top of page
mmu_circAkap1_2174
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap1_2174
mm39_Chr. Position ID:
chr11|88727837|88736691|-
Gene name:
Akap1
Transcript:
ENSMUST00000107903.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,1918,2613,4157,7247
Genomic length:
8854
Exon/intron sizes in nt:
1,78,12,81,27,13,41,600
Flanking exon/introns:
chr11:88726056-88727837|chr11:88736691-88742176
Splice length:
2174
Other database IDs:
circAtlas: mmu-Akap1_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTGTAGCTACTTCACATCGACTGACTCCAAGATGGCAATCCAGTTGCGTTCGCTCTTCCCCTTGGCGTTGCCCGGAATGCTGGCCCTCCTTGGCTGGTGGTGGTTTTTCTCTCGTAAAAAAGATCGGCTCAGCAGCAGTGATAAGCAGGTGGAGACACTGAAGGTTGGCCCTGCCATCAAGGACCGACGGCTCAGTGAAGAGGCCTGTCCTGGAGTCCTGTCTGTGGCCCCCACTGTCACACAGCCTCCTGGAAGGGAAGAGCAGCGCTGTGTGGACAAGCCTTCTACAGAGCCCCTGGCCTTGCCGAGGACTCGCCAGGTTCGACGAAGATCAGAGTCCTCAGGCAACCTCCCCAGCGTTGCAGACACGAGGTCGCAGCCAGGACCGTGCAGAGATGAGATCGCCAAAGTGGAACTCTCCCTGATGGGGGACAAAGCCAAATCTATTCCTCTTGGATGTCCGCTTCTCCCAAAGGATGCGTCCTTCCCCTATGAAGCAGTGGAAAGGTGTAAGCAGGAGTCCGCACTGGGCAAGACTCCTGGAAGAGGCTGGCCAAGCCCGTATGCGGCCTCTGGAGAGAAAGCGAGAGAGACAGGTGGGACAGAGGGGACTGGAGATGCTGTGTTGGGGGAAAATGTATCTGAGGAAGGCCTATTGTCCCAGGAGTGTGTCTCAGAAGTGGAGAAGAGTGAGTTTCCAATCCTGGCCCCCGGGGGAGGTGAGGGAGAAGAGGTGAGCCATGGCCCCCCACAGGTAGCTGAACTTTTAAAGAAGGAAGAATATATTGTTGGGAAGTTGCCGAGTAGCTTTGTGGAGCCAGTTCACTCAGAGCCGGTTAAGGACGAGGATGCGTTGGAACCCCAGGTCAAAGGTAGCAGCAATACTTCGGATAGAGACCTGGCTGGAGAGCTGGACAAAGACGAGACCGTGCCTGAAAATGACCAGATTAAGCAGGCTGCCTTCCAGCTCATCTCCCAGGTGATCTTGGAAGCAACTGAAGAGTTTCGGGCCACCACAGTGGGCAAGACTGTGGCACAAGTGCACCCAACCTCGGCCACTCAGCCTAAGGGGAAGGAGGAGAGCTGTGTTCCAGCCAGCCAGGAAACTAGCTTGGGACAAGACACCTCAGATCCTGCTTCCACCAGAACAGGTGCCACTGCCAGCCCTTCAGCAGAAGCTCTGCCACCAAAGACCTATGTAAGCTGTCTCAGCAGCCCTCTGTCAGGCCCCACCAAGGACCAGAAGCCAAAGAACTCTGCACATCACATCTCCCTGGCTCCCTGCCCACCGCCAGTCACCCCCCAGAGGCAGTCTCTGGAGGGGGCAAGTAACCCGAGAGGTGATGACAACTTTGTCGCCTGTATGGCCAACAACAGCCAGAGTGTCCTTTCAGTTAGCTCCTTGGGGCAGTGCTCAGATCCTGTCAGTACTTCGGGGCTTGAAGACTCTTGCACAGAGACCATCTCAAGCTCCGGAGACAAAGCTATGACCCCACCACTGCCAGTCAGTACTCAGCCCTTCAGCAACGGGGTGCTGAAGGAGGAGCTGTCAGACTTAGGGACCGAGGATGGATGGACCATGGATACAGAAGCAGATCACTCAGGAGGTTCTGACGGGAACAGTATGGATTCAGTGGATAGCTGTTGCGGGCTTACCAAGCCCGATAGCCCCCAGAGTGTCCAGGCAGGCTCCAACCCTAAGAAGGTTGACCTTATCATCTGGGAGATCGAGGTGCCAAAGCACTTAGTTGGTCGACTGATTGGCAAGCAGGGACGGTACGTGAGTTTTCTGAAGCAGACATCTGGTGCCAAGATCTACATCTCCACCCTGCCTTACACACAGAACATCCAGATCTGCCACATAGAAGGCTCTCAGCACCATGTAGACAAAGCTCTGAACTTGATTGGGAAGAAGTTTAAGGAACTGAACCTCACCAATATCTATGCGCCACCACTGCCTTCGCTGGCACTGCCTTCCTTGCCGATGACGTCTTGGCTCATGCTGCCTGATGGTATCACTGTGGAAGTCATCGTGGTCAACCAGGTCAATGCTGGGCACCTATTTGTCCAGCAGCACACACACCCCACCTTCCATGCACTGCGCAGTCTGGACCAGCAGATGTACCTCTGTTACTCTCAGCCTGGAATCCCCACCTTGCCCACCCCAGTGGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACACACCCCACCTTCCATG
60.9
GAGCGAACGCAACTGGATTG
60.18
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACACACCCCACCTTCCATG
60.9
AGAGCGAACGCAACTGGATT
60.32
154
PCR template sequence:
CACACACACCCCACCTTCCATGCACTGCGCAGTCTGGACCAGCAGATGTACCTCTGTTACTCTCAGCCTGGAATCCCCACCTTGCCCACCCCAGTGGAAAGTGTAGCTACTTCACATCGACTGACTCCAAGATGGCAATCCAGTTGCGTTCGCTCTTCCCCTTGGCGTTGCCCGGAATGCTGGCCCTCCTTGGCTGGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
Interacting miRNAs (#binding sites)
mmu-miR-705(2), mmu-miR-3087-3p(2), mmu-miR-3105-3p(2), mmu-miR-134-5p(1), mmu-miR-103-3p(1), mmu-miR-34a-5p(1), mmu-miR-152-3p(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-431-5p(1), mmu-miR-96-5p(1), mmu-miR-194-5p(1), mmu-miR-362-5p(1), mmu-miR-324-3p(1), mmu-miR-107-3p(1), mmu-miR-802-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-490-3p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCCAGTGGAAAGTGTAGCTACTTC
siRNA sets
AAGTAGCTACACTTTCCAC, CTACACTTTCCACTGGGGT, GCTACACTTTCCACTGGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP1_2174_ORF_1
0.9307
0.267236249
0.999999251
2304
ORF sequence:
ATGGCAATCCAGTTGCGTTCGCTCTTCCCCTTGGCGTTGCCCGGAATGCTGGCCCTCCTTGGCTGGTGGTGGTTTTTCTCTCGTAAAAAAGATCGGCTCAGCAGCAGTGATAAGCAGGTGGAGACACTGAAGGTTGGCCCTGCCATCAAGGACCGACGGCTCAGTGAAGAGGCCTGTCCTGGAGTCCTGTCTGTGGCCCCCACTGTCACACAGCCTCCTGGAAGGGAAGAGCAGCGCTGTGTGGACAAGCCTTCTACAGAGCCCCTGGCCTTGCCGAGGACTCGCCAGGTTCGACGAAGATCAGAGTCCTCAGGCAACCTCCCCAGCGTTGCAGACACGAGGTCGCAGCCAGGACCGTGCAGAGATGAGATCGCCAAAGTGGAACTCTCCCTGATGGGGGACAAAGCCAAATCTATTCCTCTTGGATGTCCGCTTCTCCCAAAGGATGCGTCCTTCCCCTATGAAGCAGTGGAAAGGTGTAAGCAGGAGTCCGCACTGGGCAAGACTCCTGGAAGAGGCTGGCCAAGCCCGTATGCGGCCTCTGGAGAGAAAGCGAGAGAGACAGGTGGGACAGAGGGGACTGGAGATGCTGTGTTGGGGGAAAATGTATCTGAGGAAGGCCTATTGTCCCAGGAGTGTGTCTCAGAAGTGGAGAAGAGTGAGTTTCCAATCCTGGCCCCCGGGGGAGGTGAGGGAGAAGAGGTGAGCCATGGCCCCCCACAGGTAGCTGAACTTTTAAAGAAGGAAGAATATATTGTTGGGAAGTTGCCGAGTAGCTTTGTGGAGCCAGTTCACTCAGAGCCGGTTAAGGACGAGGATGCGTTGGAACCCCAGGTCAAAGGTAGCAGCAATACTTCGGATAGAGACCTGGCTGGAGAGCTGGACAAAGACGAGACCGTGCCTGAAAATGACCAGATTAAGCAGGCTGCCTTCCAGCTCATCTCCCAGGTGATCTTGGAAGCAACTGAAGAGTTTCGGGCCACCACAGTGGGCAAGACTGTGGCACAAGTGCACCCAACCTCGGCCACTCAGCCTAAGGGGAAGGAGGAGAGCTGTGTTCCAGCCAGCCAGGAAACTAGCTTGGGACAAGACACCTCAGATCCTGCTTCCACCAGAACAGGTGCCACTGCCAGCCCTTCAGCAGAAGCTCTGCCACCAAAGACCTATGTAAGCTGTCTCAGCAGCCCTCTGTCAGGCCCCACCAAGGACCAGAAGCCAAAGAACTCTGCACATCACATCTCCCTGGCTCCCTGCCCACCGCCAGTCACCCCCCAGAGGCAGTCTCTGGAGGGGGCAAGTAACCCGAGAGGTGATGACAACTTTGTCGCCTGTATGGCCAACAACAGCCAGAGTGTCCTTTCAGTTAGCTCCTTGGGGCAGTGCTCAGATCCTGTCAGTACTTCGGGGCTTGAAGACTCTTGCACAGAGACCATCTCAAGCTCCGGAGACAAAGCTATGACCCCACCACTGCCAGTCAGTACTCAGCCCTTCAGCAACGGGGTGCTGAAGGAGGAGCTGTCAGACTTAGGGACCGAGGATGGATGGACCATGGATACAGAAGCAGATCACTCAGGAGGTTCTGACGGGAACAGTATGGATTCAGTGGATAGCTGTTGCGGGCTTACCAAGCCCGATAGCCCCCAGAGTGTCCAGGCAGGCTCCAACCCTAAGAAGGTTGACCTTATCATCTGGGAGATCGAGGTGCCAAAGCACTTAGTTGGTCGACTGATTGGCAAGCAGGGACGGTACGTGAGTTTTCTGAAGCAGACATCTGGTGCCAAGATCTACATCTCCACCCTGCCTTACACACAGAACATCCAGATCTGCCACATAGAAGGCTCTCAGCACCATGTAGACAAAGCTCTGAACTTGATTGGGAAGAAGTTTAAGGAACTGAACCTCACCAATATCTATGCGCCACCACTGCCTTCGCTGGCACTGCCTTCCTTGCCGATGACGTCTTGGCTCATGCTGCCTGATGGTATCACTGTGGAAGTCATCGTGGTCAACCAGGTCAATGCTGGGCACCTATTTGTCCAGCAGCACACACACCCCACCTTCCATGCACTGCGCAGTCTGGACCAGCAGATGTACCTCTGTTACTCTCAGCCTGGAATCCCCACCTTGCCCACCCCAGTGGAAAGTGTAGCTACTTCACATCGACTGACTCCAAGATGGCAATCCAGTTGCGTTCGCTCTTCCCCTTGGCGTTGCCCGGAATGCTGGCCCTCCTTGGCTGGTGGTGGTTTTTCTCTCGTAAAAAAGATCGGCTCAGCAGCAGTGATAAGCAGGTGGAGACACTGA
Peptide sequence:
MAIQLRSLFPLALPGMLALLGWWWFFSRKKDRLSSSDKQVETLKVGPAIKDRRLSEEACPGVLSVAPTVTQPPGREEQRCVDKPSTEPLALPRTRQVRRRSESSGNLPSVADTRSQPGPCRDEIAKVELSLMGDKAKSIPLGCPLLPKDASFPYEAVERCKQESALGKTPGRGWPSPYAASGEKARETGGTEGTGDAVLGENVSEEGLLSQECVSEVEKSEFPILAPGGGEGEEVSHGPPQVAELLKKEEYIVGKLPSSFVEPVHSEPVKDEDALEPQVKGSSNTSDRDLAGELDKDETVPENDQIKQAAFQLISQVILEATEEFRATTVGKTVAQVHPTSATQPKGKEESCVPASQETSLGQDTSDPASTRTGATASPSAEALPPKTYVSCLSSPLSGPTKDQKPKNSAHHISLAPCPPPVTPQRQSLEGASNPRGDDNFVACMANNSQSVLSVSSLGQCSDPVSTSGLEDSCTETISSSGDKAMTPPLPVSTQPFSNGVLKEELSDLGTEDGWTMDTEADHSGGSDGNSMDSVDSCCGLTKPDSPQSVQAGSNPKKVDLIIWEIEVPKHLVGRLIGKQGRYVSFLKQTSGAKIYISTLPYTQNIQICHIEGSQHHVDKALNLIGKKFKELNLTNIYAPPLPSLALPSLPMTSWLMLPDGITVEVIVVNQVNAGHLFVQQHTHPTFHALRSLDQQMYLCYSQPGIPTLPTPVESVATSHRLTPRWQSSCVRSSPWRCPECWPSLAGGGFSLVKKIGSAAVISRWRH
IRESfinder result
IRESfinder score
0.436153332
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page