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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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