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mmu_circAnks1_1572
Basic information of circular RNA
PanCircBase ID:
mmu_circAnks1_1572
mm39_Chr. Position ID:
chr17|28204039|28227406|+
Gene name:
Anks1
Transcript:
ENSMUST00000114842.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
5,6,7,8,9,10,11,12
Exon/intron offsets:
0,1186,1485,1679,3654,6242,10868,22783
Genomic length:
23367
Exon/intron sizes in nt:
2,97,76,10,21,02,19,79,00,00,000
Flanking exon/introns:
chr17:28197463-28204039|chr17:28227406-28257053
Splice length:
1572
Other database IDs:
circBase: mmu_circ_0006651, CIRCpedia: MMU_CIRCpedia_216953, circAtlas: mmu-Anks1_0007
Human Ortholog IDs:
Mature spliced Sequence:
AACAACGACAATGAGACGGCCCTGCACTGCGCGGCCCAGTACGGCCACACGGAGGTCGTGAAGGCTCTGCTGGAGGAGCTCACGGACCCCACCATGCGCAACAACAAGTTTGAAACGCCCCTGGACTTGGCGGCGCTGTACGGGCGGCTGGAGGTGGTGAAGCTGCTGCTGGGTGCACACCCCAATCTCCTGAGCTGCAGCACTCGGAAACACACGCCCCTGCACTTGGCAGCAAGGAATGGCCACAAGGCCGTGGTGCAGGTCCTGCTGGACGCCGGCATGGATAGCAACTATCAGACGGAGATGGGCAGTGCTTTGCATGAGGCTGCTTTGTTTGGCAAGACCGATGTGGTGCAAATCCTGCTGGCTGCAGGAATCGATGTTAACATAAAGGATAACCGTGGCCTGACTGCCCTTGACACTGTCCGGGATCTGCCCTCTCAGAAGAGCCAGCAGATAGCCGCCCTGATTGAAGATCACATGACCGGAAAAAGAAGCGTGAAAGAAGTGGACAGGACCTCCACAGCCCAGCTACCTCTCCTCTCCAACACAGACGCCATAGCACCAATGTCTCAGGGGAGTATGGAGAAGACAGTGACTGAGCTGATCCTTCATTTTGACACACATGCTGACGAGGAGGGCCCCTACGAGGCACTGTACAACGCTGTGTCCTGCCATTCCTTGGACAGCACGGCCAGTGGACGATCATCAGACAGAGACTCCATGAACAAGGAGGCCGAGGCCACCGGAACAAGGGCTGCTGGAGTGAGGCCTAGGGAACGTCCGCCGCCTCCAGCAAAACCGCCACCCGATGAAGAGGAGGAAGAACGCGTAGATAAGAAGTATTTTCCCTTGGCAGCCTCTGAGGGCCTGGCTGTGAGACCCAGGATTCAGAGTAGTGCTCCCCAGGAAGAGGAGGAGCACCCATATGAGCTGCTGCTCACGGCAGAAACCAAGAAGCTGGGGACCACAGACGGGAGGACTGAAGACCACAGGCAGAGCGGCAGCGGCCGGAGCCAGGACTCTGTGGAGGGGCAGGACGGGCAGGTCCCAGAGCAGTTCTCAGGTCTCCTCCACGGCTCCTCCCCAGTGTGTGAGGTGGGGCAGGACCCTTTCCAGCTGCTCACGGCCCCCAGCCAGAGCCACCCGGAGTCCTCCCAGCAGGACGCCTGCCACGAGGCCAGCATGCAGCTAGAGGAGCCAGGCGTGCAAGGCACTGAACCCCCGCAGCCCGGCGTCCCTGACCAAAGCAAGAGAGTGGGCTTGCCGGCAGGCCTGACAGCCCTGGCCAGCAGAACATACCTCGATGCATTGACTCACACAGTACCTCTGCGCCCTGCTGGTGCCGAGGAAGAAGACCAGAGCGGGCCCAGAAGCAGAGCCCCTCCCACCAGCAAGCCCAAAGCTGAGCTCAAACTCAGCCGCAGTTTGTCTAAGTCTGACTCTGACCTCCTGACCTGCTCCCCCACGGAGGACGCCACAATGGGGAGTCGCAGCGAGTCCTTGTCCAACTGCAGCATCGGGAAGAAGAGGTTGGAGAAATCACCTTCCTTTGCCTCAGAGTGGGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGAGTCCTTGTCCAACTG
59.97
CCTCCAGCAGAGCCTTCAC
60.08
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCGAGTCCTTGTCCAACT
59.97
CCTCCAGCAGAGCCTTCAC
60.08
155
PCR template sequence:
