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mmu_circAkap9_1044
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap9_1044
mm39_Chr. Position ID:
chr5|4095897|4096941|+
Gene name:
Akap9
Transcript:
ENSMUST00000044492.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
30
Exon/intron offsets:
0
Genomic length:
1044
Exon/intron sizes in nt:
1044
Flanking exon/introns:
chr5:4094978-4095897|chr5:4096941-4100154
Splice length:
1044
Other database IDs:
circBase: hsa_circ_0135032, circAtlas: hsa-AKAP9_0012, CIRCpedia: HSA_CIRCpedia_113608
Human Ortholog IDs:
Mature spliced Sequence:
GTCATTGAAGAACAAAAGGAACAGATACAAGATCTGGAAACCCAGATTGAACGTTTGATGAGTGAGCGAGAACATGAGAAGAAACAGAGAGAGGAAGAAGTAGAGCAGCTCACTGGGGTGGTTGAGAAACTGCAGCAGGAGGTGGTCAGCACTGAACAGCAGAGAGAGGGTGCCAGGACCCTCCCAGAAGATGAGGAGAGCTTTAAACATCAGCTGGACAAGGTGACTGCTGAAAAGCTGGTTTTAGAGCAACAAGTAGAAACCACCAACCAGGTAATGACGCACATGAACAATGTCCTTAAAGAAATCAATTTCAAAATGGATCAGATAACACAATCACTGTGCAACTTGAATAAAGAATGTGCCAGCAATGAAGAACTTCCAAGTCTACCTAAGGAAAGTGTCCACATGACTGTGCATGAGCTAGGCAGTGACAATCTGCAGCCAGAAGATGCCCCTGCCCAGGATGTGACCAAACCTCTAGAAAAACAGACCTCCCTTACGCGTCTTCAGAAAAGCCCTGAAGCTTCTAGAACACAAGAAATAGAGTCCCTGGCAAGCTCTGTTGGCGCCAAGGACGTTGAGCTTACCCAGTGTCGTGAACAAACAGAAACCATACAAGAGCAAGCCCAGTCTGAGACAGACAGGCTTCAGAAGAAGCTCACAGACCTGCAGAGAAGCCTTGAGAAGTTCGCCGCTGCACTGGTCAGTCAGGTCCAAATGGAGGCAGCTCAGGAGTATGTGCCGTTCCACCAAGAAAAGCAGCCGGTTTCATCAGCACCCGGAAGCACAGATATACAGAATGCAAATGGTCTGACTGGAGCCAGCACGGAGTCACTCATCCCCACAGTGACCCTGAGGCTAGCAGAGGTGGAGAGCCGTGTAGCTGAAGTGCACAGTGGTACAATGTCAGAAAAACTTGTGGGAATTGTGGGGGGAAATGCTTCAGAGACAGAAAAGAGAGTTATAGAGCTACAGAAGCTATTGGAGGAGGCCGAGGAAAGACCGGAAGAGGGAGGAGAACAAAGCTCTCGGGATGGGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TATTGGAGGAGGCCGAGGAA
60.03
TCTCATGTTCTCGCTCACTCA
58.84
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCTATTGGAGGAGGCCG
60.25
GTTCTCGCTCACTCATCAAACG
59.91
140
PCR template sequence:
TTCAGAGACAGAAAAGAGAGTTATAGAGCTACAGAAGCTATTGGAGGAGGCCGAGGAAAGACCGGAAGAGGGAGGAGAACAAAGCTCTCGGGATGGGGAGGTCATTGAAGAACAAAAGGAACAGATACAAGATCTGGAAACCCAGATTGAACGTTTGATGAGTGAGCGAGAACATGAGAAGAAACAGAGAGAGGAAGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TCGGGATGGGGAGGTCATTGAAGAAC
siRNA sets
GTTCTTCAATGACCTCCCC, TTCTTCAATGACCTCCCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP9_1044_ORF_1
1.1121
0.300250548
0.999996825
2031
ORF sequence:
