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mmu_circAkap9_1011_1
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap9_1011_1
mm39_Chr. Position ID:
chr5|4018579|4042138|+
Gene name:
Akap9
Transcript:
ENSMUST00000044492.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
8,9,10,11,12,13,14,15
Exon/intron offsets:
0,2084,3322,4176,7019,7548,12538,23466
Genomic length:
23559
Exon/intron sizes in nt:
214,74,136,86,112,199,97,93
Flanking exon/introns:
chr5:4012457-4018579|chr5:4042138-4051404
Splice length:
1011
Other database IDs:
circBase: mmu_circ_0012637, CIRCpedia: MMU_CIRCpedia_19221, circAtlas: mmu-Akap9_0019
circAtlas: hsa-AKAP9_0053, CIRCpedia: HSA_CIRCpedia_113605
Human Ortholog IDs:
Mature spliced Sequence:
GATGATCTAAGGCTGCAGATGGAGGCCCAGCGCATATGCCTTTTTGTGGTTTACTCAACTCATGCGGATCAGGTTCGTGCACACATGGAAAAGGAGAGGGAGGAAGCTCTTTGCAGCCTTAAAGATGAGCTCATTTCCGCTCAACAGAAAAAGATCGACGAACTTCATAAAATGCACCAGTGCCAGCTCCAGAATTTTAAAATACAGGAGACAGGTGATGAGCCTTTACAGGTGCTCATTGAACGACTTCAACAGGCAGTGTCTGAGAAATGCTTTCACATTTCAAAGACCCTAAACAATGTTTTCGATGAATGCTATACTCCTTTAAAATGTGAAATGAATATAGAAGAGAAAGAGAATTCTGGTGTTTACACTTCTCAAAATCAAAGCCCAGAATTACAAGAGTATAGATACGAAGTTCAAGACTTTCAAGAGAGCATGCAAGTCCTTCTTGGTAAAGTGACGGAAGAATGCCGCAAACTCTCAGGACTGCAGACGCGCTTAGGCAAGATCCATGAACAACAGACAGATGGTGTGGCACTAGAGTTTGCTGAACAAAATGCGGCAGAAGAGGAAGCAGGTCTTCTGTCAGGTTGTTCTCAGAGTGCTTTACAGAGCACAGATGTCAGTCTTGAGAGCAAGGTGTCTTCTCTGCCTGCGAGTGAGAAAAGCAGAGAATGTGAGAGGCAAGTCCAAGAGTTACAGAGCCCTGTGGCTGCCGGACAGCTGCAGCTCACGGAAACCGAAGCAAACCACAGAGCAGAAACTGAGTCTTTGCAGCAGAGACTTGAGGCTGTCAGTGAGGCTCCGGTTCAGCCAAGCTTGTCCATTGATTCTGTGGTGTTTAAAGGATCTGGTGCCCAGAAACCAGTGTACTGTGGAAGCTGTCTAAGAGAGTGTGTGGATGGCACAGCAAAGTTTTCTGATAGATTCGAAGTGAGGCAAGAAACAAATATGGTTAACTTGATGGAAAAACAGTATCAAGAACGACTGGAAGAAGAAATAGCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGAAGTGAGGCAAGAAACA
57.39
TTCCATGTGTGCACGAACCT
60.18
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGAAGTGAGGCAAGAAACA
57.39
CGAACCTGATCCGCATGAGT
60.18
157
PCR template sequence:
AGCAAAGTTTTCTGATAGATTCGAAGTGAGGCAAGAAACAAATATGGTTAACTTGATGGAAAAACAGTATCAAGAACGACTGGAAGAAGAAATAGCTAAGGATGATCTAAGGCTGCAGATGGAGGCCCAGCGCATATGCCTTTTTGTGGTTTACTCAACTCATGCGGATCAGGTTCGTGCACACATGGAAAAGGAGAGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-23b-3p(1), mmu-miR-141-3p(1), mmu-miR-101a-3p(1), mmu-miR-30c-5p(1), mmu-miR-203-3p(1), mmu-miR-23a-3p(1), mmu-miR-139-5p(1), mmu-miR-128-3p(1), mmu-miR-96-5p(1), mmu-miR-1187(1), mmu-miR-452-3p(1), mmu-miR-3470b(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAATAGCTAAGGATGATCTAAGGC
siRNA sets
ATCATCCTTAGCTATTTCT, TTAGATCATCCTTAGCTAT, GATCATCCTTAGCTATTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP9_1011_1_ORF_1
1.221
0.162582987
0.999994477
2004
ORF sequence:
ATGGAGGCCCAGCGCATATGCCTTTTTGTGGTTTACTCAACTCATGCGGATCAGGTTCGTGCACACATGGAAAAGGAGAGGGAGGAAGCTCTTTGCAGCCTTAAAGATGAGCTCATTTCCGCTCAACAGAAAAAGATCGACGAACTTCATAAAATGCACCAGTGCCAGCTCCAGAATTTTAAAATACAGGAGACAGGTGATGAGCCTTTACAGGTGCTCATTGAACGACTTCAACAGGCAGTGTCTGAGAAATGCTTTCACATTTCAAAGACCCTAAACAATGTTTTCGATGAATGCTATACTCCTTTAAAATGTGAAATGAATATAGAAGAGAAAGAGAATTCTGGTGTTTACACTTCTCAAAATCAAAGCCCAGAATTACAAGAGTATAGATACGAAGTTCAAGACTTTCAAGAGAGCATGCAAGTCCTTCTTGGTAAAGTGACGGAAGAATGCCGCAAACTCTCAGGACTGCAGACGCGCTTAGGCAAGATCCATGAACAACAGACAGATGGTGTGGCACTAGAGTTTGCTGAACAAAATGCGGCAGAAGAGGAAGCAGGTCTTCTGTCAGGTTGTTCTCAGAGTGCTTTACAGAGCACAGATGTCAGTCTTGAGAGCAAGGTGTCTTCTCTGCCTGCGAGTGAGAAAAGCAGAGAATGTGAGAGGCAAGTCCAAGAGTTACAGAGCCCTGTGGCTGCCGGACAGCTGCAGCTCACGGAAACCGAAGCAAACCACAGAGCAGAAACTGAGTCTTTGCAGCAGAGACTTGAGGCTGTCAGTGAGGCTCCGGTTCAGCCAAGCTTGTCCATTGATTCTGTGGTGTTTAAAGGATCTGGTGCCCAGAAACCAGTGTACTGTGGAAGCTGTCTAAGAGAGTGTGTGGATGGCACAGCAAAGTTTTCTGATAGATTCGAAGTGAGGCAAGAAACAAATATGGTTAACTTGATGGAAAAACAGTATCAAGAACGACTGGAAGAAGAAATAGCTAAGGATGATCTAAGGCTGCAGATGGAGGCCCAGCGCATATGCCTTTTTGTGGTTTACTCAACTCATGCGGATCAGGTTCGTGCACACATGGAAAAGGAGAGGGAGGAAGCTCTTTGCAGCCTTAAAGATGAGCTCATTTCCGCTCAACAGAAAAAGATCGACGAACTTCATAAAATGCACCAGTGCCAGCTCCAGAATTTTAAAATACAGGAGACAGGTGATGAGCCTTTACAGGTGCTCATTGAACGACTTCAACAGGCAGTGTCTGAGAAATGCTTTCACATTTCAAAGACCCTAAACAATGTTTTCGATGAATGCTATACTCCTTTAAAATGTGAAATGAATATAGAAGAGAAAGAGAATTCTGGTGTTTACACTTCTCAAAATCAAAGCCCAGAATTACAAGAGTATAGATACGAAGTTCAAGACTTTCAAGAGAGCATGCAAGTCCTTCTTGGTAAAGTGACGGAAGAATGCCGCAAACTCTCAGGACTGCAGACGCGCTTAGGCAAGATCCATGAACAACAGACAGATGGTGTGGCACTAGAGTTTGCTGAACAAAATGCGGCAGAAGAGGAAGCAGGTCTTCTGTCAGGTTGTTCTCAGAGTGCTTTACAGAGCACAGATGTCAGTCTTGAGAGCAAGGTGTCTTCTCTGCCTGCGAGTGAGAAAAGCAGAGAATGTGAGAGGCAAGTCCAAGAGTTACAGAGCCCTGTGGCTGCCGGACAGCTGCAGCTCACGGAAACCGAAGCAAACCACAGAGCAGAAACTGAGTCTTTGCAGCAGAGACTTGAGGCTGTCAGTGAGGCTCCGGTTCAGCCAAGCTTGTCCATTGATTCTGTGGTGTTTAAAGGATCTGGTGCCCAGAAACCAGTGTACTGTGGAAGCTGTCTAAGAGAGTGTGTGGATGGCACAGCAAAGTTTTCTGATAGATTCGAAGTGAGGCAAGAAACAAATATGGTTAACTTGATGGAAAAACAGTATCAAGAACGACTGGAAGAAGAAATAGCTAAG
Peptide sequence:
MEAQRICLFVVYSTHADQVRAHMEKEREEALCSLKDELISAQQKKIDELHKMHQCQLQNFKIQETGDEPLQVLIERLQQAVSEKCFHISKTLNNVFDECYTPLKCEMNIEEKENSGVYTSQNQSPELQEYRYEVQDFQESMQVLLGKVTEECRKLSGLQTRLGKIHEQQTDGVALEFAEQNAAEEEAGLLSGCSQSALQSTDVSLESKVSSLPASEKSRECERQVQELQSPVAAGQLQLTETEANHRAETESLQQRLEAVSEAPVQPSLSIDSVVFKGSGAQKPVYCGSCLRECVDGTAKFSDRFEVRQETNMVNLMEKQYQERLEEEIAKDDLRLQMEAQRICLFVVYSTHADQVRAHMEKEREEALCSLKDELISAQQKKIDELHKMHQCQLQNFKIQETGDEPLQVLIERLQQAVSEKCFHISKTLNNVFDECYTPLKCEMNIEEKENSGVYTSQNQSPELQEYRYEVQDFQESMQVLLGKVTEECRKLSGLQTRLGKIHEQQTDGVALEFAEQNAAEEEAGLLSGCSQSALQSTDVSLESKVSSLPASEKSRECERQVQELQSPVAAGQLQLTETEANHRAETESLQQRLEAVSEAPVQPSLSIDSVVFKGSGAQKPVYCGSCLRECVDGTAKFSDRFEVRQETNMVNLMEKQYQERLEEEIAK
IRESfinder result
IRESfinder score
0.51813383
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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