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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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