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mmu_circAtg13_1375
Basic information of circular RNA
PanCircBase ID:
mmu_circAtg13_1375
mm39_Chr. Position ID:
chr2|91509071|91526344|-
Gene name:
Atg13
Transcript:
ENSMUST00000076803.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,586,1193,1616,2832,5942,6424,7055,7774,9914,11064,13701,15198,17191
Genomic length:
17273
Exon/intron sizes in nt:
129,117,78,115,137,91,99,97,41,141,47,120,81,82
Flanking exon/introns:
chr2:91506808-91509071|chr2:91526344-91540591
Splice length:
1375
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTTCCAGCAGGCAATGGAAACTGAACTCAGCTCCCAGGACAGGAAGGACTTGGACAAGTTTATTAAGTTTTTTGCCCTCAAGACTGTCCAAGTGATTGTCCAGGCTCGACTTGGAGAAAAGATTTGCACCCGCTCATCATCTTCCCCGACGGGTTCAGATTGGTTCAATTTAGCAATCAAAGACATCCCAGAAGTCACCCATGAAGCAAAGAAGGCCCTGTCAGGGCAGCTGCCTGCTGTGGGGCGATCTATGTGTGTGGAAATCTCACTCAAGACTTCTGAGGGAGATTCTATGGAGTTGGAAATTTGGTGTCTTGAAATGAATGAAAAGTGTGACAAAGAAATCAAAGTTTCCTACACTGTATACAACCGATTGTCACTGCTGCTGAAGTCTCTTCTCGCTATTACAAGGGTGACACCAGCCTATCGACTCTCCAGGAAGCAAGGGCATGAATATGTAATTTTGTACAGGATTTATTTTGGGGAAGTTCAACTGAATGGCTTAGGAGAAGGCTTCCAGACAGTTCGAGTTGGAACAGTGGGCACCCCTGTGGGCACCCTCACTCTTTCCTGTGCTTATAGAATTAACTTGGCATTCATGTCCACCAGGCAATTTGAGAGGACCCCACCTATCATGGGGATTATCATTGATCACTTTGTTGACCGTCCCTATCCCAGCTCTTCTCCTATGCACCCCTGTAATTACAGAACTGCTGAGGACGCAGGGGTCGCGTACCCGTCAGTGGAAGACTCTCAGGAAGTGTGTACCACATCTTTTTCCACATCCCCTCCCTCCCAGCTGATGGTTCCTGGGAAGGAAGGCGGGGTAACTCTTGCTCCCAGCCACCCCACTCATGGTGCCCAGGCTGATCCCGAGAGACTGGTGATGCACATGCCTTCTGATGGGACCCATTGTGCCGCCACGCCCTCAAGCAGTGAGGACACTGAGACTGTGTCTAACAGCAGTGAAGGACGGGCCTCACCCCATGACATCTTGGAGACTATCTTTGTCCGAAAAGTGGGAGCATTTGTCAACAAACCCATCAATCAGGTGACTGTGACGAGTTTGGACATACCTTTCGCCATGTTTGCTCCCAAGAATTTGGAGCTGGAGGATGCTGATCCTATGGTGAATCCCCCGGAGTCCCCAGAGACCACATCTCCCCTCCATGGCAGCCTGCACTCAGATGGCTCCAGCGGGGGCAGCGGGGGCAGCACACATGACGACTTTGTTATGATTGACTTTAAACCAGCTTTTTCTAAAGACGACATTCTTCCAATGGACTTGGGGACCTTCTACCGTGAATTTCAGAACCCCCCTCAGCTGAGCAGCCTCTCCATAGATTTTGGAGCTCAGTCTATGGCGGAAGATTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGTGAATTTCAGAACCCCC
58.83
CTTGGACAGTCTTGAGGGCA
59.6
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGTGAATTTCAGAACCCCC
58.83
ACTTGGACAGTCTTGAGGGC
59.6
169
PCR template sequence:
TCCAATGGACTTGGGGACCTTCTACCGTGAATTTCAGAACCCCCCTCAGCTGAGCAGCCTCTCCATAGATTTTGGAGCTCAGTCTATGGCGGAAGATTTGGTTCCAGCAGGCAATGGAAACTGAACTCAGCTCCCAGGACAGGAAGGACTTGGACAAGTTTATTAAGTTTTTTGCCCTCAAGACTGTCCAAGTGATTGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-320-3p(1), mmu-miR-326-3p(1), mmu-miR-214-3p(1), mmu-miR-434-3p(1), mmu-miR-342-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCGGAAGATTTGGTTCCAGCAGGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATG13_1375_ORF_1
1.004
0.192785768
0.999357662
1386
ORF sequence:
ATGGAAACTGAACTCAGCTCCCAGGACAGGAAGGACTTGGACAAGTTTATTAAGTTTTTTGCCCTCAAGACTGTCCAAGTGATTGTCCAGGCTCGACTTGGAGAAAAGATTTGCACCCGCTCATCATCTTCCCCGACGGGTTCAGATTGGTTCAATTTAGCAATCAAAGACATCCCAGAAGTCACCCATGAAGCAAAGAAGGCCCTGTCAGGGCAGCTGCCTGCTGTGGGGCGATCTATGTGTGTGGAAATCTCACTCAAGACTTCTGAGGGAGATTCTATGGAGTTGGAAATTTGGTGTCTTGAAATGAATGAAAAGTGTGACAAAGAAATCAAAGTTTCCTACACTGTATACAACCGATTGTCACTGCTGCTGAAGTCTCTTCTCGCTATTACAAGGGTGACACCAGCCTATCGACTCTCCAGGAAGCAAGGGCATGAATATGTAATTTTGTACAGGATTTATTTTGGGGAAGTTCAACTGAATGGCTTAGGAGAAGGCTTCCAGACAGTTCGAGTTGGAACAGTGGGCACCCCTGTGGGCACCCTCACTCTTTCCTGTGCTTATAGAATTAACTTGGCATTCATGTCCACCAGGCAATTTGAGAGGACCCCACCTATCATGGGGATTATCATTGATCACTTTGTTGACCGTCCCTATCCCAGCTCTTCTCCTATGCACCCCTGTAATTACAGAACTGCTGAGGACGCAGGGGTCGCGTACCCGTCAGTGGAAGACTCTCAGGAAGTGTGTACCACATCTTTTTCCACATCCCCTCCCTCCCAGCTGATGGTTCCTGGGAAGGAAGGCGGGGTAACTCTTGCTCCCAGCCACCCCACTCATGGTGCCCAGGCTGATCCCGAGAGACTGGTGATGCACATGCCTTCTGATGGGACCCATTGTGCCGCCACGCCCTCAAGCAGTGAGGACACTGAGACTGTGTCTAACAGCAGTGAAGGACGGGCCTCACCCCATGACATCTTGGAGACTATCTTTGTCCGAAAAGTGGGAGCATTTGTCAACAAACCCATCAATCAGGTGACTGTGACGAGTTTGGACATACCTTTCGCCATGTTTGCTCCCAAGAATTTGGAGCTGGAGGATGCTGATCCTATGGTGAATCCCCCGGAGTCCCCAGAGACCACATCTCCCCTCCATGGCAGCCTGCACTCAGATGGCTCCAGCGGGGGCAGCGGGGGCAGCACACATGACGACTTTGTTATGATTGACTTTAAACCAGCTTTTTCTAAAGACGACATTCTTCCAATGGACTTGGGGACCTTCTACCGTGAATTTCAGAACCCCCCTCAGCTGAGCAGCCTCTCCATAGATTTTGGAGCTCAGTCTATGGCGGAAGATTTGGTTCCAGCAGGCAATGGAAACTGA
Peptide sequence:
METELSSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALSGQLPAVGRSMCVEISLKTSEGDSMELEIWCLEMNEKCDKEIKVSYTVYNRLSLLLKSLLAITRVTPAYRLSRKQGHEYVILYRIYFGEVQLNGLGEGFQTVRVGTVGTPVGTLTLSCAYRINLAFMSTRQFERTPPIMGIIIDHFVDRPYPSSSPMHPCNYRTAEDAGVAYPSVEDSQEVCTTSFSTSPPSQLMVPGKEGGVTLAPSHPTHGAQADPERLVMHMPSDGTHCAATPSSSEDTETVSNSSEGRASPHDILETIFVRKVGAFVNKPINQVTVTSLDIPFAMFAPKNLELEDADPMVNPPESPETTSPLHGSLHSDGSSGGSGGSTHDDFVMIDFKPAFSKDDILPMDLGTFYREFQNPPQLSSLSIDFGAQSMAEDLVPAGNGN
IRESfinder result
IRESfinder score
0.641678312
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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