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mmu_circAte1_766_1
Basic information of circular RNA
PanCircBase ID:
mmu_circAte1_766_1
mm39_Chr. Position ID:
chr7|130105451|130115554|-
Gene name:
Ate1
Transcript:
ENSMUST00000035458.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,3760,5285,7089,10040
Genomic length:
10103
Exon/intron sizes in nt:
129,218,252,104,63
Flanking exon/introns:
chr7:130083445-130105451|chr7:130115554-130117834
Splice length:
766
Other database IDs:
CIRCpedia: MMU_CIRCpedia_7520, circAtlas: mmu-Ate1_0009
circAtlas: hsa-ATE1_0012, CIRCpedia: HSA_CIRCpedia_77123
Human Ortholog IDs:
Mature spliced Sequence:
AAGTGGGAAATATGTGTACAAACCTGTCATGGATCAAACATGCTGTCCTCAGTATACAATAAGGTGTCATCCTTTACAGTTTCAGCCATCAAAATCTCACAAGAAAGTTTTGAAAAAAATGCTGAAATTTCTGGCTAAAGGAGAGATCTCGAAAGGCAATTGTGAGGATGAGCCCATGGATTCTACAGTGGAGGATGCTGTTGACGGTGACTTTGCATTAATTAACAAGCTGGATATAAAGTGTGATCTCAAAACACTCAGTGACCTCAAAGGAAGCATAGAGAGTGAAGAGAAGGAGAAAGAAAAGAGTATAAAGAAAGAAGGGTCTAAAGAATTCATTCATCCACAATCTATAGAGGAGAAGTTGGGCTCTGGTGAACCATCACATCCAATCAAAGTTCATATTGGTCCTAAGCCAGGCAAAGGGGCTGACTTGAGTAAGCCTCCATGTCGGAAAGCAAGGGAAATGAGGAAAGAAAGGCAAAGATTAAAACGGATGCAGCAGGCCTCAGCTGCAGCCTCGGAGGCTCAAGGTCAGCCAGTCTGTTTGTTACCAAAGGCTAAATCCAACCAGCCCAAGTCACTGGAAGATTTGATTTTTCAATCTTTACCAGAAAATGCATCGCACAAGTTAGAGGTGAGGCTAGTACCTGCCTCCTTTGAGGACCCAGAGTTCAACTCATCCTTCAACCAGTCCTTTTCTTTATATACCAAGTATCAAGTGGCTATACACCAGGAAGCACCTGAAATATGTGAAAAGTCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCTATACACCAGGAAGCAC
59.79
TGAGATTTTGATGGCTGAAACTGT
59.17
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCTATACACCAGGAAGCA
59.79
TGAGATTTTGATGGCTGAAACTGT
59.17
144
PCR template sequence:
CCCAGAGTTCAACTCATCCTTCAACCAGTCCTTTTCTTTATATACCAAGTATCAAGTGGCTATACACCAGGAAGCACCTGAAATATGTGAAAAGTCTGAGAAGTGGGAAATATGTGTACAAACCTGTCATGGATCAAACATGCTGTCCTCAGTATACAATAAGGTGTCATCCTTTACAGTTTCAGCCATCAAAATCTCAC
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-326-3p(1), mmu-miR-495-3p(1), mmu-miR-301b-3p(1), mmu-miR-340-5p(1), mmu-miR-301a-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAAAGTCTGAGAAGTGGGAAATAT
siRNA sets
TATTTCCCACTTCTCAGAC, ATATTTCCCACTTCTCAGA, ATTTCCCACTTCTCAGACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATE1_766_1_ORF_1
0.7946
0.059983901
0.940782405
876
ORF sequence:
ATGGATCAAACATGCTGTCCTCAGTATACAATAAGGTGTCATCCTTTACAGTTTCAGCCATCAAAATCTCACAAGAAAGTTTTGAAAAAAATGCTGAAATTTCTGGCTAAAGGAGAGATCTCGAAAGGCAATTGTGAGGATGAGCCCATGGATTCTACAGTGGAGGATGCTGTTGACGGTGACTTTGCATTAATTAACAAGCTGGATATAAAGTGTGATCTCAAAACACTCAGTGACCTCAAAGGAAGCATAGAGAGTGAAGAGAAGGAGAAAGAAAAGAGTATAAAGAAAGAAGGGTCTAAAGAATTCATTCATCCACAATCTATAGAGGAGAAGTTGGGCTCTGGTGAACCATCACATCCAATCAAAGTTCATATTGGTCCTAAGCCAGGCAAAGGGGCTGACTTGAGTAAGCCTCCATGTCGGAAAGCAAGGGAAATGAGGAAAGAAAGGCAAAGATTAAAACGGATGCAGCAGGCCTCAGCTGCAGCCTCGGAGGCTCAAGGTCAGCCAGTCTGTTTGTTACCAAAGGCTAAATCCAACCAGCCCAAGTCACTGGAAGATTTGATTTTTCAATCTTTACCAGAAAATGCATCGCACAAGTTAGAGGTGAGGCTAGTACCTGCCTCCTTTGAGGACCCAGAGTTCAACTCATCCTTCAACCAGTCCTTTTCTTTATATACCAAGTATCAAGTGGCTATACACCAGGAAGCACCTGAAATATGTGAAAAGTCTGAGAAGTGGGAAATATGTGTACAAACCTGTCATGGATCAAACATGCTGTCCTCAGTATACAATAAGGTGTCATCCTTTACAGTTTCAGCCATCAAAATCTCACAAGAAAGTTTTGAAAAAAATGCTGAAATTTCTGGCTAA
Peptide sequence:
MDQTCCPQYTIRCHPLQFQPSKSHKKVLKKMLKFLAKGEISKGNCEDEPMDSTVEDAVDGDFALINKLDIKCDLKTLSDLKGSIESEEKEKEKSIKKEGSKEFIHPQSIEEKLGSGEPSHPIKVHIGPKPGKGADLSKPPCRKAREMRKERQRLKRMQQASAAASEAQGQPVCLLPKAKSNQPKSLEDLIFQSLPENASHKLEVRLVPASFEDPEFNSSFNQSFSLYTKYQVAIHQEAPEICEKSEKWEICVQTCHGSNMLSSVYNKVSSFTVSAIKISQESFEKNAEISG
IRESfinder result
IRESfinder score
0.596575414
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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