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mmu_circAp4e1_1026
Basic information of circular RNA
PanCircBase ID:
mmu_circAp4e1_1026
mm39_Chr. Position ID:
chr2|126853710|126885676|+
Gene name:
Ap4e1
Transcript:
ENSMUST00000002063.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
2,3,4,5,6,7,8,9,10
Exon/intron offsets:
0,2379,7495,16381,21739,23253,25995,31630,31856
Genomic length:
31966
Exon/intron sizes in nt:
7,21,24,74,12,21,60,16,00,00,00,000
Flanking exon/introns:
chr2:126850820-126853710|chr2:126885676-126888067
Splice length:
1026
Other database IDs:
circAtlas: mmu-Ap4e1_0004
circAtlas: hsa-AP4E1_0007, CIRCpedia: HSA_CIRCpedia_130665
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAGAGAAATTAATCCAGCAGGAACTGAGTAGTCTGAAGGCAACTGTTTCTGCTCCGACCACGACACTGAAAACGATGAAGGAATGTATGGTGAGACTTATATACTGTGAGATGCTTGGATACGATGCTTCTTTTGGTTATATACATGCAATCAAGTTGGCCCAACAAGGAAACCTCTTAGAAAAAAGAGTGGGTTATTTGGCTGTTTCTTTATTTCTACATGAAAGTCATGAACTTTTGCTTCTCCTTGTGAATACAGTGGTAAAGGACCTGCAGAGCACTAATCTGGTAGAAGTATGTATGGCACTTACTGTTGTCAGCCAGATTTTCCCTCGAGAAATGATTCCAGCCGTTCTTCCACTAATAGAAGATAAACTTCAACATTCTAAGGAGATTATACGAAGAAAAGCAGTTCTGGCATTATACAAATTTTACCTCATTGCCCCCAATCAAGTACAGCACATCCACACTAAATTTCGGAAAGCGCTTTGTGACAGAGATGTTGGGGTCATGGCTGCCTCTTTGCACATATACCTTAGGATGATTAAGGAAAATGCTTCTGGCTATAAAGACTTGACGGAGAGTTTTGTAACAATTTTAAAGCAGGTGGTGGGCGGGAAGCTCCCGGTAGAGTTCAGTTACCACAGCGTGCCAGCACCATGGTTACAGATTCAGCTCCTGAGAATACTGGGACTGCTGGGGAAAGACGATGAAAGGACAAGTGAATTAATGTATGATGTTCTTGATGAATCCTTACGAAGAGCCGAGTTAAATCACAATGTCACTTACGCTATTCTGTTTGAATGTGTACACACAATCTATTCTATTTATCCTAAGTCAGAATTACTTGAGAAGGCTGCCAAGTGCATTGGAAAATTTGTTCTGTCACCTAAAATAAACCTCAAATATTTAGGACTGAAGGCTCTTACCTATGTTATCCAGCAGGATCCTTCTCTGGCTCTTCAACACCAGATAACCATAATTGAATGCCTAGACCACCCTGATCCCATTATTAAAAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGGATCCTTCTCTGGCTC
59.89
TTTCAGTGTCGTGGTCGGAG
59.97
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCAGGATCCTTCTCTGGC
60.18
TTTCAGTGTCGTGGTCGGAG
59.97
159
PCR template sequence:
TCTTACCTATGTTATCCAGCAGGATCCTTCTCTGGCTCTTCAACACCAGATAACCATAATTGAATGCCTAGACCACCCTGATCCCATTATTAAAAGAGAGGAAGAAGAGAAATTAATCCAGCAGGAACTGAGTAGTCTGAAGGCAACTGTTTCTGCTCCGACCACGACACTGAAAACGATGAAGGAATGTATGGTGAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-181a-5p(1), mmu-let-7e-5p(1), mmu-miR-26a-5p(1), mmu-let-7c-5p(1), mmu-miR-26b-5p(1), mmu-miR-467b-5p(1), mmu-miR-370-3p(1), mmu-miR-98-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-669d-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATTAAAAGAGAGGAAGAAGAGAAAT
siRNA sets
ATTTCTCTTCTTCCTCTCT,TTTCTCTTCTTCCTCTCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP4E1_1026_ORF_1
0.9616
0.029041687
0.999980807
1974
ORF sequence:
