top of page
mmu_circAkap13_495
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap13_495
mm39_Chr. Position ID:
chr7|75376717|75378899|+
Gene name:
Akap13
Transcript:
ENSMUST00000166315.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
23,24,25
Exon/intron offsets:
0,1826,2064
Genomic length:
2182
Exon/intron sizes in nt:
25,11,26,118
Flanking exon/introns:
chr7:75375868-75376717|chr7:75378899-75380110
Splice length:
495
Other database IDs:
circAtlas: mmu-Akap13_0046
Human Ortholog IDs:
Mature spliced Sequence:
AGTTGATGCAGACAGAGTTACATCACATCCGCACACTCAAGATCATGAGTGACGTGTACAGCCGGGGCATGATGACAGATCTGCTCTTTGAGCAGCAGATGGTGGAAAAGCTGTTCCCCTGCTTGGATGAGCTGATCAGTATCCACAGCCAGTTCTTTCAGAGGATCCTGGAGCGGAAGAAGGAGTCTCTTGTGGATAAGAGTGAAAAGAACTTTCTCATCAAGAGGATAGGGGATGTGCTTGTCAGTCAGTTCTCAGGTGAGAGTGCAGAGCGCTTAAAGAAGACATACGGCAAGTTCTGTGGACAGCACAACCAGTCTGTCAACTACTTCAAAGACCTCTACACCAAGGATAAGCGTTTCCAAGCCTTTGTGAAGAAGAAGATGAGCAGTTCAGTAGTAAGAAGGCTGGGAATTCCAGAGTGCATTTTACTTGTAACTCAGAGGATCACCAAGTACCCAGTTTTATTCCAAAGGATACTGCAATGTACCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGAATTCCAGAGTGCATT
57.09
CGGCTGTACACGTCACTCAT
60.11
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTAAGAAGGCTGGGAATTCCA
59.08
CGGCTGTACACGTCACTCAT
60.11
162
PCR template sequence:
GTAGTAAGAAGGCTGGGAATTCCAGAGTGCATTTTACTTGTAACTCAGAGGATCACCAAGTACCCAGTTTTATTCCAAAGGATACTGCAATGTACCAAAGAGTTGATGCAGACAGAGTTACATCACATCCGCACACTCAAGATCATGAGTGACGTGTACAGCCGGGGCATGATGACAGATCTGCTCTTTGAGCAGCAGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-146a-5p(1), mmu-miR-33-5p(1), mmu-miR-411-3p(1), mmu-miR-362-5p(1), mmu-miR-3470b(1), mmu-miR-350-3p(1), mmu-miR-574-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAATGTACCAAAGAGTTGATGCAGAC
siRNA sets
GTCTGCATCAACTCTTTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP13_495_ORF_1
1.2897
0.34314579
0.996445516
984
ORF sequence:
ATGCAGACAGAGTTACATCACATCCGCACACTCAAGATCATGAGTGACGTGTACAGCCGGGGCATGATGACAGATCTGCTCTTTGAGCAGCAGATGGTGGAAAAGCTGTTCCCCTGCTTGGATGAGCTGATCAGTATCCACAGCCAGTTCTTTCAGAGGATCCTGGAGCGGAAGAAGGAGTCTCTTGTGGATAAGAGTGAAAAGAACTTTCTCATCAAGAGGATAGGGGATGTGCTTGTCAGTCAGTTCTCAGGTGAGAGTGCAGAGCGCTTAAAGAAGACATACGGCAAGTTCTGTGGACAGCACAACCAGTCTGTCAACTACTTCAAAGACCTCTACACCAAGGATAAGCGTTTCCAAGCCTTTGTGAAGAAGAAGATGAGCAGTTCAGTAGTAAGAAGGCTGGGAATTCCAGAGTGCATTTTACTTGTAACTCAGAGGATCACCAAGTACCCAGTTTTATTCCAAAGGATACTGCAATGTACCAAAGAGTTGATGCAGACAGAGTTACATCACATCCGCACACTCAAGATCATGAGTGACGTGTACAGCCGGGGCATGATGACAGATCTGCTCTTTGAGCAGCAGATGGTGGAAAAGCTGTTCCCCTGCTTGGATGAGCTGATCAGTATCCACAGCCAGTTCTTTCAGAGGATCCTGGAGCGGAAGAAGGAGTCTCTTGTGGATAAGAGTGAAAAGAACTTTCTCATCAAGAGGATAGGGGATGTGCTTGTCAGTCAGTTCTCAGGTGAGAGTGCAGAGCGCTTAAAGAAGACATACGGCAAGTTCTGTGGACAGCACAACCAGTCTGTCAACTACTTCAAAGACCTCTACACCAAGGATAAGCGTTTCCAAGCCTTTGTGAAGAAGAAGATGAGCAGTTCAGTAGTAAGAAGGCTGGGAATTCCAGAGTGCATTTTACTTGTAACTCAGAGGATCACCAAGTACCCAGTTTTATTCCAAAGGATACTGCAATGTACCAAA
Peptide sequence:
MQTELHHIRTLKIMSDVYSRGMMTDLLFEQQMVEKLFPCLDELISIHSQFFQRILERKKESLVDKSEKNFLIKRIGDVLVSQFSGESAERLKKTYGKFCGQHNQSVNYFKDLYTKDKRFQAFVKKKMSSSVVRRLGIPECILLVTQRITKYPVLFQRILQCTKELMQTELHHIRTLKIMSDVYSRGMMTDLLFEQQMVEKLFPCLDELISIHSQFFQRILERKKESLVDKSEKNFLIKRIGDVLVSQFSGESAERLKKTYGKFCGQHNQSVNYFKDLYTKDKRFQAFVKKKMSSSVVRRLGIPECILLVTQRITKYPVLFQRILQCTK
IRESfinder result
IRESfinder score
0.605996414
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page