top of page
mmu_circAp4e1_719
Basic information of circular RNA
PanCircBase ID:
mmu_circAp4e1_719
mm39_Chr. Position ID:
chr2|126853710|126877130|+
Gene name:
Ap4e1
Transcript:
ENSMUST00000110394.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,2379,7495,16381,21739,23253
Genomic length:
23420
Exon/intron sizes in nt:
7,21,24,74,12,21,60,160
Flanking exon/introns:
chr2:126850820-126853710|chr2:126877130-126879705
Splice length:
719
Other database IDs:
circBase: hsa_circ_0103802, circAtlas: hsa-AP4E1_0001, CIRCpedia: HSA_CIRCpedia_14703
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAGAGAAATTAATCCAGCAGGAACTGAGTAGTCTGAAGGCAACTGTTTCTGCTCCGACCACGACACTGAAAACGATGAAGGAATGTATGGTGAGACTTATATACTGTGAGATGCTTGGATACGATGCTTCTTTTGGTTATATACATGCAATCAAGTTGGCCCAACAAGGAAACCTCTTAGAAAAAAGAGTGGGTTATTTGGCTGTTTCTTTATTTCTACATGAAAGTCATGAACTTTTGCTTCTCCTTGTGAATACAGTGGTAAAGGACCTGCAGAGCACTAATCTGGTAGAAGTATGTATGGCACTTACTGTTGTCAGCCAGATTTTCCCTCGAGAAATGATTCCAGCCGTTCTTCCACTAATAGAAGATAAACTTCAACATTCTAAGGAGATTATACGAAGAAAAGCAGTTCTGGCATTATACAAATTTTACCTCATTGCCCCCAATCAAGTACAGCACATCCACACTAAATTTCGGAAAGCGCTTTGTGACAGAGATGTTGGGGTCATGGCTGCCTCTTTGCACATATACCTTAGGATGATTAAGGAAAATGCTTCTGGCTATAAAGACTTGACGGAGAGTTTTGTAACAATTTTAAAGCAGGTGGTGGGCGGGAAGCTCCCGGTAGAGTTCAGTTACCACAGCGTGCCAGCACCATGGTTACAGATTCAGCTCCTGAGAATACTGGGACTGCTGGGGAAAGACGATGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCCCGGTAGAGTTCAGT
59.96
TTTCAGTGTCGTGGTCGGAG
59.97
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCAGTTACCACAGCGTGC
59.77
TTTCAGTGTCGTGGTCGGAG
59.97
159
PCR template sequence:
GGAAGCTCCCGGTAGAGTTCAGTTACCACAGCGTGCCAGCACCATGGTTACAGATTCAGCTCCTGAGAATACTGGGACTGCTGGGGAAAGACGATGAAAGGAAGAAGAGAAATTAATCCAGCAGGAACTGAGTAGTCTGAAGGCAACTGTTTCTGCTCCGACCACGACACTGAAAACGATGAAGGAATGTATGGTGAGAC
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
AAGACGATGAAAGGAAGAAGAGAAAT
siRNA sets
ATTTCTCTTCTTCCTTTCA, TTCTCTTCTTCCTTTCATC, TCTTCTTCCTTTCATCGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP4E1_719_ORF_1
1.0366
0.013407123
0.809526876
657
ORF sequence:
ATGAAGGAATGTATGGTGAGACTTATATACTGTGAGATGCTTGGATACGATGCTTCTTTTGGTTATATACATGCAATCAAGTTGGCCCAACAAGGAAACCTCTTAGAAAAAAGAGTGGGTTATTTGGCTGTTTCTTTATTTCTACATGAAAGTCATGAACTTTTGCTTCTCCTTGTGAATACAGTGGTAAAGGACCTGCAGAGCACTAATCTGGTAGAAGTATGTATGGCACTTACTGTTGTCAGCCAGATTTTCCCTCGAGAAATGATTCCAGCCGTTCTTCCACTAATAGAAGATAAACTTCAACATTCTAAGGAGATTATACGAAGAAAAGCAGTTCTGGCATTATACAAATTTTACCTCATTGCCCCCAATCAAGTACAGCACATCCACACTAAATTTCGGAAAGCGCTTTGTGACAGAGATGTTGGGGTCATGGCTGCCTCTTTGCACATATACCTTAGGATGATTAAGGAAAATGCTTCTGGCTATAAAGACTTGACGGAGAGTTTTGTAACAATTTTAAAGCAGGTGGTGGGCGGGAAGCTCCCGGTAGAGTTCAGTTACCACAGCGTGCCAGCACCATGGTTACAGATTCAGCTCCTGAGAATACTGGGACTGCTGGGGAAAGACGATGAAAGGAAGAAGAGAAATTAA
Peptide sequence:
MKECMVRLIYCEMLGYDASFGYIHAIKLAQQGNLLEKRVGYLAVSLFLHESHELLLLLVNTVVKDLQSTNLVEVCMALTVVSQIFPREMIPAVLPLIEDKLQHSKEIIRRKAVLALYKFYLIAPNQVQHIHTKFRKALCDRDVGVMAASLHIYLRMIKENASGYKDLTESFVTILKQVVGGKLPVEFSYHSVPAPWLQIQLLRILGLLGKDDERKKRN
IRESfinder result
IRESfinder score
0.636774132
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page