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mmu_circAtp11c_1681
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp11c_1681
mm39_Chr. Position ID:
chrX|59312095|59337743|-
Gene name:
Atp11c
Transcript:
ENSMUST00000154051.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9
Exon/intron offsets:
0,2998,9872,10641,12058,13296,13921,14832,23158,23834,25184,25583
Genomic length:
25648
Exon/intron sizes in nt:
175,264,182,104,74,72,152,162,198,151,82,65
Flanking exon/introns:
chrX:59307114-59312095|chrX:59337743-59338966
Splice length:
1681
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCTTTGGGACCTGAAAATCTTTTGCTGAAAGGAGCCACACTTAAAAATACCAAGAAGATATATGGAGTTGCTGTTTACACTGGGATGGAAACCAAAATGGCTTTGAACTACCAAGGGAAATCTCAGAAATGTTCTGCTGTTGAAAAATCTATTAATGCCTTCTTGATTGTTTATTTATTTATCTTACTGACCAAAGCTGCAGTATGCACAACTCTTAAGTATGTTTGGCAAAGTTCCCCATACAATGATGAACCATGGTATAACCAAAAGACTCAAAAGGAACGGGAAACTTTTCAGGTTTTGAAAATGTTCACTGACTTTTTATCATTCATGGTTCTTTTCAACTTCATTATACCTGTCTCCATGTATGTCACAGTAGAAATGCAGAAATTTTTAGGGTCATTCTTTATTTCATGGGATAAAGACTTTTTTGATGAAGAAATTAATGAAGGAGCCTTGGTTAATACATCAGACCTTAATGAAGAACTTGGTCAGGTGGACTATGTATTTACAGATAAGACTGGGACACTCACTGAAAATAGCATGGAATTCATTGAATGCTGCATAGATGGGCACAAATATAAAGGCACAACTCAGGAAGTTGATGGATTATCTCAGACTGATGGGCCCTTAGCCTATTTTGATAAAGCAGATAAGAACCGAGAGGCACTCTTTCTCCGTGCCCTATGCTTATGTCACACTGTAGAAATGAAAACAAATGATGATGTTGATGGACCTGTAGAAGGAGCCGGATTCACATATATCTCCTCCTCACCAGATGAAATAGCTTTGGTGAAAGGAGCTAAAAGGTTTGGGTTCACATTTTTGGGAAATCAGAATGGATATATCAGAGTAGAGAACCAAAGAAAAGAAATAGAAGAGTATGAACTTCTCCACACCTTAAATTTTGATTCTGTCCGCCGACGTATGAGTGTAATTGTAAGGACCCAAAAAGGAGATATTCTACTTTTCTGTAAAGGAGCAGATTCATCAATTTTTCCCAGGGTACATAGCCATCAAATTGAGTTAACCAAAGACCATGTGGAACGTAATGCAATGGATGGGTATCGGACTCTTTGTGTAGCCTTCAAAGAAATTCCTCCAGATGATTTTGAAAGAATCAATGCACAACTAGTAGAGGCAAAAATGGCCCTACAAGATAGAGAAGAAAAACTGGAAAAGGTTTTTGATGAGATTGAGACTAACATGAATTTAATTGGAGCCACTGCTGTGGAAGACAAGCTGCAAGATCAGGCTGCAGAGACCATTGAAGCTCTCCATGCAGCTGGCTTAAAAGTCTGGGTGCTTACTGGGGACAAGATGGAAACAGCCAAATCTACTTGCTATGCCTGCCGCCTTTTCCAAACCAATACTGAGCTCTTGGAACTGACCACAAAAACCATTGAAGAGAGTGAAAGGAAAGAAGATCGATTACATGAACTGCTAATAGAATATCGTAAGAAGTTGCTGCATGAATTTCCTAAAAGCACTAGAAGCCTTAAAAAAGCATGGACAGAACATCAGGAATATGGATTAATCATTGATGGCTCCACATTGTCACTCATACTAAATTCTAGTCAAGATTGTAGTTCAAACAACTATAAAAGTATTTTTCTACAAATCTGTATGAAATGCACTGCAGTGCTCTGCTGCCGGATGGCACCATTACAAAAAGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTATGAAATGCACTGCAGTG
59.56
TCCATCCCAGTGTAAACAGCA
59.3
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTATGAAATGCACTGCAGTG
59.56
CCCAGTGTAAACAGCAACTCC
59.12
144
PCR template sequence:
AGATTGTAGTTCAAACAACTATAAAAGTATTTTTCTACAAATCTGTATGAAATGCACTGCAGTGCTCTGCTGCCGGATGGCACCATTACAAAAAGCCCAGGTCTTTGGGACCTGAAAATCTTTTGCTGAAAGGAGCCACACTTAAAAATACCAAGAAGATATATGGAGTTGCTGTTTACACTGGGATGGAAACCAAAATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(3), mmu-miR-199a-5p(1), mmu-miR-322-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-216a-5p(1), mmu-miR-139-5p(1), mmu-miR-181b-5p(1), mmu-miR-194-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAAAAAGCCCAGGTCTTTGGGACCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP11C_1681_ORF_1
0.8138
0.010420283
0.9996142
1611
ORF sequence:
ATGGAAACCAAAATGGCTTTGAACTACCAAGGGAAATCTCAGAAATGTTCTGCTGTTGAAAAATCTATTAATGCCTTCTTGATTGTTTATTTATTTATCTTACTGACCAAAGCTGCAGTATGCACAACTCTTAAGTATGTTTGGCAAAGTTCCCCATACAATGATGAACCATGGTATAACCAAAAGACTCAAAAGGAACGGGAAACTTTTCAGGTTTTGAAAATGTTCACTGACTTTTTATCATTCATGGTTCTTTTCAACTTCATTATACCTGTCTCCATGTATGTCACAGTAGAAATGCAGAAATTTTTAGGGTCATTCTTTATTTCATGGGATAAAGACTTTTTTGATGAAGAAATTAATGAAGGAGCCTTGGTTAATACATCAGACCTTAATGAAGAACTTGGTCAGGTGGACTATGTATTTACAGATAAGACTGGGACACTCACTGAAAATAGCATGGAATTCATTGAATGCTGCATAGATGGGCACAAATATAAAGGCACAACTCAGGAAGTTGATGGATTATCTCAGACTGATGGGCCCTTAGCCTATTTTGATAAAGCAGATAAGAACCGAGAGGCACTCTTTCTCCGTGCCCTATGCTTATGTCACACTGTAGAAATGAAAACAAATGATGATGTTGATGGACCTGTAGAAGGAGCCGGATTCACATATATCTCCTCCTCACCAGATGAAATAGCTTTGGTGAAAGGAGCTAAAAGGTTTGGGTTCACATTTTTGGGAAATCAGAATGGATATATCAGAGTAGAGAACCAAAGAAAAGAAATAGAAGAGTATGAACTTCTCCACACCTTAAATTTTGATTCTGTCCGCCGACGTATGAGTGTAATTGTAAGGACCCAAAAAGGAGATATTCTACTTTTCTGTAAAGGAGCAGATTCATCAATTTTTCCCAGGGTACATAGCCATCAAATTGAGTTAACCAAAGACCATGTGGAACGTAATGCAATGGATGGGTATCGGACTCTTTGTGTAGCCTTCAAAGAAATTCCTCCAGATGATTTTGAAAGAATCAATGCACAACTAGTAGAGGCAAAAATGGCCCTACAAGATAGAGAAGAAAAACTGGAAAAGGTTTTTGATGAGATTGAGACTAACATGAATTTAATTGGAGCCACTGCTGTGGAAGACAAGCTGCAAGATCAGGCTGCAGAGACCATTGAAGCTCTCCATGCAGCTGGCTTAAAAGTCTGGGTGCTTACTGGGGACAAGATGGAAACAGCCAAATCTACTTGCTATGCCTGCCGCCTTTTCCAAACCAATACTGAGCTCTTGGAACTGACCACAAAAACCATTGAAGAGAGTGAAAGGAAAGAAGATCGATTACATGAACTGCTAATAGAATATCGTAAGAAGTTGCTGCATGAATTTCCTAAAAGCACTAGAAGCCTTAAAAAAGCATGGACAGAACATCAGGAATATGGATTAATCATTGATGGCTCCACATTGTCACTCATACTAAATTCTAGTCAAGATTGTAGTTCAAACAACTATAAAAGTATTTTTCTACAAATCTGTATGAAATGCACTGCAGTGCTCTGCTGCCGGATGGCACCATTACAAAAAGCCCAGGTCTTTGGGACCTGA
Peptide sequence:
METKMALNYQGKSQKCSAVEKSINAFLIVYLFILLTKAAVCTTLKYVWQSSPYNDEPWYNQKTQKERETFQVLKMFTDFLSFMVLFNFIIPVSMYVTVEMQKFLGSFFISWDKDFFDEEINEGALVNTSDLNEELGQVDYVFTDKTGTLTENSMEFIECCIDGHKYKGTTQEVDGLSQTDGPLAYFDKADKNREALFLRALCLCHTVEMKTNDDVDGPVEGAGFTYISSSPDEIALVKGAKRFGFTFLGNQNGYIRVENQRKEIEEYELLHTLNFDSVRRRMSVIVRTQKGDILLFCKGADSSIFPRVHSHQIELTKDHVERNAMDGYRTLCVAFKEIPPDDFERINAQLVEAKMALQDREEKLEKVFDEIETNMNLIGATAVEDKLQDQAAETIEALHAAGLKVWVLTGDKMETAKSTCYACRLFQTNTELLELTTKTIEESERKEDRLHELLIEYRKKLLHEFPKSTRSLKKAWTEHQEYGLIIDGSTLSLILNSSQDCSSNNYKSIFLQICMKCTAVLCCRMAPLQKAQVFGT
IRESfinder result
IRESfinder score
0.727142342
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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