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mmu_circAkap8l_454
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap8l_454
mm39_Chr. Position ID:
chr17|32555258|32555712|-
Gene name:
Akap8l
Transcript:
ENSMUST00000236039.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
454
Exon/intron sizes in nt:
454
Flanking exon/introns:
chr17:32555177-32555258|chr17:32555712-32557244
Splice length:
454
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATATGACTCCTATGAGGCCTGTGACTCAAGGGCCATCCTGAGTGAACGAGACCTCTACCGGTCAAGCTATGACTATGGCGAGCTTGACCCTGAGATGGAAATGGCCTATGAGGGCCAATATGATGCCTACCGTGACCAGTTTCGAATGCGTGGAGGAGATACATTTGGTCCAAGGGCTCAGGGCTGGGCCCGGGATGCCCGGAGTGGACGGCCAATGGCCTCGGGCTATGGGCGCATGTGGGAAGATCCCATGGGGGCCCGGGGCCAGTGCATGCCTGGTGCCTCCCGGCTGCCCTCCCTCTTCTCCCAGAACATCATACCCGAGTATGGCATGTTCCAGGGCATGCGTGGTGGGGGTGCCTTCTCTGGTGGCTCCCGATTTGGCTTTGGATTTGGCAATGGCATGAAGCAGATGAGGCGTACCTGGAAGACCTGGACCACAGCCGACTTCCGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGCAGATGAGGCGTACC
59.82
CCATCTCAGGGTCAAGCTCG
60.18
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGCAGATGAGGCGTACC
59.82
GGGTCAAGCTCGCCATAGTC
60.53
140
PCR template sequence:
GGGTGCCTTCTCTGGTGGCTCCCGATTTGGCTTTGGATTTGGCAATGGCATGAAGCAGATGAGGCGTACCTGGAAGACCTGGACCACAGCCGACTTCCGGATATGACTCCTATGAGGCCTGTGACTCAAGGGCCATCCTGAGTGAACGAGACCTCTACCGGTCAAGCTATGACTATGGCGAGCTTGACCCTGAGATGGAA
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-328-3p(1), mmu-miR-125b-5p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCGACTTCCGGATATGACTCCTAT
siRNA sets
AGTCATATCCGGAAGTCGG, GAGTCATATCCGGAAGTCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP8L_454_ORF_1
0.5724
0.400886431
0.520062874
366
ORF sequence:
ATGGAAATGGCCTATGAGGGCCAATATGATGCCTACCGTGACCAGTTTCGAATGCGTGGAGGAGATACATTTGGTCCAAGGGCTCAGGGCTGGGCCCGGGATGCCCGGAGTGGACGGCCAATGGCCTCGGGCTATGGGCGCATGTGGGAAGATCCCATGGGGGCCCGGGGCCAGTGCATGCCTGGTGCCTCCCGGCTGCCCTCCCTCTTCTCCCAGAACATCATACCCGAGTATGGCATGTTCCAGGGCATGCGTGGTGGGGGTGCCTTCTCTGGTGGCTCCCGATTTGGCTTTGGATTTGGCAATGGCATGAAGCAGATGAGGCGTACCTGGAAGACCTGGACCACAGCCGACTTCCGGATATGA
Peptide sequence:
MEMAYEGQYDAYRDQFRMRGGDTFGPRAQGWARDARSGRPMASGYGRMWEDPMGARGQCMPGASRLPSLFSQNIIPEYGMFQGMRGGGAFSGGSRFGFGFGNGMKQMRRTWKTWTTADFRI
IRESfinder result
IRESfinder score
0.13679545
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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