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mmu_circActn1_623
Basic information of circular RNA
PanCircBase ID:
mmu_circActn1_623
mm39_Chr. Position ID:
chr12|80225075|80231673|-
Gene name:
Actn1
Transcript:
ENSMUST00000021554.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,11,10,9
Exon/intron offsets:
0,3059,5091,6505
Genomic length:
6598
Exon/intron sizes in nt:
151,148,231,93
Flanking exon/introns:
chr12:80224070-80225075|chr12:80231673-80239141
Splice length:
623
Other database IDs:
circAtlas: mmu-Actn1_0010
Human Ortholog IDs:
Mature spliced Sequence:
GCAGAAACAGCAGCCAATCGCATCTGCAAAGTGTTGGCGGTCAATCAAGAGAACGAGCAGCTTATGGAAGACTATGAGAAGCTGGCCAGTGATCTGTTGGAGTGGATCCGCCGCACCATCCCATGGCTGGAGAATCGGGTGCCTGAGAACACCATGCATGCCATGCAGCAGAAGCTGGAGGACTTCCGAGACTATAGACGCCTGCACAAGCCGCCCAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTTAACACGCTGCAGACCAAGCTGCGGCTCAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCGGATATCAACAATGCCTGGGGCTGCCTGGAACAGGCCGAGAAGGGCTACGAGGAGTGGCTGCTGAATGAGATCCGGAGGCTAGAGAGGTTGGACCACCTGGCAGAGAAGTTCCGGCAGAAGGCCTCCATCCATGAAGCCTGGACGGATGGCAAAGAAGCCATGCTTCGGCAGAAGGATTATGAGACAGCCACCCTGTCCGAGATCAAGGCCTTGCTCAAGAAGCACGAGGCTTTTGAGAGTGATCTGGCTGCCCACCAGGACCGCGTGGAGCAGATTGCGGCCATTGCCCAGGAGCTTAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGAGTGATCTGGCTGCC
59.75
GATCACTGGCCAGCTTCTCA
59.75
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGAGTGATCTGGCTGCC
59.75
CAGATCACTGGCCAGCTTCT
59.75
163
PCR template sequence:
AGATCAAGGCCTTGCTCAAGAAGCACGAGGCTTTTGAGAGTGATCTGGCTGCCCACCAGGACCGCGTGGAGCAGATTGCGGCCATTGCCCAGGAGCTTAAGCAGAAACAGCAGCCAATCGCATCTGCAAAGTGTTGGCGGTCAATCAAGAGAACGAGCAGCTTATGGAAGACTATGAGAAGCTGGCCAGTGATCTGTTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-328-3p(1), mmu-miR-207(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCAGGAGCTTAAGCAGAAACAGCAG
siRNA sets
GTTTCTGCTTAAGCTCCTG, CTGTTTCTGCTTAAGCTCC, TTTCTGCTTAAGCTCCTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACTN1_623_ORF_1
0.9377
0.343191561
0.991126531
948
ORF sequence:
ATGGAAGACTATGAGAAGCTGGCCAGTGATCTGTTGGAGTGGATCCGCCGCACCATCCCATGGCTGGAGAATCGGGTGCCTGAGAACACCATGCATGCCATGCAGCAGAAGCTGGAGGACTTCCGAGACTATAGACGCCTGCACAAGCCGCCCAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTTAACACGCTGCAGACCAAGCTGCGGCTCAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCGGATATCAACAATGCCTGGGGCTGCCTGGAACAGGCCGAGAAGGGCTACGAGGAGTGGCTGCTGAATGAGATCCGGAGGCTAGAGAGGTTGGACCACCTGGCAGAGAAGTTCCGGCAGAAGGCCTCCATCCATGAAGCCTGGACGGATGGCAAAGAAGCCATGCTTCGGCAGAAGGATTATGAGACAGCCACCCTGTCCGAGATCAAGGCCTTGCTCAAGAAGCACGAGGCTTTTGAGAGTGATCTGGCTGCCCACCAGGACCGCGTGGAGCAGATTGCGGCCATTGCCCAGGAGCTTAAGCAGAAACAGCAGCCAATCGCATCTGCAAAGTGTTGGCGGTCAATCAAGAGAACGAGCAGCTTATGGAAGACTATGAGAAGCTGGCCAGTGATCTGTTGGAGTGGATCCGCCGCACCATCCCATGGCTGGAGAATCGGGTGCCTGAGAACACCATGCATGCCATGCAGCAGAAGCTGGAGGACTTCCGAGACTATAGACGCCTGCACAAGCCGCCCAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTTAACACGCTGCAGACCAAGCTGCGGCTCAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCGGATATCAACAATGCCTGGGGCTGCCTGGAACAGGCCGAGAAGGGCTACGAGGAGTGGCTGCTGA
Peptide sequence:
MEDYEKLASDLLEWIRRTIPWLENRVPENTMHAMQQKLEDFRDYRRLHKPPKVQEKCQLEINFNTLQTKLRLSNRPAFMPSEGRMVSDINNAWGCLEQAEKGYEEWLLNEIRRLERLDHLAEKFRQKASIHEAWTDGKEAMLRQKDYETATLSEIKALLKKHEAFESDLAAHQDRVEQIAAIAQELKQKQQPIASAKCWRSIKRTSSLWKTMRSWPVICWSGSAAPSHGWRIGCLRTPCMPCSRSWRTSETIDACTSRPRCRRSASWRSTLTRCRPSCGSATGLPSCPPRAGWSRISTMPGAAWNRPRRATRSGC
IRESfinder result
IRESfinder score
0.142397293
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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