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mmu_circAtg13_888
Basic information of circular RNA
PanCircBase ID:
mmu_circAtg13_888
mm39_Chr. Position ID:
chr2|91510687|91522892|-
Gene name:
Atg13
Transcript:
ENSMUST00000076803.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,1216,4326,4808,5439,6158,8298,9448,12085
Genomic length:
12205
Exon/intron sizes in nt:
1,15,13,79,19,99,74,11,00,00,000
Flanking exon/introns:
chr2:91510342-91510687|chr2:91522892-91524269
Splice length:
888
Other database IDs:
circAtlas: mmu-Atg13_0013
Human Ortholog IDs:
Mature spliced Sequence:
TTCAATTTAGCAATCAAAGACATCCCAGAAGTCACCCATGAAGCAAAGAAGGCCCTGTCAGGGCAGCTGCCTGCTGTGGGGCGATCTATGTGTGTGGAAATCTCACTCAAGACTTCTGAGGGAGATTCTATGGAGTTGGAAATTTGGTGTCTTGAAATGAATGAAAAGTGTGACAAAGAAATCAAAGTTTCCTACACTGTATACAACCGATTGTCACTGCTGCTGAAGTCTCTTCTCGCTATTACAAGGGTGACACCAGCCTATCGACTCTCCAGGAAGCAAGGGCATGAATATGTAATTTTGTACAGGATTTATTTTGGGGAAGTTCAACTGAATGGCTTAGGAGAAGGCTTCCAGACAGTTCGAGTTGGAACAGTGGGCACCCCTGTGGGCACCCTCACTCTTTCCTGTGCTTATAGAATTAACTTGGCATTCATGTCCACCAGGCAATTTGAGAGGACCCCACCTATCATGGGGATTATCATTGATCACTTTGTTGACCGTCCCTATCCCAGCTCTTCTCCTATGCACCCCTGTAATTACAGAACTGCTGAGGACGCAGGGGTCGCGTACCCGTCAGTGGAAGACTCTCAGGAAGTGTGTACCACATCTTTTTCCACATCCCCTCCCTCCCAGCTGATGGTTCCTGGGAAGGAAGGCGGGGTAACTCTTGCTCCCAGCCACCCCACTCATGGTGCCCAGGCTGATCCCGAGAGACTGGTGATGCACATGCCTTCTGATGGGACCCATTGTGCCGCCACGCCCTCAAGCAGTGAGGACACTGAGACTGTGTCTAACAGCAGTGAAGGACGGGCCTCACCCCATGACATCTTGGAGACTATCTTTGTCCGAAAAGTGGGAGCATTTGTCAACAAACCCATCAATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCCGAAAAGTGGGAGCA
59.82
CACACACATAGATCGCCCCA
59.82
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCACCCCATGACATCTT
59.74
CACACATAGATCGCCCCACA
59.82
169
PCR template sequence:
TGTGTCTAACAGCAGTGAAGGACGGGCCTCACCCCATGACATCTTGGAGACTATCTTTGTCCGAAAAGTGGGAGCATTTGTCAACAAACCCATCAATCAGTTCAATTTAGCAATCAAAGACATCCCAGAAGTCACCCATGAAGCAAAGAAGGCCCTGTCAGGGCAGCTGCCTGCTGTGGGGCGATCTATGTGTGTGGAAA
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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-214-3p(1), mmu-miR-342-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCATCAATCAGTTCAATTTAGCAA
siRNA sets
ATTGAACTGATTGATGGGT, TAAATTGAACTGATTGATG, AAATTGAACTGATTGATGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATG13_888_ORF_1
1.0121
0.144877046
0.999915464
1689
ORF sequence:
ATGTGTGTGGAAATCTCACTCAAGACTTCTGAGGGAGATTCTATGGAGTTGGAAATTTGGTGTCTTGAAATGAATGAAAAGTGTGACAAAGAAATCAAAGTTTCCTACACTGTATACAACCGATTGTCACTGCTGCTGAAGTCTCTTCTCGCTATTACAAGGGTGACACCAGCCTATCGACTCTCCAGGAAGCAAGGGCATGAATATGTAATTTTGTACAGGATTTATTTTGGGGAAGTTCAACTGAATGGCTTAGGAGAAGGCTTCCAGACAGTTCGAGTTGGAACAGTGGGCACCCCTGTGGGCACCCTCACTCTTTCCTGTGCTTATAGAATTAACTTGGCATTCATGTCCACCAGGCAATTTGAGAGGACCCCACCTATCATGGGGATTATCATTGATCACTTTGTTGACCGTCCCTATCCCAGCTCTTCTCCTATGCACCCCTGTAATTACAGAACTGCTGAGGACGCAGGGGTCGCGTACCCGTCAGTGGAAGACTCTCAGGAAGTGTGTACCACATCTTTTTCCACATCCCCTCCCTCCCAGCTGATGGTTCCTGGGAAGGAAGGCGGGGTAACTCTTGCTCCCAGCCACCCCACTCATGGTGCCCAGGCTGATCCCGAGAGACTGGTGATGCACATGCCTTCTGATGGGACCCATTGTGCCGCCACGCCCTCAAGCAGTGAGGACACTGAGACTGTGTCTAACAGCAGTGAAGGACGGGCCTCACCCCATGACATCTTGGAGACTATCTTTGTCCGAAAAGTGGGAGCATTTGTCAACAAACCCATCAATCAGTTCAATTTAGCAATCAAAGACATCCCAGAAGTCACCCATGAAGCAAAGAAGGCCCTGTCAGGGCAGCTGCCTGCTGTGGGGCGATCTATGTGTGTGGAAATCTCACTCAAGACTTCTGAGGGAGATTCTATGGAGTTGGAAATTTGGTGTCTTGAAATGAATGAAAAGTGTGACAAAGAAATCAAAGTTTCCTACACTGTATACAACCGATTGTCACTGCTGCTGAAGTCTCTTCTCGCTATTACAAGGGTGACACCAGCCTATCGACTCTCCAGGAAGCAAGGGCATGAATATGTAATTTTGTACAGGATTTATTTTGGGGAAGTTCAACTGAATGGCTTAGGAGAAGGCTTCCAGACAGTTCGAGTTGGAACAGTGGGCACCCCTGTGGGCACCCTCACTCTTTCCTGTGCTTATAGAATTAACTTGGCATTCATGTCCACCAGGCAATTTGAGAGGACCCCACCTATCATGGGGATTATCATTGATCACTTTGTTGACCGTCCCTATCCCAGCTCTTCTCCTATGCACCCCTGTAATTACAGAACTGCTGAGGACGCAGGGGTCGCGTACCCGTCAGTGGAAGACTCTCAGGAAGTGTGTACCACATCTTTTTCCACATCCCCTCCCTCCCAGCTGATGGTTCCTGGGAAGGAAGGCGGGGTAACTCTTGCTCCCAGCCACCCCACTCATGGTGCCCAGGCTGATCCCGAGAGACTGGTGATGCACATGCCTTCTGATGGGACCCATTGTGCCGCCACGCCCTCAAGCAGTGAGGACACTGAGACTGTGTCTAACAGCAGTGAAGGACGGGCCTCACCCCATGACATCTTGGAGACTATCTTTGTCCGAAAAGTGGGAGCATTTGTCAACAAACCCATCAATCAG
Peptide sequence:
MCVEISLKTSEGDSMELEIWCLEMNEKCDKEIKVSYTVYNRLSLLLKSLLAITRVTPAYRLSRKQGHEYVILYRIYFGEVQLNGLGEGFQTVRVGTVGTPVGTLTLSCAYRINLAFMSTRQFERTPPIMGIIIDHFVDRPYPSSSPMHPCNYRTAEDAGVAYPSVEDSQEVCTTSFSTSPPSQLMVPGKEGGVTLAPSHPTHGAQADPERLVMHMPSDGTHCAATPSSSEDTETVSNSSEGRASPHDILETIFVRKVGAFVNKPINQFNLAIKDIPEVTHEAKKALSGQLPAVGRSMCVEISLKTSEGDSMELEIWCLEMNEKCDKEIKVSYTVYNRLSLLLKSLLAITRVTPAYRLSRKQGHEYVILYRIYFGEVQLNGLGEGFQTVRVGTVGTPVGTLTLSCAYRINLAFMSTRQFERTPPIMGIIIDHFVDRPYPSSSPMHPCNYRTAEDAGVAYPSVEDSQEVCTTSFSTSPPSQLMVPGKEGGVTLAPSHPTHGAQADPERLVMHMPSDGTHCAATPSSSEDTETVSNSSEGRASPHDILETIFVRKVGAFVNKPINQ
IRESfinder result
IRESfinder score
0.655677256
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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