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mmu_circApeh_394
Basic information of circular RNA
PanCircBase ID:
mmu_circApeh_394
mm39_Chr. Position ID:
chr9|107969286|107969916|-
Gene name:
Apeh
Transcript:
ENSMUST00000081309.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,188,466
Genomic length:
630
Exon/intron sizes in nt:
9,21,38,164
Flanking exon/introns:
chr9:107969210-107969286|chr9:107969916-107970005
Splice length:
394
Other database IDs:
circAtlas: mmu-Apeh_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACTGCTTTGGCTGCCTCTCCTGGTCACACTCAGAGACGCACTTGTTGTATGTGGCGGAGAAGAAGCGTCCCAAAGCTGAGTCCTTCTTTCAAACCAAAGCCTTGGACGTCAGTGCCAGTGATGAGGAGATGGCCAGGCCGAAGAAGCCAGACCAGGCCATCAAGGGGGACCAGTTTGTATTTTATGAAGACTGGGGAGAAACTATGGTTTCCAAAAGCATCCCTGTGCTCTGCGTGCTGGATATCGAGAGTGGTAACATCTCCGTGCTTGAGGGCGTCCCTGAAAATGTGTCCCCTGGTCAGGCTTTCTGGGCCCCTGGAGACACGGGTGTGGTGTTTGTGGGCTGGTGGCACGAACCCTTCCGGCTAGGTATCCGCTACTGCACCAATCGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACGGGTGTGGTGTTTGTG
59.57
AAGGACTCAGCTTTGGGACG
59.96
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTGGTGTTTGTGGGCTG
59.56
AAGGACTCAGCTTTGGGACG
59.96
152
PCR template sequence:
CTGGTCAGGCTTTCTGGGCCCCTGGAGACACGGGTGTGGTGTTTGTGGGCTGGTGGCACGAACCCTTCCGGCTAGGTATCCGCTACTGCACCAATCGCAGACTGCTTTGGCTGCCTCTCCTGGTCACACTCAGAGACGCACTTGTTGTATGTGGCGGAGAAGAAGCGTCCCAAAGCTGAGTCCTTCTTTCAAACCAAAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-574-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACCAATCGCAGACTGCTTTGGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPEH_394_ORF_1
1.0297
0.25197534
0.543188865
345
ORF sequence:
ATGGCCAGGCCGAAGAAGCCAGACCAGGCCATCAAGGGGGACCAGTTTGTATTTTATGAAGACTGGGGAGAAACTATGGTTTCCAAAAGCATCCCTGTGCTCTGCGTGCTGGATATCGAGAGTGGTAACATCTCCGTGCTTGAGGGCGTCCCTGAAAATGTGTCCCCTGGTCAGGCTTTCTGGGCCCCTGGAGACACGGGTGTGGTGTTTGTGGGCTGGTGGCACGAACCCTTCCGGCTAGGTATCCGCTACTGCACCAATCGCAGACTGCTTTGGCTGCCTCTCCTGGTCACACTCAGAGACGCACTTGTTGTATGTGGCGGAGAAGAAGCGTCCCAAAGCTGA
Peptide sequence:
MARPKKPDQAIKGDQFVFYEDWGETMVSKSIPVLCVLDIESGNISVLEGVPENVSPGQAFWAPGDTGVVFVGWWHEPFRLGIRYCTNRRLLWLPLLVTLRDALVVCGGEEASQS
IRESfinder result
IRESfinder score
0.481835526
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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