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mmu_circArl15_356
Basic information of circular RNA
PanCircBase ID:
mmu_circArl15_356
mm39_Chr. Position ID:
chr13|114037538|114070659|+
Gene name:
Arl15
Transcript:
ENSMUST00000224858.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,21244,33061
Genomic length:
33121
Exon/intron sizes in nt:
151,145,60
Flanking exon/introns:
chr13:113931232-114037538|chr13:114070659-114104117
Splice length:
356
Other database IDs:
circAtlas: mmu-Arl15_0006
Human Ortholog IDs:
Mature spliced Sequence:
GTCACTTTTTTAAATTGGTGTGACAATAGAGAGTTTCTTTTTTTTCCATTTTGGTGGCTGGAGAATTTTCACCCAGCTGAAAACCATCAACCATTTAGACTCCATGCTTCATTTGAATTGTGATTCTGGACGCAAGTCAAGGATGACAACTTGTTTTCGAGCGCTTTGCTGCAAGGGACCACCACCTGCGCGCCCTGAATATGACTTGGTTTGCATAGGTCTCACGGGCTCCGGGAAAACCAGCCTGCTGTCCGAGCTCTGCAGCGAAAGCCCGGAGAACGTTGTGTCGACCACAGGTTTTAGTATAAAGGCAGTGCCATTCCAGAATGCCGTTTTGAATGTAAAAGAACTTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAACGTTGTGTCGACCA
60.25
TCTCCAGCCACCAAAATGGA
59.22
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAACGTTGTGTCGACCA
60.25
TGATGGTTTTCAGCTGGGTGA
59.86
172
PCR template sequence:
CTCTGCAGCGAAAGCCCGGAGAACGTTGTGTCGACCACAGGTTTTAGTATAAAGGCAGTGCCATTCCAGAATGCCGTTTTGAATGTAAAAGAACTTGGAGGTCACTTTTTTAAATTGGTGTGACAATAGAGAGTTTCTTTTTTTTCCATTTTGGTGGCTGGAGAATTTTCACCCAGCTGAAAACCATCAACCATTTAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-382-5p(1), mmu-miR-183-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGAACTTGGAGGTCACTTTTTTAA
siRNA sets
AAAGTGACCTCCAAGTTCT, AAAAAAGTGACCTCCAAGT, TAAAAAAGTGACCTCCAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARL15_356_ORF_1
0.4054
-0.049056922
0.062107481
276
ORF sequence:
ATGCTTCATTTGAATTGTGATTCTGGACGCAAGTCAAGGATGACAACTTGTTTTCGAGCGCTTTGCTGCAAGGGACCACCACCTGCGCGCCCTGAATATGACTTGGTTTGCATAGGTCTCACGGGCTCCGGGAAAACCAGCCTGCTGTCCGAGCTCTGCAGCGAAAGCCCGGAGAACGTTGTGTCGACCACAGGTTTTAGTATAAAGGCAGTGCCATTCCAGAATGCCGTTTTGAATGTAAAAGAACTTGGAGGTCACTTTTTTAAATTGGTGTGA
Peptide sequence:
MLHLNCDSGRKSRMTTCFRALCCKGPPPARPEYDLVCIGLTGSGKTSLLSELCSESPENVVSTTGFSIKAVPFQNAVLNVKELGGHFFKLV
IRESfinder result
IRESfinder score
0.627188065
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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