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mmu_circAkap9_819
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap9_819
mm39_Chr. Position ID:
chr5|3998680|4007800|+
Gene name:
Akap9
Transcript:
ENSMUST00000143365.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,3009,5716,6111,7476,8943
Genomic length:
9120
Exon/intron sizes in nt:
2,16,45,54,17,11,56,170
Flanking exon/introns:
chr5:3978490-3998680|chr5:4007800-4010111
Splice length:
819
Other database IDs:
CIRCpedia: HSA_CIRCpedia_375763
Human Ortholog IDs:
Mature spliced Sequence:
CTTGCTCGGTTTCGACAAAGAAAAGCCCAATATGATGGGGACATTCCGAAGAAACAGAAGAAGAAGAGGACGTCAAGCTCTAAACATGATTCAAGCTTACATACTGATCAACAGAGTGGTGAGCTCTGCTCGGAAAGTTCTCAGAGGGTAGACTTAGCCGGGAATCCTGATTGCTCCGGGCCAGAGAGAAAGCACGGCCAGGTCTTCTCTGCTGAACCTGAAAGTGAAATTTCTACCACTGCAGATGAATGTAGCTCGGAGATTAATGGCTGCAATTCTGTGATGAAACCAAGAAAGCCTACAGATCCGTTAAGGGAAGAAGAATTTTCACTTGATGACTCCTCCTCTGAGCAAGGAGCTCAGTCCAGTCAGACCTGTCTTCAGATGGTAGAAAAGGAGTTGGCCGAGAAGCAGCATGATATTGAAGAGTTGACTCAGGAGTTGGAAGAGATGAGGGCCAGCTTTGGGACCGAAGGGCTGAAGCAGTTACAAGAATTTGAAGCCGCCATTAAACAGCGAGACGGCATCATAACTCAGCTCACAGCTAACTTGCAGCAAGCAAGGAGAGAGAAGGATGACACGATGGTAGAATTCTTAGAGCTGACAGAACAAAGTCAAAAACTGCAGATTCAGTTCCAGCACTTACAGGCTAATGAAACTTTGCAAAACAGCACTCTCAGCCGAACTGCGACAGATTTACTGCAGGCCAAACGACAGATCTTCACTCAACAGCAACAGCTGCAAGATTATCAGAAAAAGGAGGAGGACCTCCAAGCGCAGATTTCTTTTTTACAAGAGAAATTAAGAGCGTTTGAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCACTCAACAGCAACAGCT
59.05
TGTTTCTTCGGAATGTCCCCA
59.58
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCACTCAACAGCAACAGCT
57.96
TGTTTCTTCGGAATGTCCCCA
59.58
155
PCR template sequence:
CTTCACTCAACAGCAACAGCTGCAAGATTATCAGAAAAAGGAGGAGGACCTCCAAGCGCAGATTTCTTTTTTACAAGAGAAATTAAGAGCGTTTGAAATGCTTGCTCGGTTTCGACAAAGAAAAGCCCAATATGATGGGGACATTCCGAAGAAACAGAAGAAGAAGAGGACGTCAAGCTCTAAACATGATTCAAGCTTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-221-3p(1), mmu-miR-328-3p(1), mmu-miR-298-5p(1), mmu-miR-222-3p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-3470b(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCGTTTGAAATGCTTGCTCGGTTTC
siRNA sets