ATGAAGGAATGTATGGTGAGACTTATATACTGTGAGATGCTTGGATACGATGCTTCTTTTGGTTATATACATGCAATCAAGTTGGCCCAACAAGGAAACCTCTTAGAAAAAAGAGTGGGTTATTTGGCTGTTTCTTTATTTCTACATGAAAGTCATGAACTTTTGCTTCTCCTTGTGAATACAGTGGTAAAGGACCTGCAGAGCACTAATCTGGTAGAAGTATGTATGGCACTTACTGTTGTCAGCCAGATTTTCCCTCGAGAAATGATTCCAGCCGTTCTTCCACTAATAGAAGATAAACTTCAACATTCTAAGGAGATTATACGAAGAAAAGCAGTTCTGGCATTATACAAATTTTACCTCATTGCCCCCAATCAAGTACAGCACATCCACACTAAATTTCGGAAAGCGCTTTGTGACAGAGATGTTGGGGTCATGGCTGCCTCTTTGCACATATACCTTAGGATGATTAAGGAAAATGCTTCTGGCTATAAAGACTTGACGGAGAGTTTTGTAACAATTTTAAAGCAGGTGGTGGGCGGGAAGCTCCCGGTAGAGTTCAGTTACCACAGCGTGCCAGCACCATGGTTACAGATTCAGCTCCTGAGAATACTGGGACTGCTGGGGAAAGACGATGAAAGGACAAGTGAATTAATGTATGATGTTCTTGATGAATCCTTACGAAGAGCCGAGTTAAATCACAATGTCACTTACGCTATTCTGTTTGAATGTGTACACACAATCTATTCTATTTATCCTAAGTCAGAATTACTTGAGAAGGCTGCCAAGTGCATTGGAAAATTTGTTCTGTCACCTAAAATAAACCTCAAATATTTAGGACTGAAGGCTCTTACCTATGTTATCCAGCAGGATCCTTCTCTGGCTCTTCAACACCAGATAACCATAATTGAATGCCTAGACCACCCTGATCCCATTATTAAAAGAGAGGAAGAAGAGAAATTAATCCAGCAGGAACTGAGTAGTCTGAAGGCAACTGTTTCTGCTCCGACCACGACACTGAAAACGATGAAGGAATGTATGGTGAGACTTATATACTGTGAGATGCTTGGATACGATGCTTCTTTTGGTTATATACATGCAATCAAGTTGGCCCAACAAGGAAACCTCTTAGAAAAAAGAGTGGGTTATTTGGCTGTTTCTTTATTTCTACATGAAAGTCATGAACTTTTGCTTCTCCTTGTGAATACAGTGGTAAAGGACCTGCAGAGCACTAATCTGGTAGAAGTATGTATGGCACTTACTGTTGTCAGCCAGATTTTCCCTCGAGAAATGATTCCAGCCGTTCTTCCACTAATAGAAGATAAACTTCAACATTCTAAGGAGATTATACGAAGAAAAGCAGTTCTGGCATTATACAAATTTTACCTCATTGCCCCCAATCAAGTACAGCACATCCACACTAAATTTCGGAAAGCGCTTTGTGACAGAGATGTTGGGGTCATGGCTGCCTCTTTGCACATATACCTTAGGATGATTAAGGAAAATGCTTCTGGCTATAAAGACTTGACGGAGAGTTTTGTAACAATTTTAAAGCAGGTGGTGGGCGGGAAGCTCCCGGTAGAGTTCAGTTACCACAGCGTGCCAGCACCATGGTTACAGATTCAGCTCCTGAGAATACTGGGACTGCTGGGGAAAGACGATGAAAGGACAAGTGAATTAATGTATGATGTTCTTGATGAATCCTTACGAAGAGCCGAGTTAAATCACAATGTCACTTACGCTATTCTGTTTGAATGTGTACACACAATCTATTCTATTTATCCTAAGTCAGAATTACTTGAGAAGGCTGCCAAGTGCATTGGAAAATTTGTTCTGTCACCTAAAATAAACCTCAAATATTTAGGACTGAAGGCTCTTACCTATGTTATCCAGCAGGATCCTTCTCTGGCTCTTCAACACCAGATAACCATAATTGAATGCCTAGACCACCCTGATCCCATTATTAAAAGAGAG
Peptide sequence:
MKECMVRLIYCEMLGYDASFGYIHAIKLAQQGNLLEKRVGYLAVSLFLHESHELLLLLVNTVVKDLQSTNLVEVCMALTVVSQIFPREMIPAVLPLIEDKLQHSKEIIRRKAVLALYKFYLIAPNQVQHIHTKFRKALCDRDVGVMAASLHIYLRMIKENASGYKDLTESFVTILKQVVGGKLPVEFSYHSVPAPWLQIQLLRILGLLGKDDERTSELMYDVLDESLRRAELNHNVTYAILFECVHTIYSIYPKSELLEKAAKCIGKFVLSPKINLKYLGLKALTYVIQQDPSLALQHQITIIECLDHPDPIIKREEEEKLIQQELSSLKATVSAPTTTLKTMKECMVRLIYCEMLGYDASFGYIHAIKLAQQGNLLEKRVGYLAVSLFLHESHELLLLLVNTVVKDLQSTNLVEVCMALTVVSQIFPREMIPAVLPLIEDKLQHSKEIIRRKAVLALYKFYLIAPNQVQHIHTKFRKALCDRDVGVMAASLHIYLRMIKENASGYKDLTESFVTILKQVVGGKLPVEFSYHSVPAPWLQIQLLRILGLLGKDDERTSELMYDVLDESLRRAELNHNVTYAILFECVHTIYSIYPKSELLEKAAKCIGKFVLSPKINLKYLGLKALTYVIQQDPSLALQHQITIIECLDHPDPIIKRE
IRESfinder result
IRESfinder score
0.706803077
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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