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mmu_circAp3b1_850

Basic information of circular RNA
PanCircBase ID:

mmu_circAp3b1_850

mm39_Chr. Position ID:

chr13|94608183|94630249|+

Gene name:

Ap3b1

Transcript:

ENSMUST00000022196.5

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

6

Exon/intron indexes:

16,17,18,19,20,21

Exon/intron offsets:

0,1123,5290,8051,11537,21993

Genomic length:

22066

Exon/intron sizes in nt:

187,131,163,148,148,73

Flanking exon/introns:

chr13:94599080-94608183|chr13:94630249-94638425

Splice length:

850

Other database IDs:

circAtlas: mmu-Ap3b1_0005

Human Ortholog IDs:
Mature spliced Sequence:

ACAAAATTGCTTACCCAGTACATATTAAATCTCGGCAAGTATGATCAAAACTACGACATCAGAGACCGCACACGATTTATTAGGCAGCTTATTGTTCCGAACGAGAAGAGTGGAGCCTTAAGTAAATATGCCAAAAAAATCTTCCTAGCACCGAAGCCTGCGCCACTGCTCGAGTCTCCCTTTAAAGATAGGGATCGCTTCCAGCTTGGCACCTTATCTCATACTCTCAACATTAAAGCGTCCGGGTACCTGGAATTATCTAATTGGCCAGAGGTGGCGCCTGACCCATCGGTTCGCAATGTAGAAGTAATAGAGTCAGCAAAAGAATGGACCCCACTTGGGAAAACAAAGAAAGAAAAACCCATGAAGAAATTTTACTCTGAATCTGAGGAGGAGGAGGACGAGGACGAGGATGAGGACGAGGAGGAGGAAGAAAAGGAAGATGAGGATGAGAACCCCTCTGATAGCAGCAGTGACAGTGAGAGCGGGTCCGGAAGTGAGAGTGGAGACACAGGCACCGAGGACAGCAGTGAGGACTCGTCCAGTGGACAAGACAGCGAGACCGGAAGCCAGGCAGAAGCGGAACGCCAGAAGGTGGCCAAGAGGAACTCCAAAACCAAGAGGAAAAGTGATTCAGAAAATAGGGAGAAGAAAAATGAAAACTCAAAAGCTTCTGAATCGTCCAGTGAGGAGTCCAGTTCCATGGAAGACAGTTCTTCCGAGTCAGAGTCAGAGTCAGGCTCTGACAGTGAGCCTGCGCCCAGAAACGTGGCTCCGGCAAAAGAAAGAAAACCCCAGCAAGAAAGACATCCTCCCTCCAAAGATGTTTTCCTTCTAGATCTGGACGACT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GTGGCTCCGGCAAAAGAAAG

60.04

ATCGTGTGCGGTCTCTGATG

60.18

158

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GTGGCTCCGGCAAAAGAAAG

60.04

AAATCGTGTGCGGTCTCTGA

59.68

160

PCR template sequence:

GAGCCTGCGCCCAGAAACGTGGCTCCGGCAAAAGAAAGAAAACCCCAGCAAGAAAGACATCCTCCCTCCAAAGATGTTTTCCTTCTAGATCTGGACGACTACAAAATTGCTTACCCAGTACATATTAAATCTCGGCAAGTATGATCAAAACTACGACATCAGAGACCGCACACGATTTATTAGGCAGCTTATTGTTCCGA

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-146a-5p(1), mmu-miR-136-5p(1), mmu-miR-22-3p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-146b-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GATCTGGACGACTACAAAATTGCTTA

siRNA sets

TAAGCAATTTTGTAGTCGT, AAGCAATTTTGTAGTCGTC, AATTTTGTAGTCGTCCAGA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCAP3B1_850_ORF_1

1.213

0.440432335

0.931215566

531

ORF sequence:

ATGAAGAAATTTTACTCTGAATCTGAGGAGGAGGAGGACGAGGACGAGGATGAGGACGAGGAGGAGGAAGAAAAGGAAGATGAGGATGAGAACCCCTCTGATAGCAGCAGTGACAGTGAGAGCGGGTCCGGAAGTGAGAGTGGAGACACAGGCACCGAGGACAGCAGTGAGGACTCGTCCAGTGGACAAGACAGCGAGACCGGAAGCCAGGCAGAAGCGGAACGCCAGAAGGTGGCCAAGAGGAACTCCAAAACCAAGAGGAAAAGTGATTCAGAAAATAGGGAGAAGAAAAATGAAAACTCAAAAGCTTCTGAATCGTCCAGTGAGGAGTCCAGTTCCATGGAAGACAGTTCTTCCGAGTCAGAGTCAGAGTCAGGCTCTGACAGTGAGCCTGCGCCCAGAAACGTGGCTCCGGCAAAAGAAAGAAAACCCCAGCAAGAAAGACATCCTCCCTCCAAAGATGTTTTCCTTCTAGATCTGGACGACTACAAAATTGCTTACCCAGTACATATTAAATCTCGGCAAGTATGA

Peptide sequence:

MKKFYSESEEEEDEDEDEDEEEEEKEDEDENPSDSSSDSESGSGSESGDTGTEDSSEDSSSGQDSETGSQAEAERQKVAKRNSKTKRKSDSENREKKNENSKASESSSEESSSMEDSSSESESESGSDSEPAPRNVAPAKERKPQQERHPPSKDVFLLDLDDYKIAYPVHIKSRQV

IRESfinder result

IRESfinder score

0.41112266

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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