GAAACCGAGCAAGCATTTC, AACCGAGCAAGCATTTCAA, AAACCGAGCAAGCATTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP9_819_ORF_1
0.9841
0.24648331
0.999352523
1356
ORF sequence:
ATGAAACCAAGAAAGCCTACAGATCCGTTAAGGGAAGAAGAATTTTCACTTGATGACTCCTCCTCTGAGCAAGGAGCTCAGTCCAGTCAGACCTGTCTTCAGATGGTAGAAAAGGAGTTGGCCGAGAAGCAGCATGATATTGAAGAGTTGACTCAGGAGTTGGAAGAGATGAGGGCCAGCTTTGGGACCGAAGGGCTGAAGCAGTTACAAGAATTTGAAGCCGCCATTAAACAGCGAGACGGCATCATAACTCAGCTCACAGCTAACTTGCAGCAAGCAAGGAGAGAGAAGGATGACACGATGGTAGAATTCTTAGAGCTGACAGAACAAAGTCAAAAACTGCAGATTCAGTTCCAGCACTTACAGGCTAATGAAACTTTGCAAAACAGCACTCTCAGCCGAACTGCGACAGATTTACTGCAGGCCAAACGACAGATCTTCACTCAACAGCAACAGCTGCAAGATTATCAGAAAAAGGAGGAGGACCTCCAAGCGCAGATTTCTTTTTTACAAGAGAAATTAAGAGCGTTTGAAATGCTTGCTCGGTTTCGACAAAGAAAAGCCCAATATGATGGGGACATTCCGAAGAAACAGAAGAAGAAGAGGACGTCAAGCTCTAAACATGATTCAAGCTTACATACTGATCAACAGAGTGGTGAGCTCTGCTCGGAAAGTTCTCAGAGGGTAGACTTAGCCGGGAATCCTGATTGCTCCGGGCCAGAGAGAAAGCACGGCCAGGTCTTCTCTGCTGAACCTGAAAGTGAAATTTCTACCACTGCAGATGAATGTAGCTCGGAGATTAATGGCTGCAATTCTGTGATGAAACCAAGAAAGCCTACAGATCCGTTAAGGGAAGAAGAATTTTCACTTGATGACTCCTCCTCTGAGCAAGGAGCTCAGTCCAGTCAGACCTGTCTTCAGATGGTAGAAAAGGAGTTGGCCGAGAAGCAGCATGATATTGAAGAGTTGACTCAGGAGTTGGAAGAGATGAGGGCCAGCTTTGGGACCGAAGGGCTGAAGCAGTTACAAGAATTTGAAGCCGCCATTAAACAGCGAGACGGCATCATAACTCAGCTCACAGCTAACTTGCAGCAAGCAAGGAGAGAGAAGGATGACACGATGGTAGAATTCTTAGAGCTGACAGAACAAAGTCAAAAACTGCAGATTCAGTTCCAGCACTTACAGGCTAATGAAACTTTGCAAAACAGCACTCTCAGCCGAACTGCGACAGATTTACTGCAGGCCAAACGACAGATCTTCACTCAACAGCAACAGCTGCAAGATTATCAGAAAAAGGAGGAGGACCTCCAAGCGCAGATTTCTTTTTTACAAGAGAAATTAAGAGCGTTTGAAATG
Peptide sequence:
MKPRKPTDPLREEEFSLDDSSSEQGAQSSQTCLQMVEKELAEKQHDIEELTQELEEMRASFGTEGLKQLQEFEAAIKQRDGIITQLTANLQQARREKDDTMVEFLELTEQSQKLQIQFQHLQANETLQNSTLSRTATDLLQAKRQIFTQQQQLQDYQKKEEDLQAQISFLQEKLRAFEMLARFRQRKAQYDGDIPKKQKKKRTSSSKHDSSLHTDQQSGELCSESSQRVDLAGNPDCSGPERKHGQVFSAEPESEISTTADECSSEINGCNSVMKPRKPTDPLREEEFSLDDSSSEQGAQSSQTCLQMVEKELAEKQHDIEELTQELEEMRASFGTEGLKQLQEFEAAIKQRDGIITQLTANLQQARREKDDTMVEFLELTEQSQKLQIQFQHLQANETLQNSTLSRTATDLLQAKRQIFTQQQQLQDYQKKEEDLQAQISFLQEKLRAFEM
IRESfinder result
IRESfinder score
0.44787402
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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