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mmu_circPde5a_801_1
Basic information of circular RNA
PanCircBase ID:
mmu_circPde5a_801_1
mm39_Chr. Position ID:
chr3|122568201|122598258|+
Gene name:
Pde5a
Transcript:
ENSMUST00000066728.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
4,5,6,7,8,9,10,11
Exon/intron offsets:
0,1703,4382,7014,19707,20681,28479,29997
Genomic length:
30057
Exon/intron sizes in nt:
72,90,138,68,109,88,176,60
Flanking exon/introns:
chr3:122554616-122568201|chr3:122598258-122611569
Splice length:
801
Other database IDs:
circAtlas: mmu-Pde5a_0004
circBase: hsa_circ_0008144, circAtlas: hsa-PDE5A_0002, CIRCpedia: HSA_CIRCpedia_47278
Human Ortholog IDs:
Mature spliced Sequence:
GTTGTTGGTGTAGCTCAGGCCATCAACAAGAAATCAGGAAATGGTGGGACCTTCACTGAAAAAGATGAAAAGGACTTTGCGGCCTACCTGGCATTCTGTGGTATTGTTCTTCACAATGCTCAGCTCTATGAAACGTCATTGCTGGAGAACAAAAGAAATCAGGTGTTACTTGACCTTGCCAGCTTAATCTTTGAAGAGCAGCAGTCACTGGAAGTCATTCTGAAGAAGATAGCGGCCACTATCATCTCCTTCATGCAGGTGCAGAAGTGCACCATCTTCATTGTGGATGAAGACTGTCCTGACTCTTTCTCTCGTGTGTTTCACATGGAGTGTGAGGAAGTAGGAAAACCCTCTGATCCTTTAACGAGGGAGCAAGATGCAAACAAAATCAACTACATGTATGCTCAGTATGTCAAAAACACGATGGAGCCACTTAATATCCCAGATGTCACCAAGGACAAAAGATTTCCCTGGACAAATGAAAACATGGGACACGTGAACACGCCCTGCATTGGAAGTTTGCTTTGCACCCCTATAAAAAATGGGAAGAAGAACAAAGTCATAGGCGTCTGCCAACTTGTTAATAAGATGGAGGAGAATACTGGCAAGATTAAAGCTTTCAACCAAAATGATGAGCAGTTCCTGGAAGCCTTTGTCATCTTCTGTGGCTTGGGGATCCAGAACACACAGATGTATGAAGCGGTGGAGAGAGCCATGGCCAAGCAGATGGTGACATTAGAGGTCCTGTCTTACCATGCATCAGCGGCGGAGGAAGAAACAAGAGAGCTCCAGGCTTTATCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGCCAAGCAGATGGTGA
60.68
AGGCCGCAAAGTCCTTTTCA
60.47
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGCCAAGCAGATGGTGAC
60.68
AGGCCGCAAAGTCCTTTTCA
60.47
172
PCR template sequence:
GGTGGAGAGAGCCATGGCCAAGCAGATGGTGACATTAGAGGTCCTGTCTTACCATGCATCAGCGGCGGAGGAAGAAACAAGAGAGCTCCAGGCTTTATCGGTTGTTGGTGTAGCTCAGGCCATCAACAAGAAATCAGGAAATGGTGGGACCTTCACTGAAAAAGATGAAAAGGACTTTGCGGCCTACCTGGCATTCTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-26a-5p(1), mmu-miR-132-3p(1), mmu-miR-26b-5p(1), mmu-miR-494-3p(1), mmu-miR-383-5p(1), mmu-miR-5101(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGGCTTTATCGGTTGTTGGTGTAG
