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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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