top of page
mmu_circAp4e1_1011
Basic information of circular RNA
PanCircBase ID:
mmu_circAp4e1_1011
mm39_Chr. Position ID:
chr2|126894099|126903958|+
Gene name:
Ap4e1
Transcript:
ENSMUST00000002063.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,16,17,18
Exon/intron offsets:
0,4001,8082,9346
Genomic length:
9859
Exon/intron sizes in nt:
115,124,259,513
Flanking exon/introns:
chr2:126891482-126894099|chr2:126903958-126905189
Splice length:
1011
Other database IDs:
circAtlas: hsa-AP4E1_0049, CIRCpedia: HSA_CIRCpedia_167708
Human Ortholog IDs:
Mature spliced Sequence:
GCAGATGCGTCTTTATCTTTTCTGGATGGTTTTGTGGCTGAAGGACTCAGTCAGGGAGCAGCACCTTATAAGCCCCATCACCAGCGCCAAGAGGAACAGCTCTCTCAGGAAAAGGTTCTCAATTTTGAACCATATGGACTATCATTTTCTTCATCTGGCTTCACTGGACGACAGTCTCCGGCTGGCATTTCCCTGGGCTCTGATATATCTGGAAACAGTGCCGAGACAGGGCTGAAAGAGACAAGCAGTTTGAAGATGGAAGGGATAAAGAAATTATGGGGTAAAGAGGGCTATCTGCCCAAGAAGGAGAGTGGAACTGGTGATAAACCGGAAGCCTCACATGTTCCTGCAGAGGGTGCAACAGTGGAGAATGTAGACCAAGCCACGACCAGAAAGGACCAAGCTCAAGGCCATATCCCTTCTACAGAGGAGAAAGAAAAGCAGCTGTTGGCATCATCGCTGTTTGTTGGGCTAGGACCAGAAAATACAGTCGATTTGTTGGGAAAAGCAGATGTTGTGTCTCACAAGTTCAGGAGGAAATCAAAACTCAAGGTAGCCCAAAGCGACAAGACACCCAGCGCTCCTACTGCTCCCTGCTCCGCCCTCAGCCTTGGCTCAGATGTGGCTGGTGGGGATGAGGACGGTCTGAGTGCTGTGGATAGAGGGGACGGAGAACTCAGTTCAGAGCTTTTTCGTTCTGAGTCTCTCTCGGGGCCGCCCTCAGCTGAGAAGCTCGAGAGTGTCAGCTTGCCTGTGCCTTCTTTATTTGCTGATAACAACATGGAAGTCTTTAATCCCCCTTCATCCTCTGCAACTTCAACTGTCAAGGAAGAAACTCCTGAGTGCAGGCATTCAGGTCTCGTGGAAATCTGCAGTAATGAAGCCGTGTCTGTGTCTTCTTACAAAGTCTGGAGGGATGATTGTTTATTGGTGATCTGGGCAGTCACTAGTAAAACTGACTCAGAGTTCACAGATGCTCAGTTAGAAATTTTTCCTGTGGAAAATTTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGTGATCTGGGCAGTCAC
59.96
TGGGGCTTATAAGGTGCTGC
60.11
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGTGATCTGGGCAGTCAC
59.96
TGCTCCCTGACTGAGTCCTT
60.18
144
PCR template sequence:
GAGGGATGATTGTTTATTGGTGATCTGGGCAGTCACTAGTAAAACTGACTCAGAGTTCACAGATGCTCAGTTAGAAATTTTTCCTGTGGAAAATTTCAAGGCAGATGCGTCTTTATCTTTTCTGGATGGTTTTGTGGCTGAAGGACTCAGTCAGGGAGCAGCACCTTATAAGCCCCATCACCAGCGCCAAGAGGAACAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-3065-5p(2), mmu-miR-328-3p(1), mmu-miR-222-3p(1), mmu-miR-138-5p(1), mmu-miR-495-3p(1), mmu-miR-1199-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAAATTTCAAGGCAGATGCGTCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP4E1_1011_ORF_1
1.0617
0.152560365
0.999957204
1767
ORF sequence:
ATGGAAGGGATAAAGAAATTATGGGGTAAAGAGGGCTATCTGCCCAAGAAGGAGAGTGGAACTGGTGATAAACCGGAAGCCTCACATGTTCCTGCAGAGGGTGCAACAGTGGAGAATGTAGACCAAGCCACGACCAGAAAGGACCAAGCTCAAGGCCATATCCCTTCTACAGAGGAGAAAGAAAAGCAGCTGTTGGCATCATCGCTGTTTGTTGGGCTAGGACCAGAAAATACAGTCGATTTGTTGGGAAAAGCAGATGTTGTGTCTCACAAGTTCAGGAGGAAATCAAAACTCAAGGTAGCCCAAAGCGACAAGACACCCAGCGCTCCTACTGCTCCCTGCTCCGCCCTCAGCCTTGGCTCAGATGTGGCTGGTGGGGATGAGGACGGTCTGAGTGCTGTGGATAGAGGGGACGGAGAACTCAGTTCAGAGCTTTTTCGTTCTGAGTCTCTCTCGGGGCCGCCCTCAGCTGAGAAGCTCGAGAGTGTCAGCTTGCCTGTGCCTTCTTTATTTGCTGATAACAACATGGAAGTCTTTAATCCCCCTTCATCCTCTGCAACTTCAACTGTCAAGGAAGAAACTCCTGAGTGCAGGCATTCAGGTCTCGTGGAAATCTGCAGTAATGAAGCCGTGTCTGTGTCTTCTTACAAAGTCTGGAGGGATGATTGTTTATTGGTGATCTGGGCAGTCACTAGTAAAACTGACTCAGAGTTCACAGATGCTCAGTTAGAAATTTTTCCTGTGGAAAATTTCAAGGCAGATGCGTCTTTATCTTTTCTGGATGGTTTTGTGGCTGAAGGACTCAGTCAGGGAGCAGCACCTTATAAGCCCCATCACCAGCGCCAAGAGGAACAGCTCTCTCAGGAAAAGGTTCTCAATTTTGAACCATATGGACTATCATTTTCTTCATCTGGCTTCACTGGACGACAGTCTCCGGCTGGCATTTCCCTGGGCTCTGATATATCTGGAAACAGTGCCGAGACAGGGCTGAAAGAGACAAGCAGTTTGAAGATGGAAGGGATAAAGAAATTATGGGGTAAAGAGGGCTATCTGCCCAAGAAGGAGAGTGGAACTGGTGATAAACCGGAAGCCTCACATGTTCCTGCAGAGGGTGCAACAGTGGAGAATGTAGACCAAGCCACGACCAGAAAGGACCAAGCTCAAGGCCATATCCCTTCTACAGAGGAGAAAGAAAAGCAGCTGTTGGCATCATCGCTGTTTGTTGGGCTAGGACCAGAAAATACAGTCGATTTGTTGGGAAAAGCAGATGTTGTGTCTCACAAGTTCAGGAGGAAATCAAAACTCAAGGTAGCCCAAAGCGACAAGACACCCAGCGCTCCTACTGCTCCCTGCTCCGCCCTCAGCCTTGGCTCAGATGTGGCTGGTGGGGATGAGGACGGTCTGAGTGCTGTGGATAGAGGGGACGGAGAACTCAGTTCAGAGCTTTTTCGTTCTGAGTCTCTCTCGGGGCCGCCCTCAGCTGAGAAGCTCGAGAGTGTCAGCTTGCCTGTGCCTTCTTTATTTGCTGATAACAACATGGAAGTCTTTAATCCCCCTTCATCCTCTGCAACTTCAACTGTCAAGGAAGAAACTCCTGAGTGCAGGCATTCAGGTCTCGTGGAAATCTGCAGTAATGAAGCCGTGTCTGTGTCTTCTTACAAAGTCTGGAGGGATGATTGTTTATTGGTGATCTGGGCAGTCACTAGTAAAACTGACTCAGAGTTCACAGATGCTCAGTTAGAAATTTTTCCTGTGGAAAATTTCAAG
Peptide sequence:
MEGIKKLWGKEGYLPKKESGTGDKPEASHVPAEGATVENVDQATTRKDQAQGHIPSTEEKEKQLLASSLFVGLGPENTVDLLGKADVVSHKFRRKSKLKVAQSDKTPSAPTAPCSALSLGSDVAGGDEDGLSAVDRGDGELSSELFRSESLSGPPSAEKLESVSLPVPSLFADNNMEVFNPPSSSATSTVKEETPECRHSGLVEICSNEAVSVSSYKVWRDDCLLVIWAVTSKTDSEFTDAQLEIFPVENFKADASLSFLDGFVAEGLSQGAAPYKPHHQRQEEQLSQEKVLNFEPYGLSFSSSGFTGRQSPAGISLGSDISGNSAETGLKETSSLKMEGIKKLWGKEGYLPKKESGTGDKPEASHVPAEGATVENVDQATTRKDQAQGHIPSTEEKEKQLLASSLFVGLGPENTVDLLGKADVVSHKFRRKSKLKVAQSDKTPSAPTAPCSALSLGSDVAGGDEDGLSAVDRGDGELSSELFRSESLSGPPSAEKLESVSLPVPSLFADNNMEVFNPPSSSATSTVKEETPECRHSGLVEICSNEAVSVSSYKVWRDDCLLVIWAVTSKTDSEFTDAQLEIFPVENFK
IRESfinder result
IRESfinder score
0.654020356
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page