGTCATAAAGCAGCTGATGAAGAAGGAGTTCACTCTGGAGTTTTCACGGGATAGAAAATCAATGTCCGTCTATTGTACCCCAAACAAGCCAAGCCGGACATCCATGAGCAAGATGTTTGTGAAGGGGGCTCCAGAAGGTGTCATCGATAGGTGCACCCACATCCGAGTTGGAAGTACCAAGGTCCCCATGACTCCTGGTGTCAAACAGAAGATTATGTCTGTCATTCGGGAGTGGGGCAGTGGCAGCGACACGCTACGGTGCCTGGCTCTGGCCACTCATGACAACCCACTGAAGAGAGAGGAGATGCACCTGGAAGACTCTGCTAACTTCATCAAATACGAGACCAACCTGACTTTCGTCGGCTGTGTGGGCATGCTGGATCCTCCCAGGATTGAAGTAGCCTCTTCTGTGAAGCTGTGCCGGCAAGCAGGCATCCGGGTCATCATGATCACTGGAGACAACAAAGGCACCGCTGTGGCCATCTGTCGCCGCATTGGCATCTTTGGGCAGGATGAGGATGTGACATCAAAGGCTTTTACAGGGCGAGAGTTTGATGAATTAAGCCCTTCAGCCCAGAGAGATGCCTGCTTAAATGCCCGCTGTTTTGCTCGAGTTGAACCTTCCCACAAGTCTAAGATTGTTGAGTTCCTTCAGTCCTTTGATGAGATCACAGCTATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATGCCTGCTTAAATGCCCG
59.97
GCAGTCTCGGTAGCTTCTCC
59.9
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGCCTGCTTAAATGCCCG
59.97
TCATCTTCTCCACCAGGCAC
59.38
169
PCR template sequence:
AGATGCCTGCTTAAATGCCCGCTGTTTTGCTCGAGTTGAACCTTCCCACAAGTCTAAGATTGTTGAGTTCCTTCAGTCCTTTGATGAGATCACAGCTATGGCAAAGGGTGTGTATGAGAAAGTTGGAGAAGCTACCGAGACTGCTCTCACGTGCCTGGTGGAGAAGATGAATGTATTTGATACTGAGCTGAAGGGGCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-181b-5p(1), mmu-miR-425-5p(1), mmu-miR-324-3p(1), mmu-miR-207(1), mmu-miR-697(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GATCACAGCTATGGCAAAGGGTGTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP2A2_810_ORF_1
1.2019
0.368465359
0.999937157
1554
ORF sequence:
ATGAATGTATTTGATACTGAGCTGAAGGGGCTTTCTAAAATAGAGCGTGCAAACGCCTGCAACTCGGTCATAAAGCAGCTGATGAAGAAGGAGTTCACTCTGGAGTTTTCACGGGATAGAAAATCAATGTCCGTCTATTGTACCCCAAACAAGCCAAGCCGGACATCCATGAGCAAGATGTTTGTGAAGGGGGCTCCAGAAGGTGTCATCGATAGGTGCACCCACATCCGAGTTGGAAGTACCAAGGTCCCCATGACTCCTGGTGTCAAACAGAAGATTATGTCTGTCATTCGGGAGTGGGGCAGTGGCAGCGACACGCTACGGTGCCTGGCTCTGGCCACTCATGACAACCCACTGAAGAGAGAGGAGATGCACCTGGAAGACTCTGCTAACTTCATCAAATACGAGACCAACCTGACTTTCGTCGGCTGTGTGGGCATGCTGGATCCTCCCAGGATTGAAGTAGCCTCTTCTGTGAAGCTGTGCCGGCAAGCAGGCATCCGGGTCATCATGATCACTGGAGACAACAAAGGCACCGCTGTGGCCATCTGTCGCCGCATTGGCATCTTTGGGCAGGATGAGGATGTGACATCAAAGGCTTTTACAGGGCGAGAGTTTGATGAATTAAGCCCTTCAGCCCAGAGAGATGCCTGCTTAAATGCCCGCTGTTTTGCTCGAGTTGAACCTTCCCACAAGTCTAAGATTGTTGAGTTCCTTCAGTCCTTTGATGAGATCACAGCTATGGCAAAGGGTGTGTATGAGAAAGTTGGAGAAGCTACCGAGACTGCTCTCACGTGCCTGGTGGAGAAGATGAATGTATTTGATACTGAGCTGAAGGGGCTTTCTAAAATAGAGCGTGCAAACGCCTGCAACTCGGTCATAAAGCAGCTGATGAAGAAGGAGTTCACTCTGGAGTTTTCACGGGATAGAAAATCAATGTCCGTCTATTGTACCCCAAACAAGCCAAGCCGGACATCCATGAGCAAGATGTTTGTGAAGGGGGCTCCAGAAGGTGTCATCGATAGGTGCACCCACATCCGAGTTGGAAGTACCAAGGTCCCCATGACTCCTGGTGTCAAACAGAAGATTATGTCTGTCATTCGGGAGTGGGGCAGTGGCAGCGACACGCTACGGTGCCTGGCTCTGGCCACTCATGACAACCCACTGAAGAGAGAGGAGATGCACCTGGAAGACTCTGCTAACTTCATCAAATACGAGACCAACCTGACTTTCGTCGGCTGTGTGGGCATGCTGGATCCTCCCAGGATTGAAGTAGCCTCTTCTGTGAAGCTGTGCCGGCAAGCAGGCATCCGGGTCATCATGATCACTGGAGACAACAAAGGCACCGCTGTGGCCATCTGTCGCCGCATTGGCATCTTTGGGCAGGATGAGGATGTGACATCAAAGGCTTTTACAGGGCGAGAGTTTGATGAATTAAGCCCTTCAGCCCAGAGAGATGCCTGCTTAAATGCCCGCTGTTTTGCTCGAGTTGAACCTTCCCACAAGTCTAAGATTGTTGAGTTCCTTCAGTCCTTTGATGAGATCACAGCTATG
Peptide sequence:
MNVFDTELKGLSKIERANACNSVIKQLMKKEFTLEFSRDRKSMSVYCTPNKPSRTSMSKMFVKGAPEGVIDRCTHIRVGSTKVPMTPGVKQKIMSVIREWGSGSDTLRCLALATHDNPLKREEMHLEDSANFIKYETNLTFVGCVGMLDPPRIEVASSVKLCRQAGIRVIMITGDNKGTAVAICRRIGIFGQDEDVTSKAFTGREFDELSPSAQRDACLNARCFARVEPSHKSKIVEFLQSFDEITAMAKGVYEKVGEATETALTCLVEKMNVFDTELKGLSKIERANACNSVIKQLMKKEFTLEFSRDRKSMSVYCTPNKPSRTSMSKMFVKGAPEGVIDRCTHIRVGSTKVPMTPGVKQKIMSVIREWGSGSDTLRCLALATHDNPLKREEMHLEDSANFIKYETNLTFVGCVGMLDPPRIEVASSVKLCRQAGIRVIMITGDNKGTAVAICRRIGIFGQDEDVTSKAFTGREFDELSPSAQRDACLNARCFARVEPSHKSKIVEFLQSFDEITAM
IRESfinder result
IRESfinder score
0.343136594
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page