top of page
mmu_circAkap9_1866
Basic information of circular RNA
PanCircBase ID:
mmu_circAkap9_1866
mm39_Chr. Position ID:
chr5|4051404|4082913|+
Gene name:
Akap9
Transcript:
ENSMUST00000044492.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
16,17,18,19,20,21,22,23,24
Exon/intron offsets:
0,2156,3398,4005,6939,12445,26969,28435,31276
Genomic length:
31509
Exon/intron sizes in nt:
35,42,22,14,11,04,20,60,00,00,00,00,000
Flanking exon/introns:
chr5:4042138-4051404|chr5:4082913-4084747
Splice length:
1866
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCATCGTATCAATGAGTATAGCATTTGCTCAACAGACGGAACTCTCTAGATTATCTGAGGGGAAAGAAAACACTATACAATCAGAACAAGCACACACTCTATGTTCTCAAAACAAACACCAATTAAATGACATCACATCACAAAGTCAAGTTGGTCTTCAGACTTTTGAGGCAACGGACAAGAATTTTAAAGAAGAATTTAAACCGCTTAGCAAAGAGTTAGGCGAATATAGAAAAGCAGTTCCTTTGTCCAGTCATGATGACCTTGATGATATACTAAAGTCAGAAGAACATGGACTGGCTATTTCAGAAGAAATATTTTCCAAAGATGAAACATTTATAGTGAGAAAATCTATGCATGATGAGGTGTTGGTGTCAAGTATGGATACTTCTAGACAGCTCATCTTAAATGAACAGTTGGAAGATATGCGGCAAGAACTTGTGCGACAATATGAAGAACACCAGCAGGCAACAGAAATGTTGAGGCAGGCCCACATGCAACAGATGGAGAGGCAACGGGAAGACCAGGAGCAGCTCCAAGAGGAAATCAAGAGACTCAACGAGCAGCTAGCCCAGAAATCCTCCATAGATACTGAACACGTGGTTTCAGAGAGAGAAAGGGTTCTATTAGAGGAGCTGGAAGCACTAAAGCAGCTGCCCCTAGCTGGAAGAAAGGAGCTGTGTTGTGAGCTGCGCCACAGCAGTACGCAAACACAGGATGGACATGACGATCAGGAAGTTGAGGAACAGACGTTAAAAGACAAGACATTGGAGAGAAGCCCTGAAGATGCTCTTCTCGATAGAAACCTGTCCAATGAAAGGTACGCTCTCAAAAAAGCTAATAATAGACTTCTGAAGATCTTGTTAGAGGTTGTCAAGACAACATCAGCTGCTGAAGAAACAATTGGCCGCCATGTTCTTGGGATTCTGGACCGATCTAGTAAAGGTCAGACAGCTAGCAGCCTGCTTTGGAGGTCAGAAGCAGACGCATCCGCCACGACTTGTGCACCAGAAGATTGTGCAAGAGCTATGGATGAGTCCATACCCTCCTATCCTGGAACTGCCATAGCAACACATGACAGCATTTGGTCCAAAGTCACAGAGGAAGGAGCAGAGCTGTCACAGCGGCTCGTGAGGAGTGGTTTTGCTGGGCCTGTAATAGATCCTGAAAATGAAGAACTTATGCTGAACATCAGCTCTCGACTACAAGCAGCTGTTGAAAAACTCCTAGAAGCCATAAGTGAAACCAACACTCAGCTTGAACATGCGAAAGTTACACAGACAGAGTTGATGCGTGAGTCCTTTAGACAAAAACAAGAGGCAACAGAGTCACTTCATTGCCTGGAAGAACTGCGAGAGCGCCTTCAGGAGGAGTCCAGGGCCAGGGAGCAGCTGGCCGAGGAGCTCAATAAAGCTGAGAGTGTCATTGATGGGTACTCGGATGAAAAAACTCTCTTTGAAAGGCAAATTCAAGAAAAAACCGATATTATAGAGCATCTTGAGCAGGAGGTGTTATGTATGAACAACAGACTGCAGGAGCTAGAGTCAGACCAACGCCGGGTGGAAGAGGAACGGCAGCTGCTGTGCAGGCAGAGGGAGGCGATGAGAGCAGAGGCTGGCCCCGTGGAGCAGCAATTTCTGCAGGAGACAGAAAAACTAATGAAGGAAAAGTTGGAAGTACAGTGTCAAGCTGAAAAAGTCCGTGGTGACCTTCAGAAGCAAGTGAAAGCTCTAGAAATAGATGTTGAAGAACAAGTCAGTAGGTTCATAGAACTGGAGCAAGAGAAAAACGCTGAACTCACAGATCTAAGGCAGCAAAGCCAAGCGCTGGAGAAGCAGCTGGAAAAAATGAGAAAATTTTTAGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGGAGCAAGAGAAAAACGC
59.4
GAGAGTTCCGTCTGTTGAGCA
60
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGGAGCAAGAGAAAAACGC
59.4
AGAGTTCCGTCTGTTGAGCA
58.96
140
PCR template sequence:
CATAGAACTGGAGCAAGAGAAAAACGCTGAACTCACAGATCTAAGGCAGCAAAGCCAAGCGCTGGAGAAGCAGCTGGAAAAAATGAGAAAATTTTTAGATGTCATCGTATCAATGAGTATAGCATTTGCTCAACAGACGGAACTCTCTAGATTATCTGAGGGGAAAGAAAACACTATACAATCAGAACAAGCACACACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-673-5p(2), mmu-miR-7a-5p(1), mmu-miR-138-5p(1), mmu-miR-96-5p(1), mmu-miR-218-5p(1), mmu-miR-370-3p(1), mmu-miR-425-5p(1), mmu-miR-325-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAATTTTTAGATGTCATCGTATCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKAP9_1866_ORF_1
1.1521
0.187325995
1
3720
ORF sequence:
ATGAGTATAGCATTTGCTCAACAGACGGAACTCTCTAGATTATCTGAGGGGAAAGAAAACACTATACAATCAGAACAAGCACACACTCTATGTTCTCAAAACAAACACCAATTAAATGACATCACATCACAAAGTCAAGTTGGTCTTCAGACTTTTGAGGCAACGGACAAGAATTTTAAAGAAGAATTTAAACCGCTTAGCAAAGAGTTAGGCGAATATAGAAAAGCAGTTCCTTTGTCCAGTCATGATGACCTTGATGATATACTAAAGTCAGAAGAACATGGACTGGCTATTTCAGAAGAAATATTTTCCAAAGATGAAACATTTATAGTGAGAAAATCTATGCATGATGAGGTGTTGGTGTCAAGTATGGATACTTCTAGACAGCTCATCTTAAATGAACAGTTGGAAGATATGCGGCAAGAACTTGTGCGACAATATGAAGAACACCAGCAGGCAACAGAAATGTTGAGGCAGGCCCACATGCAACAGATGGAGAGGCAACGGGAAGACCAGGAGCAGCTCCAAGAGGAAATCAAGAGACTCAACGAGCAGCTAGCCCAGAAATCCTCCATAGATACTGAACACGTGGTTTCAGAGAGAGAAAGGGTTCTATTAGAGGAGCTGGAAGCACTAAAGCAGCTGCCCCTAGCTGGAAGAAAGGAGCTGTGTTGTGAGCTGCGCCACAGCAGTACGCAAACACAGGATGGACATGACGATCAGGAAGTTGAGGAACAGACGTTAAAAGACAAGACATTGGAGAGAAGCCCTGAAGATGCTCTTCTCGATAGAAACCTGTCCAATGAAAGGTACGCTCTCAAAAAAGCTAATAATAGACTTCTGAAGATCTTGTTAGAGGTTGTCAAGACAACATCAGCTGCTGAAGAAACAATTGGCCGCCATGTTCTTGGGATTCTGGACCGATCTAGTAAAGGTCAGACAGCTAGCAGCCTGCTTTGGAGGTCAGAAGCAGACGCATCCGCCACGACTTGTGCACCAGAAGATTGTGCAAGAGCTATGGATGAGTCCATACCCTCCTATCCTGGAACTGCCATAGCAACACATGACAGCATTTGGTCCAAAGTCACAGAGGAAGGAGCAGAGCTGTCACAGCGGCTCGTGAGGAGTGGTTTTGCTGGGCCTGTAATAGATCCTGAAAATGAAGAACTTATGCTGAACATCAGCTCTCGACTACAAGCAGCTGTTGAAAAACTCCTAGAAGCCATAAGTGAAACCAACACTCAGCTTGAACATGCGAAAGTTACACAGACAGAGTTGATGCGTGAGTCCTTTAGACAAAAACAAGAGGCAACAGAGTCACTTCATTGCCTGGAAGAACTGCGAGAGCGCCTTCAGGAGGAGTCCAGGGCCAGGGAGCAGCTGGCCGAGGAGCTCAATAAAGCTGAGAGTGTCATTGATGGGTACTCGGATGAAAAAACTCTCTTTGAAAGGCAAATTCAAGAAAAAACCGATATTATAGAGCATCTTGAGCAGGAGGTGTTATGTATGAACAACAGACTGCAGGAGCTAGAGTCAGACCAACGCCGGGTGGAAGAGGAACGGCAGCTGCTGTGCAGGCAGAGGGAGGCGATGAGAGCAGAGGCTGGCCCCGTGGAGCAGCAATTTCTGCAGGAGACAGAAAAACTAATGAAGGAAAAGTTGGAAGTACAGTGTCAAGCTGAAAAAGTCCGTGGTGACCTTCAGAAGCAAGTGAAAGCTCTAGAAATAGATGTTGAAGAACAAGTCAGTAGGTTCATAGAACTGGAGCAAGAGAAAAACGCTGAACTCACAGATCTAAGGCAGCAAAGCCAAGCGCTGGAGAAGCAGCTGGAAAAAATGAGAAAATTTTTAGATGTCATCGTATCAATGAGTATAGCATTTGCTCAACAGACGGAACTCTCTAGATTATCTGAGGGGAAAGAAAACACTATACAATCAGAACAAGCACACACTCTATGTTCTCAAAACAAACACCAATTAAATGACATCACATCACAAAGTCAAGTTGGTCTTCAGACTTTTGAGGCAACGGACAAGAATTTTAAAGAAGAATTTAAACCGCTTAGCAAAGAGTTAGGCGAATATAGAAAAGCAGTTCCTTTGTCCAGTCATGATGACCTTGATGATATACTAAAGTCAGAAGAACATGGACTGGCTATTTCAGAAGAAATATTTTCCAAAGATGAAACATTTATAGTGAGAAAATCTATGCATGATGAGGTGTTGGTGTCAAGTATGGATACTTCTAGACAGCTCATCTTAAATGAACAGTTGGAAGATATGCGGCAAGAACTTGTGCGACAATATGAAGAACACCAGCAGGCAACAGAAATGTTGAGGCAGGCCCACATGCAACAGATGGAGAGGCAACGGGAAGACCAGGAGCAGCTCCAAGAGGAAATCAAGAGACTCAACGAGCAGCTAGCCCAGAAATCCTCCATAGATACTGAACACGTGGTTTCAGAGAGAGAAAGGGTTCTATTAGAGGAGCTGGAAGCACTAAAGCAGCTGCCCCTAGCTGGAAGAAAGGAGCTGTGTTGTGAGCTGCGCCACAGCAGTACGCAAACACAGGATGGACATGACGATCAGGAAGTTGAGGAACAGACGTTAAAAGACAAGACATTGGAGAGAAGCCCTGAAGATGCTCTTCTCGATAGAAACCTGTCCAATGAAAGGTACGCTCTCAAAAAAGCTAATAATAGACTTCTGAAGATCTTGTTAGAGGTTGTCAAGACAACATCAGCTGCTGAAGAAACAATTGGCCGCCATGTTCTTGGGATTCTGGACCGATCTAGTAAAGGTCAGACAGCTAGCAGCCTGCTTTGGAGGTCAGAAGCAGACGCATCCGCCACGACTTGTGCACCAGAAGATTGTGCAAGAGCTATGGATGAGTCCATACCCTCCTATCCTGGAACTGCCATAGCAACACATGACAGCATTTGGTCCAAAGTCACAGAGGAAGGAGCAGAGCTGTCACAGCGGCTCGTGAGGAGTGGTTTTGCTGGGCCTGTAATAGATCCTGAAAATGAAGAACTTATGCTGAACATCAGCTCTCGACTACAAGCAGCTGTTGAAAAACTCCTAGAAGCCATAAGTGAAACCAACACTCAGCTTGAACATGCGAAAGTTACACAGACAGAGTTGATGCGTGAGTCCTTTAGACAAAAACAAGAGGCAACAGAGTCACTTCATTGCCTGGAAGAACTGCGAGAGCGCCTTCAGGAGGAGTCCAGGGCCAGGGAGCAGCTGGCCGAGGAGCTCAATAAAGCTGAGAGTGTCATTGATGGGTACTCGGATGAAAAAACTCTCTTTGAAAGGCAAATTCAAGAAAAAACCGATATTATAGAGCATCTTGAGCAGGAGGTGTTATGTATGAACAACAGACTGCAGGAGCTAGAGTCAGACCAACGCCGGGTGGAAGAGGAACGGCAGCTGCTGTGCAGGCAGAGGGAGGCGATGAGAGCAGAGGCTGGCCCCGTGGAGCAGCAATTTCTGCAGGAGACAGAAAAACTAATGAAGGAAAAGTTGGAAGTACAGTGTCAAGCTGAAAAAGTCCGTGGTGACCTTCAGAAGCAAGTGAAAGCTCTAGAAATAGATGTTGAAGAACAAGTCAGTAGGTTCATAGAACTGGAGCAAGAGAAAAACGCTGAACTCACAGATCTAAGGCAGCAAAGCCAAGCGCTGGAGAAGCAGCTGGAAAAAATGAGAAAATTTTTAGAT
Peptide sequence:
MSIAFAQQTELSRLSEGKENTIQSEQAHTLCSQNKHQLNDITSQSQVGLQTFEATDKNFKEEFKPLSKELGEYRKAVPLSSHDDLDDILKSEEHGLAISEEIFSKDETFIVRKSMHDEVLVSSMDTSRQLILNEQLEDMRQELVRQYEEHQQATEMLRQAHMQQMERQREDQEQLQEEIKRLNEQLAQKSSIDTEHVVSERERVLLEELEALKQLPLAGRKELCCELRHSSTQTQDGHDDQEVEEQTLKDKTLERSPEDALLDRNLSNERYALKKANNRLLKILLEVVKTTSAAEETIGRHVLGILDRSSKGQTASSLLWRSEADASATTCAPEDCARAMDESIPSYPGTAIATHDSIWSKVTEEGAELSQRLVRSGFAGPVIDPENEELMLNISSRLQAAVEKLLEAISETNTQLEHAKVTQTELMRESFRQKQEATESLHCLEELRERLQEESRAREQLAEELNKAESVIDGYSDEKTLFERQIQEKTDIIEHLEQEVLCMNNRLQELESDQRRVEEERQLLCRQREAMRAEAGPVEQQFLQETEKLMKEKLEVQCQAEKVRGDLQKQVKALEIDVEEQVSRFIELEQEKNAELTDLRQQSQALEKQLEKMRKFLDVIVSMSIAFAQQTELSRLSEGKENTIQSEQAHTLCSQNKHQLNDITSQSQVGLQTFEATDKNFKEEFKPLSKELGEYRKAVPLSSHDDLDDILKSEEHGLAISEEIFSKDETFIVRKSMHDEVLVSSMDTSRQLILNEQLEDMRQELVRQYEEHQQATEMLRQAHMQQMERQREDQEQLQEEIKRLNEQLAQKSSIDTEHVVSERERVLLEELEALKQLPLAGRKELCCELRHSSTQTQDGHDDQEVEEQTLKDKTLERSPEDALLDRNLSNERYALKKANNRLLKILLEVVKTTSAAEETIGRHVLGILDRSSKGQTASSLLWRSEADASATTCAPEDCARAMDESIPSYPGTAIATHDSIWSKVTEEGAELSQRLVRSGFAGPVIDPENEELMLNISSRLQAAVEKLLEAISETNTQLEHAKVTQTELMRESFRQKQEATESLHCLEELRERLQEESRAREQLAEELNKAESVIDGYSDEKTLFERQIQEKTDIIEHLEQEVLCMNNRLQELESDQRRVEEERQLLCRQREAMRAEAGPVEQQFLQETEKLMKEKLEVQCQAEKVRGDLQKQVKALEIDVEEQVSRFIELEQEKNAELTDLRQQSQALEKQLEKMRKFLD
IRESfinder result
IRESfinder score
0.403626687
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page