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mmu_circAp4e1_793
Basic information of circular RNA
PanCircBase ID:
mmu_circAp4e1_793
mm39_Chr. Position ID:
chr2|126853710|126879779|+
Gene name:
Ap4e1
Transcript:
ENSMUST00000110394.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,2379,7495,16381,21739,23253,25995
Genomic length:
26069
Exon/intron sizes in nt:
72,124,74,122,160,167,74
Flanking exon/introns:
chr2:126850820-126853710|chr2:126879779-126885340
Splice length:
793
Other database IDs:
circAtlas: mmu-Ap4e1_0009
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_14704
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAGAGAAATTAATCCAGCAGGAACTGAGTAGTCTGAAGGCAACTGTTTCTGCTCCGACCACGACACTGAAAACGATGAAGGAATGTATGGTGAGACTTATATACTGTGAGATGCTTGGATACGATGCTTCTTTTGGTTATATACATGCAATCAAGTTGGCCCAACAAGGAAACCTCTTAGAAAAAAGAGTGGGTTATTTGGCTGTTTCTTTATTTCTACATGAAAGTCATGAACTTTTGCTTCTCCTTGTGAATACAGTGGTAAAGGACCTGCAGAGCACTAATCTGGTAGAAGTATGTATGGCACTTACTGTTGTCAGCCAGATTTTCCCTCGAGAAATGATTCCAGCCGTTCTTCCACTAATAGAAGATAAACTTCAACATTCTAAGGAGATTATACGAAGAAAAGCAGTTCTGGCATTATACAAATTTTACCTCATTGCCCCCAATCAAGTACAGCACATCCACACTAAATTTCGGAAAGCGCTTTGTGACAGAGATGTTGGGGTCATGGCTGCCTCTTTGCACATATACCTTAGGATGATTAAGGAAAATGCTTCTGGCTATAAAGACTTGACGGAGAGTTTTGTAACAATTTTAAAGCAGGTGGTGGGCGGGAAGCTCCCGGTAGAGTTCAGTTACCACAGCGTGCCAGCACCATGGTTACAGATTCAGCTCCTGAGAATACTGGGACTGCTGGGGAAAGACGATGAAAGGACAAGTGAATTAATGTATGATGTTCTTGATGAATCCTTACGAAGAGCCGAGTTAAATCACAATGTCACTTACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCTGGGGAAAGACGATG
60.04
TTTCAGTGTCGTGGTCGGAG
59.97
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCTGGGGAAAGACGATG
60.04
CGTTTTCAGTGTCGTGGTCG
59.77
176
PCR template sequence:
GGACTGCTGGGGAAAGACGATGAAAGGACAAGTGAATTAATGTATGATGTTCTTGATGAATCCTTACGAAGAGCCGAGTTAAATCACAATGTCACTTACGGAAGAAGAGAAATTAATCCAGCAGGAACTGAGTAGTCTGAAGGCAACTGTTTCTGCTCCGACCACGACACTGAAAACGATGAAGGAATGTATGGTGAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-let-7e-5p(1), mmu-let-7c-5p(1), mmu-miR-467b-5p(1), mmu-miR-370-3p(1), mmu-miR-98-5p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATGTCACTTACGGAAGAAGAGAAAT
siRNA sets
ATTTCTCTTCTTCCGTAAG, TTTCTCTTCTTCCGTAAGT, TTCTCTTCTTCCGTAAGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP4E1_793_ORF_1
0.9562
0.05294143
0.925283232
804
ORF sequence:
ATGTCACTTACGGAAGAAGAGAAATTAATCCAGCAGGAACTGAGTAGTCTGAAGGCAACTGTTTCTGCTCCGACCACGACACTGAAAACGATGAAGGAATGTATGGTGAGACTTATATACTGTGAGATGCTTGGATACGATGCTTCTTTTGGTTATATACATGCAATCAAGTTGGCCCAACAAGGAAACCTCTTAGAAAAAAGAGTGGGTTATTTGGCTGTTTCTTTATTTCTACATGAAAGTCATGAACTTTTGCTTCTCCTTGTGAATACAGTGGTAAAGGACCTGCAGAGCACTAATCTGGTAGAAGTATGTATGGCACTTACTGTTGTCAGCCAGATTTTCCCTCGAGAAATGATTCCAGCCGTTCTTCCACTAATAGAAGATAAACTTCAACATTCTAAGGAGATTATACGAAGAAAAGCAGTTCTGGCATTATACAAATTTTACCTCATTGCCCCCAATCAAGTACAGCACATCCACACTAAATTTCGGAAAGCGCTTTGTGACAGAGATGTTGGGGTCATGGCTGCCTCTTTGCACATATACCTTAGGATGATTAAGGAAAATGCTTCTGGCTATAAAGACTTGACGGAGAGTTTTGTAACAATTTTAAAGCAGGTGGTGGGCGGGAAGCTCCCGGTAGAGTTCAGTTACCACAGCGTGCCAGCACCATGGTTACAGATTCAGCTCCTGAGAATACTGGGACTGCTGGGGAAAGACGATGAAAGGACAAGTGAATTAATGTATGATGTTCTTGATGAATCCTTACGAAGAGCCGAGTTAAATCACAATGTCACTTAC
Peptide sequence:
MSLTEEEKLIQQELSSLKATVSAPTTTLKTMKECMVRLIYCEMLGYDASFGYIHAIKLAQQGNLLEKRVGYLAVSLFLHESHELLLLLVNTVVKDLQSTNLVEVCMALTVVSQIFPREMIPAVLPLIEDKLQHSKEIIRRKAVLALYKFYLIAPNQVQHIHTKFRKALCDRDVGVMAASLHIYLRMIKENASGYKDLTESFVTILKQVVGGKLPVEFSYHSVPAPWLQIQLLRILGLLGKDDERTSELMYDVLDESLRRAELNHNVTY
IRESfinder result
IRESfinder score
0.622399288
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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