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mmu_circAkap9_376
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap9_376
mm39_Chr. Position ID:
chr5|4078373|4080052|+
Gene name:
Akap9
Transcript:
ENSMUST00000044492.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
22,23
Exon/intron offsets:
0,1466
Genomic length:
1679
Exon/intron sizes in nt:
163,213
Flanking exon/introns:
chr5:4064079-4078373|chr5:4080052-4082680
Splice length:
376
Other database IDs:
circAtlas: hsa-AKAP9_0063, CIRCpedia: HSA_CIRCpedia_132779
Human Ortholog IDs:
Mature spliced Sequence:
CTTGAACATGCGAAAGTTACACAGACAGAGTTGATGCGTGAGTCCTTTAGACAAAAACAAGAGGCAACAGAGTCACTTCATTGCCTGGAAGAACTGCGAGAGCGCCTTCAGGAGGAGTCCAGGGCCAGGGAGCAGCTGGCCGAGGAGCTCAATAAAGCTGAGAGTGTCATTGATGGGTACTCGGATGAAAAAACTCTCTTTGAAAGGCAAATTCAAGAAAAAACCGATATTATAGAGCATCTTGAGCAGGAGGTGTTATGTATGAACAACAGACTGCAGGAGCTAGAGTCAGACCAACGCCGGGTGGAAGAGGAACGGCAGCTGCTGTGCAGGCAGAGGGAGGCGATGAGAGCAGAGGCTGGCCCCGTGGAGCAGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTAGAGTCAGACCAACGCCG
60.18
AGGACTCACGCATCAACTCTG
60.07
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGGAAGAGGAACGGCAG
60.38
TCGCAGTTCTTCCAGGCAAT
59.96
173
PCR template sequence:
CAGGAGCTAGAGTCAGACCAACGCCGGGTGGAAGAGGAACGGCAGCTGCTGTGCAGGCAGAGGGAGGCGATGAGAGCAGAGGCTGGCCCCGTGGAGCAGCCTTGAACATGCGAAAGTTACACAGACAGAGTTGATGCGTGAGTCCTTTAGACAAAAACAAGAGGCAACAGAGTCACTTCATTGCCTGGAAGAACTGCGAG
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-425-5p(1), mmu-miR-325-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCGTGGAGCAGCCTTGAACATGCGA
siRNA sets
ATGTTCAAGGCTGCTCCAC, GTTCAAGGCTGCTCCACGG, TGTTCAAGGCTGCTCCACG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP9_376_ORF_1
1.2483
0.322462482
0.708973174
348
ORF sequence:
ATGCGTGAGTCCTTTAGACAAAAACAAGAGGCAACAGAGTCACTTCATTGCCTGGAAGAACTGCGAGAGCGCCTTCAGGAGGAGTCCAGGGCCAGGGAGCAGCTGGCCGAGGAGCTCAATAAAGCTGAGAGTGTCATTGATGGGTACTCGGATGAAAAAACTCTCTTTGAAAGGCAAATTCAAGAAAAAACCGATATTATAGAGCATCTTGAGCAGGAGGTGTTATGTATGAACAACAGACTGCAGGAGCTAGAGTCAGACCAACGCCGGGTGGAAGAGGAACGGCAGCTGCTGTGCAGGCAGAGGGAGGCGATGAGAGCAGAGGCTGGCCCCGTGGAGCAGCCTTGA
Peptide sequence:
MRESFRQKQEATESLHCLEELRERLQEESRAREQLAEELNKAESVIDGYSDEKTLFERQIQEKTDIIEHLEQEVLCMNNRLQELESDQRRVEEERQLLCRQREAMRAEAGPVEQP
IRESfinder result
IRESfinder score
0.384644326
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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