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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

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