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mmu_circAkap13_707
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap13_707
mm39_Chr. Position ID:
chr7|75329567|75354287|+
Gene name:
Akap13
Transcript:
ENSMUST00000166315.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,13,14,15,16,17
Exon/intron offsets:
0,5297,7393,15804,17482,24545
Genomic length:
24720
Exon/intron sizes in nt:
5,41,93,10,94,31,33,170
Flanking exon/introns:
chr7:75327227-75329567|chr7:75354287-75367517
Splice length:
707
Other database IDs:
circAtlas: mmu-Akap13_0027
Human Ortholog IDs:
Mature spliced Sequence:
TTCAATGCGAGCTCTTGGGCATGTTGTCAGGAGACCTCCCATTCATAGGAGAAGTTTCAGTCTGGAAGGCTTGACAGGAGGAGGTGTTGGAAATAAGCCATCCTCGTCTCTAGAAATGAGCTCTGCAAACTCCAGCGAGCTCAGAAACCCTTTCGGTGGTGAGGAACAGAGAAACTCTTTGATGTCACTTTCAGAAGAACATCTGGAGCCAGACCAGAGACAGCATCATAGGATGTTTGATCAGCAGACATGTTACAGGTCTAAACAACAGGGATTTAACTACTGTACATCAGCCATTTCTTCTCCATTGACAAAATCCATCTCATTAATGACAATCAGTCATCCTGGATTGGACAGTTCACGGCCCTTCCACAGTACCAGTGCCAACCTGACCGAGAGTATAACAGAAGAAAACTGTAACTTCCTGCCTCCAAGTCCCTCAAAAAAGAATTTTGAAGAAAAGAGTGGGACTAAGGTTAGTCGCACCTTCAGCTACATCAGGAATAAAATGTCCAGCAGCAAGAAGAGCAAAGAAAAGGAAAAGGAGAAGGATAAAATTAAGGAGAAAGAGAAAGACTCTAAAGAGAAGGAAAAAGATAAAAAGACTCTTAACGGGCACACATTCAGCCCCATTCCTATTGTGGGTCCCATCAGCTGCAGCCAGTGCATGAAGCCTTTTACCAACAAGGACGCCTACACGTGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGTGGGTCCCATCAGCTG
60.03
CCTCCTGTCAAGCCTTCCAG
60.04
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGTGGGTCCCATCAGCTG
60.03
TCCAACACCTCCTCCTGTCA
60.11
161
PCR template sequence:
CTTAACGGGCACACATTCAGCCCCATTCCTATTGTGGGTCCCATCAGCTGCAGCCAGTGCATGAAGCCTTTTACCAACAAGGACGCCTACACGTGTGCAGTTCAATGCGAGCTCTTGGGCATGTTGTCAGGAGACCTCCCATTCATAGGAGAAGTTTCAGTCTGGAAGGCTTGACAGGAGGAGGTGTTGGAAATAAGCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-let-7e-5p(1), mmu-miR-135a-5p(1), mmu-miR-18a-5p(1), mmu-let-7d-5p(1), mmu-miR-149-5p(1), mmu-miR-96-5p(1), mmu-miR-98-5p(1), mmu-miR-1187(1), mmu-miR-207(1), mmu-miR-697(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACACGTGTGCAGTTCAATGCGAGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP13_707_ORF_1
0.6528
0.128830504
0.888112375
777
ORF sequence:
ATGCGAGCTCTTGGGCATGTTGTCAGGAGACCTCCCATTCATAGGAGAAGTTTCAGTCTGGAAGGCTTGACAGGAGGAGGTGTTGGAAATAAGCCATCCTCGTCTCTAGAAATGAGCTCTGCAAACTCCAGCGAGCTCAGAAACCCTTTCGGTGGTGAGGAACAGAGAAACTCTTTGATGTCACTTTCAGAAGAACATCTGGAGCCAGACCAGAGACAGCATCATAGGATGTTTGATCAGCAGACATGTTACAGGTCTAAACAACAGGGATTTAACTACTGTACATCAGCCATTTCTTCTCCATTGACAAAATCCATCTCATTAATGACAATCAGTCATCCTGGATTGGACAGTTCACGGCCCTTCCACAGTACCAGTGCCAACCTGACCGAGAGTATAACAGAAGAAAACTGTAACTTCCTGCCTCCAAGTCCCTCAAAAAAGAATTTTGAAGAAAAGAGTGGGACTAAGGTTAGTCGCACCTTCAGCTACATCAGGAATAAAATGTCCAGCAGCAAGAAGAGCAAAGAAAAGGAAAAGGAGAAGGATAAAATTAAGGAGAAAGAGAAAGACTCTAAAGAGAAGGAAAAAGATAAAAAGACTCTTAACGGGCACACATTCAGCCCCATTCCTATTGTGGGTCCCATCAGCTGCAGCCAGTGCATGAAGCCTTTTACCAACAAGGACGCCTACACGTGTGCAGTTCAATGCGAGCTCTTGGGCATGTTGTCAGGAGACCTCCCATTCATAGGAGAAGTTTCAGTCTGGAAGGCTTGA
Peptide sequence:
MRALGHVVRRPPIHRRSFSLEGLTGGGVGNKPSSSLEMSSANSSELRNPFGGEEQRNSLMSLSEEHLEPDQRQHHRMFDQQTCYRSKQQGFNYCTSAISSPLTKSISLMTISHPGLDSSRPFHSTSANLTESITEENCNFLPPSPSKKNFEEKSGTKVSRTFSYIRNKMSSSKKSKEKEKEKDKIKEKEKDSKEKEKDKKTLNGHTFSPIPIVGPISCSQCMKPFTNKDAYTCAVQCELLGMLSGDLPFIGEVSVWKA
IRESfinder result
IRESfinder score
0.611010956
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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