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mmu_circAp3b1_1567
Basic information of circular RNA
PanCircBase ID:
mmu_circAp3b1_1567
mm39_Chr. Position ID:
chr13|94582429|94638532|+
Gene name:
Ap3b1
Transcript:
ENSMUST00000022196.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
10,11,12,13,14,15,16,17,18,19,20,21,22
Exon/intron offsets:
0,144,2531,5031,9474,16474,25754,26877,31044,33805,37291,47747,55996
Genomic length:
56103
Exon/intron sizes in nt:
55,72,63,13,31,10,17,70,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr13:94580524-94582429|chr13:94638532-94664672
Splice length:
1567
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225745, circAtlas: mmu-Ap3b1_0061
circBase: hsa_circ_0073096, CIRCpedia: HSA_CIRCpedia_52689
Human Ortholog IDs:
Mature spliced Sequence:
GGAGGTGCAGTATATTGTATTGCAAAATATTGCAACTATGTCAATTGAGAGAAAGGGTATGTTTGAACCTTACCTGAAGAGTTTCTATGTCAGATCCACTGATCCAACTATGATCAAAACACTGAAGCTTGAAATTTTGACAAACTTGGCAAATGAAGCCAACATATCAACTCTTCTTCGAGAATTTCAGACCTACGTGAGAAGCCAGGACAAACAGTTTGCAGCAGCCACTATTCAGACCATAGGCAGATGTGCAACCAGCATTAGCGAGGTCACCGACACATGCCTCAACGGCCTGGTCTGCCTGCTGTCCAACAGGGATGAAATAGTTGTTGCTGAGAGTGTGGTTGTTATAAAGAAATTGTTGCAAATGCAGCCTGCACAGCATGGTGAAATTATCAGACATATGGCCAAGCTCTTGGACAGTATCACTGTTCCTGTGGCTAGAGCAAGCATCCTTTGGCTAATTGGAGAAAACTGTGAACGAGTTCCTAAAATTGCTCCTGATGTTTTGAGGAAAATGGCTAAAAGTTTCACTAGTGAAGATGATCTCGTGAAACTGCAGATTTTAAATCTTGCAGCAAAATTGTATTTAACTAATTCCAAACAGACAAAATTGCTTACCCAGTACATATTAAATCTCGGCAAGTATGATCAAAACTACGACATCAGAGACCGCACACGATTTATTAGGCAGCTTATTGTTCCGAACGAGAAGAGTGGAGCCTTAAGTAAATATGCCAAAAAAATCTTCCTAGCACCGAAGCCTGCGCCACTGCTCGAGTCTCCCTTTAAAGATAGGGATCGCTTCCAGCTTGGCACCTTATCTCATACTCTCAACATTAAAGCGTCCGGGTACCTGGAATTATCTAATTGGCCAGAGGTGGCGCCTGACCCATCGGTTCGCAATGTAGAAGTAATAGAGTCAGCAAAAGAATGGACCCCACTTGGGAAAACAAAGAAAGAAAAACCCATGAAGAAATTTTACTCTGAATCTGAGGAGGAGGAGGACGAGGACGAGGATGAGGACGAGGAGGAGGAAGAAAAGGAAGATGAGGATGAGAACCCCTCTGATAGCAGCAGTGACAGTGAGAGCGGGTCCGGAAGTGAGAGTGGAGACACAGGCACCGAGGACAGCAGTGAGGACTCGTCCAGTGGACAAGACAGCGAGACCGGAAGCCAGGCAGAAGCGGAACGCCAGAAGGTGGCCAAGAGGAACTCCAAAACCAAGAGGAAAAGTGATTCAGAAAATAGGGAGAAGAAAAATGAAAACTCAAAAGCTTCTGAATCGTCCAGTGAGGAGTCCAGTTCCATGGAAGACAGTTCTTCCGAGTCAGAGTCAGAGTCAGGCTCTGACAGTGAGCCTGCGCCCAGAAACGTGGCTCCGGCAAAAGAAAGAAAACCCCAGCAAGAAAGACATCCTCCCTCCAAAGATGTTTTCCTTCTAGATCTGGACGACTTTAACCCAGTATCCACCCCAGTTGCCCTTCCTACACCAGCCCTTTCTCCAAGCTTGATAGCTGATCTTGAAGGTCTAAACTTGTCAACTTCTTCATCAGTCATCAAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACCAGCCCTTTCTCCAAG
59.89
TCAGGTAAGGTTCAAACATACCCT
59.4
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCCCTTTCTCCAAGCTT
60.25
TCAGGTAAGGTTCAAACATACCCT
59.4
149
PCR template sequence:
