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mmu_circAkap6_490

Basic information of circular RNA
PanCircBase ID:

mmu_circAkap6_490

mm39_Chr. Position ID:

chr12|53072503|53119294|+

Gene name:

Akap6

Transcript:

ENSMUST00000095737.5

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

9,10,11

Exon/intron offsets:

0,43386,46569

Genomic length:

46791

Exon/intron sizes in nt:

121,147,222

Flanking exon/introns:

chr12:53057405-53072503|chr12:53119294-53151297

Splice length:

490

Other database IDs:

CIRCpedia: MMU_CIRCpedia_22497, circAtlas: mmu-Akap6_0010

circAtlas: hsa-AKAP6_0011

Human Ortholog IDs:
Mature spliced Sequence:

GCTTCTGGACTTTGATTCAGAATATCAGGAGCTCTGGGATTGGCTGATTGACATGGAGTCCCTTGTGATGGACAGCCACGACCTGATGATGTCAGAGGAGCAGCAGCAGCATCTTTACAAGCGCTACAGCGTGGAAATGTCCATCAGGCACCTGAAAAAGACAGAGCTACTTAGCAAGGTTGAAGCTTTGAAGAAAGGTGGCCTTTCACTACCAAATGATATCCTGGAAAAAGTGGATTCAATTAATGAAAAATGGGAGCTGCTTGGGAAAACCCTAAGAGAGAAGATACAGGACACAATGGCAGGCCACAGTGGGTCGGGCCCACGTGACCTGCTCTCTCCTGAAAGCGGAAGCCTGGTAAGGCAGCTGGAGGTCAGGATCAAAGAGCTGAAAAGGTGGCTAAGAGATACAGAGCTTTTCATCTTCAATTCCTGTCTGAGACAAGAGAAGGAAGGAACGAGCGCCGAGAAACAACTCCAATACTTTAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AGAGAAGGAAGGAACGAGCG

59.47

TGACATCATCAGGTCGTGGC

60.11

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AAGAGAAGGAAGGAACGAGCG

60.07

TGACATCATCAGGTCGTGGC

60.11

141

PCR template sequence:

GAAAAGGTGGCTAAGAGATACAGAGCTTTTCATCTTCAATTCCTGTCTGAGACAAGAGAAGGAAGGAACGAGCGCCGAGAAACAACTCCAATACTTTAAGGCTTCTGGACTTTGATTCAGAATATCAGGAGCTCTGGGATTGGCTGATTGACATGGAGTCCCTTGTGATGGACAGCCACGACCTGATGATGTCAGAGGAG

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

6

Interacting miRNAs (#binding sites)

mmu-miR-143-3p(1), mmu-miR-185-5p(1), mmu-miR-483-5p(1), mmu-miR-541-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1)

siRNAs for circular RNA silencing
Junction sequence

CCAATACTTTAAGGCTTCTGGACTTT

siRNA sets

AAAGTCCAGAAGCCTTAAA, AAGTCCAGAAGCCTTAAAG, AGTCCAGAAGCCTTAAAGT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCAKAP6_490_ORF_1

1.1516

0.219179171

0.738980956

453

ORF sequence:

ATGGAGTCCCTTGTGATGGACAGCCACGACCTGATGATGTCAGAGGAGCAGCAGCAGCATCTTTACAAGCGCTACAGCGTGGAAATGTCCATCAGGCACCTGAAAAAGACAGAGCTACTTAGCAAGGTTGAAGCTTTGAAGAAAGGTGGCCTTTCACTACCAAATGATATCCTGGAAAAAGTGGATTCAATTAATGAAAAATGGGAGCTGCTTGGGAAAACCCTAAGAGAGAAGATACAGGACACAATGGCAGGCCACAGTGGGTCGGGCCCACGTGACCTGCTCTCTCCTGAAAGCGGAAGCCTGGTAAGGCAGCTGGAGGTCAGGATCAAAGAGCTGAAAAGGTGGCTAAGAGATACAGAGCTTTTCATCTTCAATTCCTGTCTGAGACAAGAGAAGGAAGGAACGAGCGCCGAGAAACAACTCCAATACTTTAAGGCTTCTGGACTTTGA

Peptide sequence:

MESLVMDSHDLMMSEEQQQHLYKRYSVEMSIRHLKKTELLSKVEALKKGGLSLPNDILEKVDSINEKWELLGKTLREKIQDTMAGHSGSGPRDLLSPESGSLVRQLEVRIKELKRWLRDTELFIFNSCLRQEKEGTSAEKQLQYFKASGL

IRESfinder result

IRESfinder score

0.476456176

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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