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mmu_circAkap6_531
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap6_531
mm39_Chr. Position ID:
chr12|52983917|53072624|+
Gene name:
Akap6
Transcript:
ENSMUST00000095737.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,1208,73339,88586
Genomic length:
88707
Exon/intron sizes in nt:
97,16,41,49,121
Flanking exon/introns:
chr12:52958706-52983917|chr12:53072624-53115889
Splice length:
531
Other database IDs:
CIRCpedia: MMU_CIRCpedia_22480, circAtlas: mmu-Akap6_0021
circAtlas: hsa-AKAP6_0026
Human Ortholog IDs:
Mature spliced Sequence:
AGCTTTAAGTTGAACGTAGACAGTCACTGTGCCCTCAAGGAAGCCGTGGAGGAAGAAGGACACCAACTTCTTGAGCTCATTGCGTCTCACAAAGCAGGACTGAAGGACATGCTGAAGATGATTGCAAGTCAATGGAAGGAGCTGCAGAGGCAAATCAAACGGCAACACAGCTGGATTCTCAGAGCCCTGGACACCATCAAAGCCGAGATACTGGCTACTGATGTGTCTGTGGAGGACGAGGAGGGGACGGGGAGCCCCAAGGCTGAGGCTCAGCTCTGCTACCTGGAAGCTCAGAGAGACGCTGTGGAGCAGATGTCCCTCAAGCTGTACAGCGAGCAGTATACCAGTGGTAGCAAGAGGAAAGAAGAGTTTGCCGACATGTCGAAAGCGCATTCGGTGGGAAGCAATGGGCTTCTGGACTTTGATTCAGAATATCAGGAGCTCTGGGATTGGCTGATTGACATGGAGTCCCTTGTGATGGACAGCCACGACCTGATGATGTCAGAGGAGCAGCAGCAGCATCTTTACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCACGACCTGATGATGT
60.11
TCCTGCTTTGTGAGACGCAA
60.18
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCCACGACCTGATGATG
60.11
TCCTGCTTTGTGAGACGCAA
60.18
149
PCR template sequence:
ATATCAGGAGCTCTGGGATTGGCTGATTGACATGGAGTCCCTTGTGATGGACAGCCACGACCTGATGATGTCAGAGGAGCAGCAGCAGCATCTTTACAAGAGCTTTAAGTTGAACGTAGACAGTCACTGTGCCCTCAAGGAAGCCGTGGAGGAAGAAGGACACCAACTTCTTGAGCTCATTGCGTCTCACAAAGCAGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-128-3p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCATCTTTACAAGAGCTTTAAGTTGA
siRNA sets
TTAAAGCTCTTGTAAAGAT, CTTAAAGCTCTTGTAAAGA, TAAAGCTCTTGTAAAGATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP6_531_ORF_1
1.252
0.445617726
0.996879566
954
ORF sequence:
ATGCTGAAGATGATTGCAAGTCAATGGAAGGAGCTGCAGAGGCAAATCAAACGGCAACACAGCTGGATTCTCAGAGCCCTGGACACCATCAAAGCCGAGATACTGGCTACTGATGTGTCTGTGGAGGACGAGGAGGGGACGGGGAGCCCCAAGGCTGAGGCTCAGCTCTGCTACCTGGAAGCTCAGAGAGACGCTGTGGAGCAGATGTCCCTCAAGCTGTACAGCGAGCAGTATACCAGTGGTAGCAAGAGGAAAGAAGAGTTTGCCGACATGTCGAAAGCGCATTCGGTGGGAAGCAATGGGCTTCTGGACTTTGATTCAGAATATCAGGAGCTCTGGGATTGGCTGATTGACATGGAGTCCCTTGTGATGGACAGCCACGACCTGATGATGTCAGAGGAGCAGCAGCAGCATCTTTACAAGAGCTTTAAGTTGAACGTAGACAGTCACTGTGCCCTCAAGGAAGCCGTGGAGGAAGAAGGACACCAACTTCTTGAGCTCATTGCGTCTCACAAAGCAGGACTGAAGGACATGCTGAAGATGATTGCAAGTCAATGGAAGGAGCTGCAGAGGCAAATCAAACGGCAACACAGCTGGATTCTCAGAGCCCTGGACACCATCAAAGCCGAGATACTGGCTACTGATGTGTCTGTGGAGGACGAGGAGGGGACGGGGAGCCCCAAGGCTGAGGCTCAGCTCTGCTACCTGGAAGCTCAGAGAGACGCTGTGGAGCAGATGTCCCTCAAGCTGTACAGCGAGCAGTATACCAGTGGTAGCAAGAGGAAAGAAGAGTTTGCCGACATGTCGAAAGCGCATTCGGTGGGAAGCAATGGGCTTCTGGACTTTGATTCAGAATATCAGGAGCTCTGGGATTGGCTGATTGACATGGAGTCCCTTGTGATGGACAGCCACGACCTGATGATGTCAGAGGAGCAGCAGCAGCATCTTTACAAG
Peptide sequence:
MLKMIASQWKELQRQIKRQHSWILRALDTIKAEILATDVSVEDEEGTGSPKAEAQLCYLEAQRDAVEQMSLKLYSEQYTSGSKRKEEFADMSKAHSVGSNGLLDFDSEYQELWDWLIDMESLVMDSHDLMMSEEQQQHLYKSFKLNVDSHCALKEAVEEEGHQLLELIASHKAGLKDMLKMIASQWKELQRQIKRQHSWILRALDTIKAEILATDVSVEDEEGTGSPKAEAQLCYLEAQRDAVEQMSLKLYSEQYTSGSKRKEEFADMSKAHSVGSNGLLDFDSEYQELWDWLIDMESLVMDSHDLMMSEEQQQHLYK
IRESfinder result
IRESfinder score
0.353509039
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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