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mmu_circAkap9_587
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap9_587
mm39_Chr. Position ID:
chr5|4022755|4042138|+
Gene name:
Akap9
Transcript:
ENSMUST00000044492.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
11,12,13,14,15
Exon/intron offsets:
0,2843,3372,8362,19290
Genomic length:
19383
Exon/intron sizes in nt:
86,112,199,97,93
Flanking exon/introns:
chr5:4022037-4022755|chr5:4042138-4051404
Splice length:
587
Other database IDs:
circAtlas: mmu-Akap9_0093
Human Ortholog IDs:
Mature spliced Sequence:
ACTTTCAAGAGAGCATGCAAGTCCTTCTTGGTAAAGTGACGGAAGAATGCCGCAAACTCTCAGGACTGCAGACGCGCTTAGGCAAGATCCATGAACAACAGACAGATGGTGTGGCACTAGAGTTTGCTGAACAAAATGCGGCAGAAGAGGAAGCAGGTCTTCTGTCAGGTTGTTCTCAGAGTGCTTTACAGAGCACAGATGTCAGTCTTGAGAGCAAGGTGTCTTCTCTGCCTGCGAGTGAGAAAAGCAGAGAATGTGAGAGGCAAGTCCAAGAGTTACAGAGCCCTGTGGCTGCCGGACAGCTGCAGCTCACGGAAACCGAAGCAAACCACAGAGCAGAAACTGAGTCTTTGCAGCAGAGACTTGAGGCTGTCAGTGAGGCTCCGGTTCAGCCAAGCTTGTCCATTGATTCTGTGGTGTTTAAAGGATCTGGTGCCCAGAAACCAGTGTACTGTGGAAGCTGTCTAAGAGAGTGTGTGGATGGCACAGCAAAGTTTTCTGATAGATTCGAAGTGAGGCAAGAAACAAATATGGTTAACTTGATGGAAAAACAGTATCAAGAACGACTGGAAGAAGAAATAGCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGAAGTGAGGCAAGAAACA
57.39
TCCTGAGAGTTTGCGGCATT
59.96
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGAAGTGAGGCAAGAAACAA
58.09
TCCTGAGAGTTTGCGGCATT
59.96
145
PCR template sequence:
AGCAAAGTTTTCTGATAGATTCGAAGTGAGGCAAGAAACAAATATGGTTAACTTGATGGAAAAACAGTATCAAGAACGACTGGAAGAAGAAATAGCTAAGACTTTCAAGAGAGCATGCAAGTCCTTCTTGGTAAAGTGACGGAAGAATGCCGCAAACTCTCAGGACTGCAGACGCGCTTAGGCAAGATCCATGAACAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-101a-3p(1), mmu-miR-139-5p(1), mmu-miR-128-3p(1), mmu-miR-452-3p(1), mmu-miR-3470b(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAATAGCTAAGACTTTCAAGAGAG
siRNA sets
TCTCTTGAAAGTCTTAGCT, CTCTCTTGAAAGTCTTAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP9_587_ORF_1
0.9024
0.151834876
0.809190569
612
ORF sequence:
ATGCAAGTCCTTCTTGGTAAAGTGACGGAAGAATGCCGCAAACTCTCAGGACTGCAGACGCGCTTAGGCAAGATCCATGAACAACAGACAGATGGTGTGGCACTAGAGTTTGCTGAACAAAATGCGGCAGAAGAGGAAGCAGGTCTTCTGTCAGGTTGTTCTCAGAGTGCTTTACAGAGCACAGATGTCAGTCTTGAGAGCAAGGTGTCTTCTCTGCCTGCGAGTGAGAAAAGCAGAGAATGTGAGAGGCAAGTCCAAGAGTTACAGAGCCCTGTGGCTGCCGGACAGCTGCAGCTCACGGAAACCGAAGCAAACCACAGAGCAGAAACTGAGTCTTTGCAGCAGAGACTTGAGGCTGTCAGTGAGGCTCCGGTTCAGCCAAGCTTGTCCATTGATTCTGTGGTGTTTAAAGGATCTGGTGCCCAGAAACCAGTGTACTGTGGAAGCTGTCTAAGAGAGTGTGTGGATGGCACAGCAAAGTTTTCTGATAGATTCGAAGTGAGGCAAGAAACAAATATGGTTAACTTGATGGAAAAACAGTATCAAGAACGACTGGAAGAAGAAATAGCTAAGACTTTCAAGAGAGCATGCAAGTCCTTCTTGGTAAAGTGA
Peptide sequence:
MQVLLGKVTEECRKLSGLQTRLGKIHEQQTDGVALEFAEQNAAEEEAGLLSGCSQSALQSTDVSLESKVSSLPASEKSRECERQVQELQSPVAAGQLQLTETEANHRAETESLQQRLEAVSEAPVQPSLSIDSVVFKGSGAQKPVYCGSCLRECVDGTAKFSDRFEVRQETNMVNLMEKQYQERLEEEIAKTFKRACKSFLVK
IRESfinder result
IRESfinder score
0.456103403
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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