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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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