siRNA sets
AACAACCGATAAAGCCTGG, ACCAACAACCGATAAAGCC, CACCAACAACCGATAAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPDE5A_801_1_ORF_1
1.1472
0.271427448
0.999549467
1350
ORF sequence:
ATGCAGGTGCAGAAGTGCACCATCTTCATTGTGGATGAAGACTGTCCTGACTCTTTCTCTCGTGTGTTTCACATGGAGTGTGAGGAAGTAGGAAAACCCTCTGATCCTTTAACGAGGGAGCAAGATGCAAACAAAATCAACTACATGTATGCTCAGTATGTCAAAAACACGATGGAGCCACTTAATATCCCAGATGTCACCAAGGACAAAAGATTTCCCTGGACAAATGAAAACATGGGACACGTGAACACGCCCTGCATTGGAAGTTTGCTTTGCACCCCTATAAAAAATGGGAAGAAGAACAAAGTCATAGGCGTCTGCCAACTTGTTAATAAGATGGAGGAGAATACTGGCAAGATTAAAGCTTTCAACCAAAATGATGAGCAGTTCCTGGAAGCCTTTGTCATCTTCTGTGGCTTGGGGATCCAGAACACACAGATGTATGAAGCGGTGGAGAGAGCCATGGCCAAGCAGATGGTGACATTAGAGGTCCTGTCTTACCATGCATCAGCGGCGGAGGAAGAAACAAGAGAGCTCCAGGCTTTATCGGTTGTTGGTGTAGCTCAGGCCATCAACAAGAAATCAGGAAATGGTGGGACCTTCACTGAAAAAGATGAAAAGGACTTTGCGGCCTACCTGGCATTCTGTGGTATTGTTCTTCACAATGCTCAGCTCTATGAAACGTCATTGCTGGAGAACAAAAGAAATCAGGTGTTACTTGACCTTGCCAGCTTAATCTTTGAAGAGCAGCAGTCACTGGAAGTCATTCTGAAGAAGATAGCGGCCACTATCATCTCCTTCATGCAGGTGCAGAAGTGCACCATCTTCATTGTGGATGAAGACTGTCCTGACTCTTTCTCTCGTGTGTTTCACATGGAGTGTGAGGAAGTAGGAAAACCCTCTGATCCTTTAACGAGGGAGCAAGATGCAAACAAAATCAACTACATGTATGCTCAGTATGTCAAAAACACGATGGAGCCACTTAATATCCCAGATGTCACCAAGGACAAAAGATTTCCCTGGACAAATGAAAACATGGGACACGTGAACACGCCCTGCATTGGAAGTTTGCTTTGCACCCCTATAAAAAATGGGAAGAAGAACAAAGTCATAGGCGTCTGCCAACTTGTTAATAAGATGGAGGAGAATACTGGCAAGATTAAAGCTTTCAACCAAAATGATGAGCAGTTCCTGGAAGCCTTTGTCATCTTCTGTGGCTTGGGGATCCAGAACACACAGATGTATGAAGCGGTGGAGAGAGCCATGGCCAAGCAGATGGTGACATTAGAGGTCCTGTCTTACCATGCATCAGCGGCGGAGGAAGAAACAAGAGAGCTCCAGGCTTTATCG
Peptide sequence:
MQVQKCTIFIVDEDCPDSFSRVFHMECEEVGKPSDPLTREQDANKINYMYAQYVKNTMEPLNIPDVTKDKRFPWTNENMGHVNTPCIGSLLCTPIKNGKKNKVIGVCQLVNKMEENTGKIKAFNQNDEQFLEAFVIFCGLGIQNTQMYEAVERAMAKQMVTLEVLSYHASAAEEETRELQALSVVGVAQAINKKSGNGGTFTEKDEKDFAAYLAFCGIVLHNAQLYETSLLENKRNQVLLDLASLIFEEQQSLEVILKKIAATIISFMQVQKCTIFIVDEDCPDSFSRVFHMECEEVGKPSDPLTREQDANKINYMYAQYVKNTMEPLNIPDVTKDKRFPWTNENMGHVNTPCIGSLLCTPIKNGKKNKVIGVCQLVNKMEENTGKIKAFNQNDEQFLEAFVIFCGLGIQNTQMYEAVERAMAKQMVTLEVLSYHASAAEEETRELQALS
IRESfinder result
IRESfinder score
0.572026088
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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