GGACGCCACAATGGGGAGTCGCAGCGAGTCCTTGTCCAACTGCAGCATCGGGAAGAAGAGGTTGGAGAAATCACCTTCCTTTGCCTCAGAGTGGGATGAGAACAACGACAATGAGACGGCCCTGCACTGCGCGGCCCAGTACGGCCACACGGAGGTCGTGAAGGCTCTGCTGGAGGAGCTCACGGACCCCACCATGCGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
27
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(2), mmu-miR-15b-5p(2), mmu-miR-149-5p(2), mmu-let-7a-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-146a-5p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-326-3p(1), mmu-miR-125b-5p(1), mmu-miR-214-3p(1), mmu-let-7d-5p(1), mmu-miR-125a-5p(1), mmu-miR-370-3p(1), mmu-miR-98-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-452-3p(1), mmu-miR-3470b(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGTGGGATGAGAACAACGACAATG
siRNA sets
GTTGTTCTCATCCCACTCT, TTGTCGTTGTTCTCATCCC, CATTGTCGTTGTTCTCATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKS1_1572_ORF_1
1.1401
0.424505482
0.999999999
3051
ORF sequence:
ATGCGCAACAACAAGTTTGAAACGCCCCTGGACTTGGCGGCGCTGTACGGGCGGCTGGAGGTGGTGAAGCTGCTGCTGGGTGCACACCCCAATCTCCTGAGCTGCAGCACTCGGAAACACACGCCCCTGCACTTGGCAGCAAGGAATGGCCACAAGGCCGTGGTGCAGGTCCTGCTGGACGCCGGCATGGATAGCAACTATCAGACGGAGATGGGCAGTGCTTTGCATGAGGCTGCTTTGTTTGGCAAGACCGATGTGGTGCAAATCCTGCTGGCTGCAGGAATCGATGTTAACATAAAGGATAACCGTGGCCTGACTGCCCTTGACACTGTCCGGGATCTGCCCTCTCAGAAGAGCCAGCAGATAGCCGCCCTGATTGAAGATCACATGACCGGAAAAAGAAGCGTGAAAGAAGTGGACAGGACCTCCACAGCCCAGCTACCTCTCCTCTCCAACACAGACGCCATAGCACCAATGTCTCAGGGGAGTATGGAGAAGACAGTGACTGAGCTGATCCTTCATTTTGACACACATGCTGACGAGGAGGGCCCCTACGAGGCACTGTACAACGCTGTGTCCTGCCATTCCTTGGACAGCACGGCCAGTGGACGATCATCAGACAGAGACTCCATGAACAAGGAGGCCGAGGCCACCGGAACAAGGGCTGCTGGAGTGAGGCCTAGGGAACGTCCGCCGCCTCCAGCAAAACCGCCACCCGATGAAGAGGAGGAAGAACGCGTAGATAAGAAGTATTTTCCCTTGGCAGCCTCTGAGGGCCTGGCTGTGAGACCCAGGATTCAGAGTAGTGCTCCCCAGGAAGAGGAGGAGCACCCATATGAGCTGCTGCTCACGGCAGAAACCAAGAAGCTGGGGACCACAGACGGGAGGACTGAAGACCACAGGCAGAGCGGCAGCGGCCGGAGCCAGGACTCTGTGGAGGGGCAGGACGGGCAGGTCCCAGAGCAGTTCTCAGGTCTCCTCCACGGCTCCTCCCCAGTGTGTGAGGTGGGGCAGGACCCTTTCCAGCTGCTCACGGCCCCCAGCCAGAGCCACCCGGAGTCCTCCCAGCAGGACGCCTGCCACGAGGCCAGCATGCAGCTAGAGGAGCCAGGCGTGCAAGGCACTGAACCCCCGCAGCCCGGCGTCCCTGACCAAAGCAAGAGAGTGGGCTTGCCGGCAGGCCTGACAGCCCTGGCCAGCAGAACATACCTCGATGCATTGACTCACACAGTACCTCTGCGCCCTGCTGGTGCCGAGGAAGAAGACCAGAGCGGGCCCAGAAGCAGAGCCCCTCCCACCAGCAAGCCCAAAGCTGAGCTCAAACTCAGCCGCAGTTTGTCTAAGTCTGACTCTGACCTCCTGACCTGCTCCCCCACGGAGGACGCCACAATGGGGAGTCGCAGCGAGTCCTTGTCCAACTGCAGCATCGGGAAGAAGAGGTTGGAGAAATCACCTTCCTTTGCCTCAGAGTGGGATGAGAACAACGACAATGAGACGGCCCTGCACTGCGCGGCCCAGTACGGCCACACGGAGGTCGTGAAGGCTCTGCTGGAGGAGCTCACGGACCCCACCATGCGCAACAACAAGTTTGAAACGCCCCTGGACTTGGCGGCGCTGTACGGGCGGCTGGAGGTGGTGAAGCTGCTGCTGGGTGCACACCCCAATCTCCTGAGCTGCAGCACTCGGAAACACACGCCCCTGCACTTGGCAGCAAGGAATGGCCACAAGGCCGTGGTGCAGGTCCTGCTGGACGCCGGCATGGATAGCAACTATCAGACGGAGATGGGCAGTGCTTTGCATGAGGCTGCTTTGTTTGGCAAGACCGATGTGGTGCAAATCCTGCTGGCTGCAGGAATCGATGTTAACATAAAGGATAACCGTGGCCTGACTGCCCTTGACACTGTCCGGGATCTGCCCTCTCAGAAGAGCCAGCAGATAGCCGCCCTGATTGAAGATCACATGACCGGAAAAAGAAGCGTGAAAGAAGTGGACAGGACCTCCACAGCCCAGCTACCTCTCCTCTCCAACACAGACGCCATAGCACCAATGTCTCAGGGGAGTATGGAGAAGACAGTGACTGAGCTGATCCTTCATTTTGACACACATGCTGACGAGGAGGGCCCCTACGAGGCACTGTACAACGCTGTGTCCTGCCATTCCTTGGACAGCACGGCCAGTGGACGATCATCAGACAGAGACTCCATGAACAAGGAGGCCGAGGCCACCGGAACAAGGGCTGCTGGAGTGAGGCCTAGGGAACGTCCGCCGCCTCCAGCAAAACCGCCACCCGATGAAGAGGAGGAAGAACGCGTAGATAAGAAGTATTTTCCCTTGGCAGCCTCTGAGGGCCTGGCTGTGAGACCCAGGATTCAGAGTAGTGCTCCCCAGGAAGAGGAGGAGCACCCATATGAGCTGCTGCTCACGGCAGAAACCAAGAAGCTGGGGACCACAGACGGGAGGACTGAAGACCACAGGCAGAGCGGCAGCGGCCGGAGCCAGGACTCTGTGGAGGGGCAGGACGGGCAGGTCCCAGAGCAGTTCTCAGGTCTCCTCCACGGCTCCTCCCCAGTGTGTGAGGTGGGGCAGGACCCTTTCCAGCTGCTCACGGCCCCCAGCCAGAGCCACCCGGAGTCCTCCCAGCAGGACGCCTGCCACGAGGCCAGCATGCAGCTAGAGGAGCCAGGCGTGCAAGGCACTGAACCCCCGCAGCCCGGCGTCCCTGACCAAAGCAAGAGAGTGGGCTTGCCGGCAGGCCTGACAGCCCTGGCCAGCAGAACATACCTCGATGCATTGACTCACACAGTACCTCTGCGCCCTGCTGGTGCCGAGGAAGAAGACCAGAGCGGGCCCAGAAGCAGAGCCCCTCCCACCAGCAAGCCCAAAGCTGAGCTCAAACTCAGCCGCAGTTTGTCTAAGTCTGACTCTGACCTCCTGACCTGCTCCCCCACGGAGGACGCCACAATGGGGAGTCGCAGCGAGTCCTTGTCCAACTGCAGCATCGGGAAGAAGAGGTTGGAGAAATCACCTTCCTTTGCCTCAGAGTGGGATGAG
Peptide sequence:
MRNNKFETPLDLAALYGRLEVVKLLLGAHPNLLSCSTRKHTPLHLAARNGHKAVVQVLLDAGMDSNYQTEMGSALHEAALFGKTDVVQILLAAGIDVNIKDNRGLTALDTVRDLPSQKSQQIAALIEDHMTGKRSVKEVDRTSTAQLPLLSNTDAIAPMSQGSMEKTVTELILHFDTHADEEGPYEALYNAVSCHSLDSTASGRSSDRDSMNKEAEATGTRAAGVRPRERPPPPAKPPPDEEEEERVDKKYFPLAASEGLAVRPRIQSSAPQEEEEHPYELLLTAETKKLGTTDGRTEDHRQSGSGRSQDSVEGQDGQVPEQFSGLLHGSSPVCEVGQDPFQLLTAPSQSHPESSQQDACHEASMQLEEPGVQGTEPPQPGVPDQSKRVGLPAGLTALASRTYLDALTHTVPLRPAGAEEEDQSGPRSRAPPTSKPKAELKLSRSLSKSDSDLLTCSPTEDATMGSRSESLSNCSIGKKRLEKSPSFASEWDENNDNETALHCAAQYGHTEVVKALLEELTDPTMRNNKFETPLDLAALYGRLEVVKLLLGAHPNLLSCSTRKHTPLHLAARNGHKAVVQVLLDAGMDSNYQTEMGSALHEAALFGKTDVVQILLAAGIDVNIKDNRGLTALDTVRDLPSQKSQQIAALIEDHMTGKRSVKEVDRTSTAQLPLLSNTDAIAPMSQGSMEKTVTELILHFDTHADEEGPYEALYNAVSCHSLDSTASGRSSDRDSMNKEAEATGTRAAGVRPRERPPPPAKPPPDEEEEERVDKKYFPLAASEGLAVRPRIQSSAPQEEEEHPYELLLTAETKKLGTTDGRTEDHRQSGSGRSQDSVEGQDGQVPEQFSGLLHGSSPVCEVGQDPFQLLTAPSQSHPESSQQDACHEASMQLEEPGVQGTEPPQPGVPDQSKRVGLPAGLTALASRTYLDALTHTVPLRPAGAEEEDQSGPRSRAPPTSKPKAELKLSRSLSKSDSDLLTCSPTEDATMGSRSESLSNCSIGKKRLEKSPSFASEWDE
IRESfinder result
IRESfinder score
0.279091383
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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