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mmu_circAkap13_587
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap13_587
mm39_Chr. Position ID:
chr7|75313159|75327227|+
Gene name:
Akap13
Transcript:
ENSMUST00000166315.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
9,10,11
Exon/intron offsets:
0,3100,13694
Genomic length:
14068
Exon/intron sizes in nt:
7,61,37,374
Flanking exon/introns:
chr7:75264796-75313159|chr7:75327227-75329567
Splice length:
587
Other database IDs:
CIRCpedia: MMU_CIRCpedia_29110, circAtlas: mmu-Akap13_0033
circAtlas: hsa-AKAP13_0055, CIRCpedia: HSA_CIRCpedia_15979
Human Ortholog IDs:
Mature spliced Sequence:
ATCAACCGAGAAAGCTGGTGTGCCATAGAGCCCTGCCCTGAAGCAGCATCTCTCTTAGCTTCCAAACAGAGCTCAGAATGCAGAAGCTTCATAGATGTTGGACTGGGCACGGAGTGTGCCTCAAAAGAAGGCATGCTCCAGAGAGTGTCAGGGAGTGAGTCTGACCTCTTTCACTCACCCAGTGATGAAATGGACAGCATCATCTTCCCAAAGCCTGAAGAAGAGCAGTTACTTTGTGATACAACAGGATCCAGTTCTTCCACAGATGACACAGCTTCCCTGGATCGACATTCTTCTCATGGCAGTGACGTGTCCCTTCCTCAGACTTCAAAGTTAAACAGATCCAGAAATCATCAAAGTGCCAATGGCTTTTTCAGCCCTGGAGTCGAGGCACCTGAGAGTCGAGAGAGTGAGAGTGAGCCTGCTGGCTCTGGTGAAATGGAAGAGGAGGAGATGGACAGCATCACTGAAGTGCCTGCCAACTGCTCTTTTCTGAGGAGCTCCATGCGTTCTCTTTCTCCTTTCCGGAGGCACAGCTGGGGACCTGGGAAGAACGCAGCCAGTGATGCAGAAATGAACCAGCGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTTTCTGAGGAGCTCCATGC
58.98
CTTCAGGGCAGGGCTCTATG
59.89
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTTCTGAGGAGCTCCATGC
57.88
CTTCAGGGCAGGGCTCTATG
59.89
142
PCR template sequence:
CTTTTCTGAGGAGCTCCATGCGTTCTCTTTCTCCTTTCCGGAGGCACAGCTGGGGACCTGGGAAGAACGCAGCCAGTGATGCAGAAATGAACCAGCGGAGATCAACCGAGAAAGCTGGTGTGCCATAGAGCCCTGCCCTGAAGCAGCATCTCTCTTAGCTTCCAAACAGAGCTCAGAATGCAGAAGCTTCATAGATGTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-434-5p(2), mmu-miR-7b-5p(1), mmu-miR-214-3p(1), mmu-miR-127-5p(1), mmu-miR-96-5p(1), mmu-miR-484(1), mmu-miR-350-3p(1), mmu-miR-540-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAACCAGCGGAGATCAACCGAGAAA
siRNA sets
TTTCTCGGTTGATCTCCGC,TTCTCGGTTGATCTCCGCT,TCTCGGTTGATCTCCGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP13_587_ORF_1
0.8901
0.228594685
0.69100268
483
ORF sequence:
ATGCTCCAGAGAGTGTCAGGGAGTGAGTCTGACCTCTTTCACTCACCCAGTGATGAAATGGACAGCATCATCTTCCCAAAGCCTGAAGAAGAGCAGTTACTTTGTGATACAACAGGATCCAGTTCTTCCACAGATGACACAGCTTCCCTGGATCGACATTCTTCTCATGGCAGTGACGTGTCCCTTCCTCAGACTTCAAAGTTAAACAGATCCAGAAATCATCAAAGTGCCAATGGCTTTTTCAGCCCTGGAGTCGAGGCACCTGAGAGTCGAGAGAGTGAGAGTGAGCCTGCTGGCTCTGGTGAAATGGAAGAGGAGGAGATGGACAGCATCACTGAAGTGCCTGCCAACTGCTCTTTTCTGAGGAGCTCCATGCGTTCTCTTTCTCCTTTCCGGAGGCACAGCTGGGGACCTGGGAAGAACGCAGCCAGTGATGCAGAAATGAACCAGCGGAGATCAACCGAGAAAGCTGGTGTGCCATAG
Peptide sequence:
MLQRVSGSESDLFHSPSDEMDSIIFPKPEEEQLLCDTTGSSSSTDDTASLDRHSSHGSDVSLPQTSKLNRSRNHQSANGFFSPGVEAPESRESESEPAGSGEMEEEEMDSITEVPANCSFLRSSMRSLSPFRRHSWGPGKNAASDAEMNQRRSTEKAGVP
IRESfinder result
IRESfinder score
0.60575201
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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