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mmu_circAp2b1_217

Basic information of circular RNA
PanCircBase ID:

mmu_circAp2b1_217

mm39_Chr. Position ID:

chr11|83227167|83227687|+

Gene name:

Ap2b1

Transcript:

ENSMUST00000018875.13

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

2

Exon/intron indexes:

8,9

Exon/intron offsets:

0,424

Genomic length:

520

Exon/intron sizes in nt:

121,96

Flanking exon/introns:

chr11:83226428-83227167|chr11:83227687-83230138

Splice length:

217

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GCCTGAAATCTTGAAGCAGGAAATCAAGGTCTTCTTTGTGAAGTACAATGATCCTATCTATGTTAAACTAGAGAAGTTAGACATCATGATTCGTCTTGCATCCCAAGCCAACATTGCTCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CAAAGCTGTGAGGGCCATTG

59.75

TGCAAGACGAATCATGATGTCT

58.13

143

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TTGTTCGCAAAGCTGTGAGG

59.34

TGCAAGACGAATCATGATGTCT

58.13

150

PCR template sequence:

TCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAGGCCTGAAATCTTGAAGCAGGAAATCAAGGTCTTCTTTGTGAAGTACAATGATCCTATCTATGTTAAACTAGAGAAGTTAGACATCATGATTCGTCTTGCA

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

4

Interacting miRNAs (#binding sites)

mmu-miR-7b-5p(1), mmu-miR-328-3p(1), mmu-miR-433-3p(1), mmu-miR-673-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CATCAAAGTGGAGGCCTGAAATCTTG

siRNA sets

AAGATTTCAGGCCTCCACT, ATTTCAGGCCTCCACTTTG, TTTCAGGCCTCCACTTTGA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCAP2B1_217_ORF_1

1.0883

0.403738888

0.358275877

138

ORF sequence:

ATGATTCGTCTTGCATCCCAAGCCAACATTGCTCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAGGCCTGA

Peptide sequence:

MIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEA

IRESfinder result

IRESfinder score

0.427991383

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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