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mmu_circPde5a_426
Basic information of circular RNA
PanCircBase ID:
mmu_circPde5a_426
mm39_Chr. Position ID:
chr3|122618563|122636757|+
Gene name:
Pde5a
Transcript:
ENSMUST00000066728.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,15,16,17,18
Exon/intron offsets:
0,10638,14627,16056,18130
Genomic length:
18194
Exon/intron sizes in nt:
95,88,101,78,64
Flanking exon/introns:
chr3:122616830-122618563|chr3:122636757-122645298
Splice length:
426
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AACAAGTTGACGGATCTGGAGACCCTTGCGTTGCTCATTGCTGCTTTAAGCCATGACTTGGATCATCGTGGCGTGAACAACTCATACATACAGCGGAGCGAGCACCCGCTGGCTCAGCTGTACTGTCACTCCATCATGGAACACCATCATTTTGACCAGTGCTTGATGATTCTAAACAGCCCAGGCAACCAGATTCTCAGTGGCCTCTCCATTGACGAATATAAGACCACACTGAAAATAATCAAGCAAGCAATTTTAGCCACAGACCTAGCACTGTACATTAAGAGACGAGGAGAATTTTTTGAACTTATACGAAAAAATCAATTCAGTTTTGAAGATCCTCTTCAAAAGGAGTTGTTTCTAGCAATGCTGATGACAGCCTGCGACCTCTCTGCGATTACTAAACCCTGGCCTATTCAACAACGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCGACCTCTCTGCGATTAC
59.9
CGCTCCGCTGTATGTATGAGT
60
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCGACCTCTCTGCGATTA
59.62
CGCTCCGCTGTATGTATGAGT
60
146
PCR template sequence:
CAGTTTTGAAGATCCTCTTCAAAAGGAGTTGTTTCTAGCAATGCTGATGACAGCCTGCGACCTCTCTGCGATTACTAAACCCTGGCCTATTCAACAACGGAACAAGTTGACGGATCTGGAGACCCTTGCGTTGCTCATTGCTGCTTTAAGCCATGACTTGGATCATCGTGGCGTGAACAACTCATACATACAGCGGAGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(1), mmu-miR-127-3p(1), mmu-miR-297a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TATTCAACAACGGAACAAGTTGACGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPDE5A_426_ORF_1
0.9889
0.119729503
0.903749776
717
ORF sequence:
ATGGAACACCATCATTTTGACCAGTGCTTGATGATTCTAAACAGCCCAGGCAACCAGATTCTCAGTGGCCTCTCCATTGACGAATATAAGACCACACTGAAAATAATCAAGCAAGCAATTTTAGCCACAGACCTAGCACTGTACATTAAGAGACGAGGAGAATTTTTTGAACTTATACGAAAAAATCAATTCAGTTTTGAAGATCCTCTTCAAAAGGAGTTGTTTCTAGCAATGCTGATGACAGCCTGCGACCTCTCTGCGATTACTAAACCCTGGCCTATTCAACAACGGAACAAGTTGACGGATCTGGAGACCCTTGCGTTGCTCATTGCTGCTTTAAGCCATGACTTGGATCATCGTGGCGTGAACAACTCATACATACAGCGGAGCGAGCACCCGCTGGCTCAGCTGTACTGTCACTCCATCATGGAACACCATCATTTTGACCAGTGCTTGATGATTCTAAACAGCCCAGGCAACCAGATTCTCAGTGGCCTCTCCATTGACGAATATAAGACCACACTGAAAATAATCAAGCAAGCAATTTTAGCCACAGACCTAGCACTGTACATTAAGAGACGAGGAGAATTTTTTGAACTTATACGAAAAAATCAATTCAGTTTTGAAGATCCTCTTCAAAAGGAGTTGTTTCTAGCAATGCTGATGACAGCCTGCGACCTCTCTGCGATTACTAAACCCTGGCCTATTCAACAACGG
Peptide sequence:
MEHHHFDQCLMILNSPGNQILSGLSIDEYKTTLKIIKQAILATDLALYIKRRGEFFELIRKNQFSFEDPLQKELFLAMLMTACDLSAITKPWPIQQRNKLTDLETLALLIAALSHDLDHRGVNNSYIQRSEHPLAQLYCHSIMEHHHFDQCLMILNSPGNQILSGLSIDEYKTTLKIIKQAILATDLALYIKRRGEFFELIRKNQFSFEDPLQKELFLAMLMTACDLSAITKPWPIQQR
IRESfinder result
IRESfinder score
0.641825508
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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