ATGAGTGAGCGAGAACATGAGAAGAAACAGAGAGAGGAAGAAGTAGAGCAGCTCACTGGGGTGGTTGAGAAACTGCAGCAGGAGGTGGTCAGCACTGAACAGCAGAGAGAGGGTGCCAGGACCCTCCCAGAAGATGAGGAGAGCTTTAAACATCAGCTGGACAAGGTGACTGCTGAAAAGCTGGTTTTAGAGCAACAAGTAGAAACCACCAACCAGGTAATGACGCACATGAACAATGTCCTTAAAGAAATCAATTTCAAAATGGATCAGATAACACAATCACTGTGCAACTTGAATAAAGAATGTGCCAGCAATGAAGAACTTCCAAGTCTACCTAAGGAAAGTGTCCACATGACTGTGCATGAGCTAGGCAGTGACAATCTGCAGCCAGAAGATGCCCCTGCCCAGGATGTGACCAAACCTCTAGAAAAACAGACCTCCCTTACGCGTCTTCAGAAAAGCCCTGAAGCTTCTAGAACACAAGAAATAGAGTCCCTGGCAAGCTCTGTTGGCGCCAAGGACGTTGAGCTTACCCAGTGTCGTGAACAAACAGAAACCATACAAGAGCAAGCCCAGTCTGAGACAGACAGGCTTCAGAAGAAGCTCACAGACCTGCAGAGAAGCCTTGAGAAGTTCGCCGCTGCACTGGTCAGTCAGGTCCAAATGGAGGCAGCTCAGGAGTATGTGCCGTTCCACCAAGAAAAGCAGCCGGTTTCATCAGCACCCGGAAGCACAGATATACAGAATGCAAATGGTCTGACTGGAGCCAGCACGGAGTCACTCATCCCCACAGTGACCCTGAGGCTAGCAGAGGTGGAGAGCCGTGTAGCTGAAGTGCACAGTGGTACAATGTCAGAAAAACTTGTGGGAATTGTGGGGGGAAATGCTTCAGAGACAGAAAAGAGAGTTATAGAGCTACAGAAGCTATTGGAGGAGGCCGAGGAAAGACCGGAAGAGGGAGGAGAACAAAGCTCTCGGGATGGGGAGGTCATTGAAGAACAAAAGGAACAGATACAAGATCTGGAAACCCAGATTGAACGTTTGATGAGTGAGCGAGAACATGAGAAGAAACAGAGAGAGGAAGAAGTAGAGCAGCTCACTGGGGTGGTTGAGAAACTGCAGCAGGAGGTGGTCAGCACTGAACAGCAGAGAGAGGGTGCCAGGACCCTCCCAGAAGATGAGGAGAGCTTTAAACATCAGCTGGACAAGGTGACTGCTGAAAAGCTGGTTTTAGAGCAACAAGTAGAAACCACCAACCAGGTAATGACGCACATGAACAATGTCCTTAAAGAAATCAATTTCAAAATGGATCAGATAACACAATCACTGTGCAACTTGAATAAAGAATGTGCCAGCAATGAAGAACTTCCAAGTCTACCTAAGGAAAGTGTCCACATGACTGTGCATGAGCTAGGCAGTGACAATCTGCAGCCAGAAGATGCCCCTGCCCAGGATGTGACCAAACCTCTAGAAAAACAGACCTCCCTTACGCGTCTTCAGAAAAGCCCTGAAGCTTCTAGAACACAAGAAATAGAGTCCCTGGCAAGCTCTGTTGGCGCCAAGGACGTTGAGCTTACCCAGTGTCGTGAACAAACAGAAACCATACAAGAGCAAGCCCAGTCTGAGACAGACAGGCTTCAGAAGAAGCTCACAGACCTGCAGAGAAGCCTTGAGAAGTTCGCCGCTGCACTGGTCAGTCAGGTCCAAATGGAGGCAGCTCAGGAGTATGTGCCGTTCCACCAAGAAAAGCAGCCGGTTTCATCAGCACCCGGAAGCACAGATATACAGAATGCAAATGGTCTGACTGGAGCCAGCACGGAGTCACTCATCCCCACAGTGACCCTGAGGCTAGCAGAGGTGGAGAGCCGTGTAGCTGAAGTGCACAGTGGTACAATGTCAGAAAAACTTGTGGGAATTGTGGGGGGAAATGCTTCAGAGACAGAAAAGAGAGTTATAGAGCTACAGAAGCTATTGGAGGAGGCCGAGGAAAGACCGGAAGAGGGAGGAGAACAAAGCTCTCGGGATGGGGAG
Peptide sequence:
MSEREHEKKQREEEVEQLTGVVEKLQQEVVSTEQQREGARTLPEDEESFKHQLDKVTAEKLVLEQQVETTNQVMTHMNNVLKEINFKMDQITQSLCNLNKECASNEELPSLPKESVHMTVHELGSDNLQPEDAPAQDVTKPLEKQTSLTRLQKSPEASRTQEIESLASSVGAKDVELTQCREQTETIQEQAQSETDRLQKKLTDLQRSLEKFAAALVSQVQMEAAQEYVPFHQEKQPVSSAPGSTDIQNANGLTGASTESLIPTVTLRLAEVESRVAEVHSGTMSEKLVGIVGGNASETEKRVIELQKLLEEAEERPEEGGEQSSRDGEVIEEQKEQIQDLETQIERLMSEREHEKKQREEEVEQLTGVVEKLQQEVVSTEQQREGARTLPEDEESFKHQLDKVTAEKLVLEQQVETTNQVMTHMNNVLKEINFKMDQITQSLCNLNKECASNEELPSLPKESVHMTVHELGSDNLQPEDAPAQDVTKPLEKQTSLTRLQKSPEASRTQEIESLASSVGAKDVELTQCREQTETIQEQAQSETDRLQKKLTDLQRSLEKFAAALVSQVQMEAAQEYVPFHQEKQPVSSAPGSTDIQNANGLTGASTESLIPTVTLRLAEVESRVAEVHSGTMSEKLVGIVGGNASETEKRVIELQKLLEEAEERPEEGGEQSSRDGE
IRESfinder result
IRESfinder score
0.456140689
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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