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mmu_circAkap13_622
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap13_622
mm39_Chr. Position ID:
chr7|75345371|75373668|+
Gene name:
Akap13
Transcript:
ENSMUST00000166315.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
15,16,17,18,19,20
Exon/intron offsets:
0,1678,8741,22146,24505,28161
Genomic length:
28297
Exon/intron sizes in nt:
43,13,31,75,68,67,136
Flanking exon/introns:
chr7:75337069-75345371|chr7:75373668-75375047
Splice length:
622
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTCACGGCCCTTCCACAGTACCAGTGCCAACCTGACCGAGAGTATAACAGAAGAAAACTGTAACTTCCTGCCTCCAAGTCCCTCAAAAAAGAATTTTGAAGAAAAGAGTGGGACTAAGGTTAGTCGCACCTTCAGCTACATCAGGAATAAAATGTCCAGCAGCAAGAAGAGCAAAGAAAAGGAAAAGGAGAAGGATAAAATTAAGGAGAAAGAGAAAGACTCTAAAGAGAAGGAAAAAGATAAAAAGACTCTTAACGGGCACACATTCAGCCCCATTCCTATTGTGGGTCCCATCAGCTGCAGCCAGTGCATGAAGCCTTTTACCAACAAGGACGCCTACACGTGTGCAGGCTGTGGTGCTTTTGTCCACAAAGGCTGCAGAGAAAATCTAGCCTCCTGTGCAAAGGTCAAAATGAAGCAGCCAAAAGGGAGCCTCCAGGCCCACGATACATCATCGCTGCCCACAGTCATCATGAGAAACAAGTCTTCACAGCCCAAGGAGCGCCCTAGGTCTGCAGTCCTCTTGGCTGATGAGGCCACTGCGGCACCAATGTTTACTAACAGACGGTCCCAGCAGAGTGTCTCCCTCTCTAAAAGTGTCTCCATACAAAACATCACTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTAACAGACGGTCCCAGCAG
60.11
TTTGAGGGACTTGGAGGCAG
59.6
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTAACAGACGGTCCCAGCAG
60.11
GGACTTGGAGGCAGGAAGTT
59.6
146
PCR template sequence:
TCTTGGCTGATGAGGCCACTGCGGCACCAATGTTTACTAACAGACGGTCCCAGCAGAGTGTCTCCCTCTCTAAAAGTGTCTCCATACAAAACATCACTGGGTTCACGGCCCTTCCACAGTACCAGTGCCAACCTGACCGAGAGTATAACAGAAGAAAACTGTAACTTCCTGCCTCCAAGTCCCTCAAAAAAGAATTTTGA
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-let-7e-5p(1), mmu-miR-30e-5p(1), mmu-miR-18a-5p(1), mmu-let-7d-5p(1), mmu-miR-96-5p(1), mmu-miR-98-5p(1), mmu-miR-1187(1), mmu-miR-207(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAACATCACTGGGTTCACGGCCCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP13_622_ORF_1
0.7356
0.20721958
0.888328279
711
ORF sequence:
ATGAGGCCACTGCGGCACCAATGTTTACTAACAGACGGTCCCAGCAGAGTGTCTCCCTCTCTAAAAGTGTCTCCATACAAAACATCACTGGGTTCACGGCCCTTCCACAGTACCAGTGCCAACCTGACCGAGAGTATAACAGAAGAAAACTGTAACTTCCTGCCTCCAAGTCCCTCAAAAAAGAATTTTGAAGAAAAGAGTGGGACTAAGGTTAGTCGCACCTTCAGCTACATCAGGAATAAAATGTCCAGCAGCAAGAAGAGCAAAGAAAAGGAAAAGGAGAAGGATAAAATTAAGGAGAAAGAGAAAGACTCTAAAGAGAAGGAAAAAGATAAAAAGACTCTTAACGGGCACACATTCAGCCCCATTCCTATTGTGGGTCCCATCAGCTGCAGCCAGTGCATGAAGCCTTTTACCAACAAGGACGCCTACACGTGTGCAGGCTGTGGTGCTTTTGTCCACAAAGGCTGCAGAGAAAATCTAGCCTCCTGTGCAAAGGTCAAAATGAAGCAGCCAAAAGGGAGCCTCCAGGCCCACGATACATCATCGCTGCCCACAGTCATCATGAGAAACAAGTCTTCACAGCCCAAGGAGCGCCCTAGGTCTGCAGTCCTCTTGGCTGATGAGGCCACTGCGGCACCAATGTTTACTAACAGACGGTCCCAGCAGAGTGTCTCCCTCTCTAAAAGTGTCTCCATACAAAACATCACT
Peptide sequence:
MRPLRHQCLLTDGPSRVSPSLKVSPYKTSLGSRPFHSTSANLTESITEENCNFLPPSPSKKNFEEKSGTKVSRTFSYIRNKMSSSKKSKEKEKEKDKIKEKEKDSKEKEKDKKTLNGHTFSPIPIVGPISCSQCMKPFTNKDAYTCAGCGAFVHKGCRENLASCAKVKMKQPKGSLQAHDTSSLPTVIMRNKSSQPKERPRSAVLLADEATAAPMFTNRRSQQSVSLSKSVSIQNIT
IRESfinder result
IRESfinder score
0.492836477
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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