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mmu_circAplp2_703
Basic information of circular RNA
PanCircBase ID:
mmu_circAplp2_703
mm39_Chr. Position ID:
chr9|31072522|31080212|-
Gene name:
Aplp2
Transcript:
ENSMUST00000217641.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,532,2119,3316,7481
Genomic length:
7690
Exon/intron sizes in nt:
1,29,15,97,51,31,209
Flanking exon/introns:
chr9:31069894-31072522|chr9:31080212-31081732
Splice length:
703
Other database IDs:
circAtlas: mmu-Aplp2_0012
Human Ortholog IDs:
Mature spliced Sequence:
TGAATTTCCTACTGAAGCAGATTTGGAAGACTTCACAGAAGCAGCAGCAGATGAGGAAGAAGAGGATGAGGAGGAAGGGGAGGAAGTGGTGGAAGACCGTGACTACTACTATGACCCCTTTAAAGGAGACGATTACAATGAGGAGAATCCAACCGAACCCAGCAGCGAGGGCACCATTTCAGACAAGGAGATTGTTCACGATGTTAAAGTTCCCCCGACTCCCCTGCCAACCAATGATGTTGATGTGTATTTTGAGACCTCAGCGGATGATAATGAGCACGCCCGCTTCCAGAAGGCTAAGGAACAGCTGGAAATTCGACATCGAAACCGAATGGACAGGGTAAAGAAGGAATGGGAAGAGGCAGAACTTCAAGCCAAGAACCTCCCCAAGACAGAAAGACAGACCCTCATCCAGCATTTCCAAGCTATGGTTAAAGCTTTAGAGAAAGAAGCAGCCAGTGAGAAGCAGCAGCTTGTGGAAACCCATCTGGCCCGAGTAGAAGCCATGCTGAATGACCGCCGACGCATAGCTCTGGAAAATTACCTGGCTGCCCTGCAGTCTGACCCACCTCGGCCACATCGCATTCTTCAAGCTCTTCGTCGTTACGTCCGTGCTGAGAACAAAGATCGCCTGCATACCATTCGTCATTACCAACACGTGTTGGCTGTTGACCCAGAAAAGGCCGCCCAGATGAAATCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCGCCTGCATACCATTCGT
59.89
CTTCCTCCCCTTCCTCCTCA
59.96
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCGCCTGCATACCATTCGT
59.89
ACTTCCTCCCCTTCCTCCTC
59.96
164
PCR template sequence:
TTACGTCCGTGCTGAGAACAAAGATCGCCTGCATACCATTCGTCATTACCAACACGTGTTGGCTGTTGACCCAGAAAAGGCCGCCCAGATGAAATCCCAGTGAATTTCCTACTGAAGCAGATTTGGAAGACTTCACAGAAGCAGCAGCAGATGAGGAAGAAGAGGATGAGGAGGAAGGGGAGGAAGTGGTGGAAGACCGT
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-135a-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-136-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGAAATCCCAGTGAATTTCCTACT
siRNA sets
AGTAGGAAATTCACTGGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPLP2_703_ORF_1
1.2946
0.376841808
0.798733703
375
ORF sequence:
ATGGACAGGGTAAAGAAGGAATGGGAAGAGGCAGAACTTCAAGCCAAGAACCTCCCCAAGACAGAAAGACAGACCCTCATCCAGCATTTCCAAGCTATGGTTAAAGCTTTAGAGAAAGAAGCAGCCAGTGAGAAGCAGCAGCTTGTGGAAACCCATCTGGCCCGAGTAGAAGCCATGCTGAATGACCGCCGACGCATAGCTCTGGAAAATTACCTGGCTGCCCTGCAGTCTGACCCACCTCGGCCACATCGCATTCTTCAAGCTCTTCGTCGTTACGTCCGTGCTGAGAACAAAGATCGCCTGCATACCATTCGTCATTACCAACACGTGTTGGCTGTTGACCCAGAAAAGGCCGCCCAGATGAAATCCCAGTGA
Peptide sequence:
MDRVKKEWEEAELQAKNLPKTERQTLIQHFQAMVKALEKEAASEKQQLVETHLARVEAMLNDRRRIALENYLAALQSDPPRPHRILQALRRYVRAENKDRLHTIRHYQHVLAVDPEKAAQMKSQ
IRESfinder result
IRESfinder score
0.38008403
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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