AGTATCCACCCCAGTTGCCCTTCCTACACCAGCCCTTTCTCCAAGCTTGATAGCTGATCTTGAAGGTCTAAACTTGTCAACTTCTTCATCAGTCATCAACGGAGGTGCAGTATATTGTATTGCAAAATATTGCAACTATGTCAATTGAGAGAAAGGGTATGTTTGAACCTTACCTGAAGAGTTTCTATGTCAGATCCACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-146a-5p(1), mmu-miR-138-5p(1), mmu-miR-214-3p(1), mmu-miR-136-5p(1), mmu-miR-22-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-802-5p(1), mmu-miR-190b-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCAGTCATCAACGGAGGTGCAGTAT
siRNA sets
ATACTGCACCTCCGTTGAT,TACTGCACCTCCGTTGATG,ACTGCACCTCCGTTGATGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP3B1_1567_ORF_1
1.0035
0.20274671
0.999844096
1578
ORF sequence:
ATGTCAATTGAGAGAAAGGGTATGTTTGAACCTTACCTGAAGAGTTTCTATGTCAGATCCACTGATCCAACTATGATCAAAACACTGAAGCTTGAAATTTTGACAAACTTGGCAAATGAAGCCAACATATCAACTCTTCTTCGAGAATTTCAGACCTACGTGAGAAGCCAGGACAAACAGTTTGCAGCAGCCACTATTCAGACCATAGGCAGATGTGCAACCAGCATTAGCGAGGTCACCGACACATGCCTCAACGGCCTGGTCTGCCTGCTGTCCAACAGGGATGAAATAGTTGTTGCTGAGAGTGTGGTTGTTATAAAGAAATTGTTGCAAATGCAGCCTGCACAGCATGGTGAAATTATCAGACATATGGCCAAGCTCTTGGACAGTATCACTGTTCCTGTGGCTAGAGCAAGCATCCTTTGGCTAATTGGAGAAAACTGTGAACGAGTTCCTAAAATTGCTCCTGATGTTTTGAGGAAAATGGCTAAAAGTTTCACTAGTGAAGATGATCTCGTGAAACTGCAGATTTTAAATCTTGCAGCAAAATTGTATTTAACTAATTCCAAACAGACAAAATTGCTTACCCAGTACATATTAAATCTCGGCAAGTATGATCAAAACTACGACATCAGAGACCGCACACGATTTATTAGGCAGCTTATTGTTCCGAACGAGAAGAGTGGAGCCTTAAGTAAATATGCCAAAAAAATCTTCCTAGCACCGAAGCCTGCGCCACTGCTCGAGTCTCCCTTTAAAGATAGGGATCGCTTCCAGCTTGGCACCTTATCTCATACTCTCAACATTAAAGCGTCCGGGTACCTGGAATTATCTAATTGGCCAGAGGTGGCGCCTGACCCATCGGTTCGCAATGTAGAAGTAATAGAGTCAGCAAAAGAATGGACCCCACTTGGGAAAACAAAGAAAGAAAAACCCATGAAGAAATTTTACTCTGAATCTGAGGAGGAGGAGGACGAGGACGAGGATGAGGACGAGGAGGAGGAAGAAAAGGAAGATGAGGATGAGAACCCCTCTGATAGCAGCAGTGACAGTGAGAGCGGGTCCGGAAGTGAGAGTGGAGACACAGGCACCGAGGACAGCAGTGAGGACTCGTCCAGTGGACAAGACAGCGAGACCGGAAGCCAGGCAGAAGCGGAACGCCAGAAGGTGGCCAAGAGGAACTCCAAAACCAAGAGGAAAAGTGATTCAGAAAATAGGGAGAAGAAAAATGAAAACTCAAAAGCTTCTGAATCGTCCAGTGAGGAGTCCAGTTCCATGGAAGACAGTTCTTCCGAGTCAGAGTCAGAGTCAGGCTCTGACAGTGAGCCTGCGCCCAGAAACGTGGCTCCGGCAAAAGAAAGAAAACCCCAGCAAGAAAGACATCCTCCCTCCAAAGATGTTTTCCTTCTAGATCTGGACGACTTTAACCCAGTATCCACCCCAGTTGCCCTTCCTACACCAGCCCTTTCTCCAAGCTTGATAGCTGATCTTGAAGGTCTAAACTTGTCAACTTCTTCATCAGTCATCAACGGAGGTGCAGTATATTGTATTGCAAAATATTGCAACTATGTCAATTGA
Peptide sequence:
MSIERKGMFEPYLKSFYVRSTDPTMIKTLKLEILTNLANEANISTLLREFQTYVRSQDKQFAAATIQTIGRCATSISEVTDTCLNGLVCLLSNRDEIVVAESVVVIKKLLQMQPAQHGEIIRHMAKLLDSITVPVARASILWLIGENCERVPKIAPDVLRKMAKSFTSEDDLVKLQILNLAAKLYLTNSKQTKLLTQYILNLGKYDQNYDIRDRTRFIRQLIVPNEKSGALSKYAKKIFLAPKPAPLLESPFKDRDRFQLGTLSHTLNIKASGYLELSNWPEVAPDPSVRNVEVIESAKEWTPLGKTKKEKPMKKFYSESEEEEDEDEDEDEEEEEKEDEDENPSDSSSDSESGSGSESGDTGTEDSSEDSSSGQDSETGSQAEAERQKVAKRNSKTKRKSDSENREKKNENSKASESSSEESSSMEDSSSESESESGSDSEPAPRNVAPAKERKPQQERHPPSKDVFLLDLDDFNPVSTPVALPTPALSPSLIADLEGLNLSTSSSVINGGAVYCIAKYCNYVN
IRESfinder result
IRESfinder score
0.530238416
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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