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mmu_circAte1_830_2
Basic information of circular RNA
PanCircBase ID:
mmu_circAte1_830_2
mm39_Chr. Position ID:
chr7|130106423|130117898|-
Gene name:
Ate1
Transcript:
ENSMUST00000033139.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,2788,4313,6117,9068,11411
Genomic length:
11475
Exon/intron sizes in nt:
129,218,252,104,63,64
Flanking exon/introns:
chr7:130083445-130106423|chr7:130117898-130121085
Splice length:
830
Other database IDs:
circBase: mmu_circ_0013936, CIRCpedia: MMU_CIRCpedia_7523, circAtlas: mmu-Ate1_0006
circAtlas: hsa-ATE1_0011, CIRCpedia: HSA_CIRCpedia_180703
Human Ortholog IDs:
Mature spliced Sequence:
GCATGTGGGCACATTCCATGACAGTGCAGGATTATCAGGATCTTATAGACCGAGGATGGAGAAGAAGTGGGAAATATGTGTACAAACCTGTCATGGATCAAACATGCTGTCCTCAGTATACAATAAGGTGTCATCCTTTACAGTTTCAGCCATCAAAATCTCACAAGAAAGTTTTGAAAAAAATGCTGAAATTTCTGGCTAAAGGAGAGATCTCGAAAGGCAATTGTGAGGATGAGCCCATGGATTCTACAGTGGAGGATGCTGTTGACGGTGACTTTGCATTAATTAACAAGCTGGATATAAAGTGTGATCTCAAAACACTCAGTGACCTCAAAGGAAGCATAGAGAGTGAAGAGAAGGAGAAAGAAAAGAGTATAAAGAAAGAAGGGTCTAAAGAATTCATTCATCCACAATCTATAGAGGAGAAGTTGGGCTCTGGTGAACCATCACATCCAATCAAAGTTCATATTGGTCCTAAGCCAGGCAAAGGGGCTGACTTGAGTAAGCCTCCATGTCGGAAAGCAAGGGAAATGAGGAAAGAAAGGCAAAGATTAAAACGGATGCAGCAGGCCTCAGCTGCAGCCTCGGAGGCTCAAGGTCAGCCAGTCTGTTTGTTACCAAAGGCTAAATCCAACCAGCCCAAGTCACTGGAAGATTTGATTTTTCAATCTTTACCAGAAAATGCATCGCACAAGTTAGAGGTGAGGGTGGTAAGATCTTCTCCACCAAGTCCTCAGTTCAGAGCCACATTTCAGGAGTCTTACCAGGTCTATAAACGCTACCAGATGGTTGTTCACAAGGACCCGCCTGATAAGCCAACCGTGAGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCAGTTCAGAGCCACAT
58.35
CCACTTCTTCTCCATCCTCGG
59.86
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCAGTTCAGAGCCACAT
58.35
CCCACTTCTTCTCCATCCTCG
59.86
171
PCR template sequence:
TCCTCAGTTCAGAGCCACATTTCAGGAGTCTTACCAGGTCTATAAACGCTACCAGATGGTTGTTCACAAGGACCCGCCTGATAAGCCAACCGTGAGCCAGGCATGTGGGCACATTCCATGACAGTGCAGGATTATCAGGATCTTATAGACCGAGGATGGAGAAGAAGTGGGAAATATGTGTACAAACCTGTCATGGATCA
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-495-3p(1), mmu-miR-149-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-499-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCGTGAGCCAGGCATGTGGGCACA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATE1_830_2_ORF_1
0.8553
0.096341016
0.944233164
849
ORF sequence:
ATGTGGGCACATTCCATGACAGTGCAGGATTATCAGGATCTTATAGACCGAGGATGGAGAAGAAGTGGGAAATATGTGTACAAACCTGTCATGGATCAAACATGCTGTCCTCAGTATACAATAAGGTGTCATCCTTTACAGTTTCAGCCATCAAAATCTCACAAGAAAGTTTTGAAAAAAATGCTGAAATTTCTGGCTAAAGGAGAGATCTCGAAAGGCAATTGTGAGGATGAGCCCATGGATTCTACAGTGGAGGATGCTGTTGACGGTGACTTTGCATTAATTAACAAGCTGGATATAAAGTGTGATCTCAAAACACTCAGTGACCTCAAAGGAAGCATAGAGAGTGAAGAGAAGGAGAAAGAAAAGAGTATAAAGAAAGAAGGGTCTAAAGAATTCATTCATCCACAATCTATAGAGGAGAAGTTGGGCTCTGGTGAACCATCACATCCAATCAAAGTTCATATTGGTCCTAAGCCAGGCAAAGGGGCTGACTTGAGTAAGCCTCCATGTCGGAAAGCAAGGGAAATGAGGAAAGAAAGGCAAAGATTAAAACGGATGCAGCAGGCCTCAGCTGCAGCCTCGGAGGCTCAAGGTCAGCCAGTCTGTTTGTTACCAAAGGCTAAATCCAACCAGCCCAAGTCACTGGAAGATTTGATTTTTCAATCTTTACCAGAAAATGCATCGCACAAGTTAGAGGTGAGGGTGGTAAGATCTTCTCCACCAAGTCCTCAGTTCAGAGCCACATTTCAGGAGTCTTACCAGGTCTATAAACGCTACCAGATGGTTGTTCACAAGGACCCGCCTGATAAGCCAACCGTGAGCCAGGCATGTGGGCACATTCCATGA
Peptide sequence:
MWAHSMTVQDYQDLIDRGWRRSGKYVYKPVMDQTCCPQYTIRCHPLQFQPSKSHKKVLKKMLKFLAKGEISKGNCEDEPMDSTVEDAVDGDFALINKLDIKCDLKTLSDLKGSIESEEKEKEKSIKKEGSKEFIHPQSIEEKLGSGEPSHPIKVHIGPKPGKGADLSKPPCRKAREMRKERQRLKRMQQASAAASEAQGQPVCLLPKAKSNQPKSLEDLIFQSLPENASHKLEVRVVRSSPPSPQFRATFQESYQVYKRYQMVVHKDPPDKPTVSQACGHIP
IRESfinder result
IRESfinder score
0.492302676
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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