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mmu_ciAkap8_399
Basic information of circular RNA
PanCircBase ID:
mmu_ciAkap8_399
mm39_Chr. Position ID:
chr17|32535641|32536040|-
Gene name:
Akap8
Transcript:
ENSMUST00000002699.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
399
Exon/intron sizes in nt:
399
Flanking exon/introns:
chr17:32535641-32536040
Splice length:
399
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGATTATGGCCTTCAACCTTTGCTCATGGAATCCCTTTCTGGAATCACGGGAGTGGGTACCAGCTCTTTTAGAAAGCCCTCTTTCCTGTTCCTCCTTTAGGCTGGAGTTGGACCCTGTGGGGTGGGCTTCACTGAAGGTTTCCTAAACTGCTGGCCAATGAGCCTAAGATTCTTTGTTCTGGCAAGGGCTTCATGCTCTTTCTTTGTTAGCAGTGTTTGAATGAGTGTTCTTAGGCTAGTTTGCCTTCTGGGCATTTAGGTAGATACTGACTGGGTGGGTTGGTTTCTTGTTCTGAATGTAAGAGGTCCAACTTAGTGTAAAGTTAGGCTGAGGGCAGATTATTGGGTAGCCTGGATGGCTTAGGCTGCTCCTAATGGGCTGTATACTTCCTTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGATGGCTTAGGCTGCTC
60.53
GGAGGAACAGGAAAGAGGGC
60.03
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGCTTAGGCTGCTCCTA
58.95
GGAGGAACAGGAAAGAGGGC
60.03
140
PCR template sequence:
GTAAGAGGTCCAACTTAGTGTAAAGTTAGGCTGAGGGCAGATTATTGGGTAGCCTGGATGGCTTAGGCTGCTCCTAATGGGCTGTATACTTCCTTTGCAGGTGATTATGGCCTTCAACCTTTGCTCATGGAATCCCTTTCTGGAATCACGGGAGTGGGTACCAGCTCTTTTAGAAAGCCCTCTTTCCTGTTCCTCCTTTA
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-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTCCTTTGCAGGTGATTATGGCCT
siRNA sets
CCATAATCACCTGCAAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIAKAP8_399_ORF_1
0.6366
-0.132068436
0.032801927
171
ORF sequence:
ATGGGCTGTATACTTCCTTTGCAGGTGATTATGGCCTTCAACCTTTGCTCATGGAATCCCTTTCTGGAATCACGGGAGTGGGTACCAGCTCTTTTAGAAAGCCCTCTTTCCTGTTCCTCCTTTAGGCTGGAGTTGGACCCTGTGGGGTGGGCTTCACTGAAGGTTTCCTAA
Peptide sequence:
MGCILPLQVIMAFNLCSWNPFLESREWVPALLESPLSCSSFRLELDPVGWASLKVS
IRESfinder result
IRESfinder score
0.816350729
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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