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mmu_circAnkhd1_971
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_971
mm39_Chr. Position ID:
chr18|36773317|36778292|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
23,24,25,26,27
Exon/intron offsets:
0,1312,2661,3996,4840
Genomic length:
4975
Exon/intron sizes in nt:
96,117,169,454,135
Flanking exon/introns:
chr18:36771761-36773317|chr18:36778292-36779743
Splice length:
971
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18179, circAtlas: mmu-Ankhd1_0065
circBase: hsa_circ_0074271, CIRCpedia: HSA_CIRCpedia_179849
Human Ortholog IDs:
Mature spliced Sequence:
GGTCATGTAAAAGTTGTTCAGTATTTGGTGAAGGAAGTCAGTCAGTTTCCATCTGATATAGAATGCATGAGATACATAGCAACAATTACAGATAAGGAACTGCTGAAGAAGTGTCACCAATGTGTTGAGACAATTGTGAAGGCTAAAGATCAGCAGGCTGCAGAAGCAAATAAAAATGCAAGCATTCTCCTAAAAGAGCTGGATCTAGAAAAGTCAAGAGAAGAGAGCAGAAAGCAAGCTCTTGCTGCTAAAAGAGAGAAGCGAAAAGAAAAGAGGAAAAAGAAAAAAGAGGAACAGAAAAGGAAACAGGAAGATGAGGAGAACAAACCTAAGGAGAATTCAGAACAACCAGAGGGTGAAGATGAAGAGAATGATGAAGATGTGGAGCAAGAAATTCCCATAGAGCCTCCGAGTGCAACCACCACTACTACAATTGGAATCTCTGCTACATCTACCACGTTTACAAATGTATTTGGCAAAAAAAGAGCCAATGTAGTGACAACCCCCAGCACCAATCGGAAAAATAAGAAGAATAAGACAAAAGAGTCCCCTCCCACAGCGCATTTAATTTTACCTGAGCCACATATATCTTTAGCACAACAAAAAGCAGATAAAAATAAAATAAATGGAGAGCCTAGAGGTGGCGGCGCAGGTGGAAATAGTGACTCGGATAACATAGATAGCACAGACTGCAACAGTGAGAGCAGCAGTGGTGGGAAGAGCCAAGAGTTCAGTTTCCCTGTGGATGTGAATCCCGCCAGTGACAAGAGGTGCTCCACAGTTGTCAGTTCTCAAGAGGAAAAGGCAGTTACCACCACTTCCAAGACTCAGACACGCCTTGATGGTGAAGTAAATTCCATGTCAACAAGCTACAAATCTTTGCCATTAAGTTCTCCAACCATGAAACTGAATCTCACTAGTCCTAAAAGGGGTCAAAAAAGAGAAGAAGGGTGGAAAGAAGTTGTTAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTTGCCATTAAGTTCTCCAACCA
59.72
ACTGACTGACTTCCTTCACCA
58.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTTGCCATTAAGTTCTCCAACC
59.48
ACTGACTGACTTCCTTCACCA
58.6
141
PCR template sequence:
ACAAATCTTTGCCATTAAGTTCTCCAACCATGAAACTGAATCTCACTAGTCCTAAAAGGGGTCAAAAAAGAGAAGAAGGGTGGAAAGAAGTTGTTAGAAGGGTCATGTAAAAGTTGTTCAGTATTTGGTGAAGGAAGTCAGTCAGTTTCCATCTGATATAGAATGCATGAGATACATAGCAACAATTACAGATAAGGAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-146a-5p(2), mmu-miR-146b-5p(2), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-136-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AAGTTGTTAGAAGGGTCATGTAAAAG
siRNA sets
TTTACATGACCCTTCTAAC, TTACATGACCCTTCTAACA, CATGACCCTTCTAACAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_971_ORF_1
1.0898
0.132844062
0.979850752
915
ORF sequence:
ATGAGATACATAGCAACAATTACAGATAAGGAACTGCTGAAGAAGTGTCACCAATGTGTTGAGACAATTGTGAAGGCTAAAGATCAGCAGGCTGCAGAAGCAAATAAAAATGCAAGCATTCTCCTAAAAGAGCTGGATCTAGAAAAGTCAAGAGAAGAGAGCAGAAAGCAAGCTCTTGCTGCTAAAAGAGAGAAGCGAAAAGAAAAGAGGAAAAAGAAAAAAGAGGAACAGAAAAGGAAACAGGAAGATGAGGAGAACAAACCTAAGGAGAATTCAGAACAACCAGAGGGTGAAGATGAAGAGAATGATGAAGATGTGGAGCAAGAAATTCCCATAGAGCCTCCGAGTGCAACCACCACTACTACAATTGGAATCTCTGCTACATCTACCACGTTTACAAATGTATTTGGCAAAAAAAGAGCCAATGTAGTGACAACCCCCAGCACCAATCGGAAAAATAAGAAGAATAAGACAAAAGAGTCCCCTCCCACAGCGCATTTAATTTTACCTGAGCCACATATATCTTTAGCACAACAAAAAGCAGATAAAAATAAAATAAATGGAGAGCCTAGAGGTGGCGGCGCAGGTGGAAATAGTGACTCGGATAACATAGATAGCACAGACTGCAACAGTGAGAGCAGCAGTGGTGGGAAGAGCCAAGAGTTCAGTTTCCCTGTGGATGTGAATCCCGCCAGTGACAAGAGGTGCTCCACAGTTGTCAGTTCTCAAGAGGAAAAGGCAGTTACCACCACTTCCAAGACTCAGACACGCCTTGATGGTGAAGTAAATTCCATGTCAACAAGCTACAAATCTTTGCCATTAAGTTCTCCAACCATGAAACTGAATCTCACTAGTCCTAAAAGGGGTCAAAAAAGAGAAGAAGGGTGGAAAGAAGTTGTTAGAAGGGTCATGTAA
Peptide sequence:
MRYIATITDKELLKKCHQCVETIVKAKDQQAAEANKNASILLKELDLEKSREESRKQALAAKREKRKEKRKKKKEEQKRKQEDEENKPKENSEQPEGEDEENDEDVEQEIPIEPPSATTTTTIGISATSTTFTNVFGKKRANVVTTPSTNRKNKKNKTKESPPTAHLILPEPHISLAQQKADKNKINGEPRGGGAGGNSDSDNIDSTDCNSESSSGGKSQEFSFPVDVNPASDKRCSTVVSSQEEKAVTTTSKTQTRLDGEVNSMSTSYKSLPLSSPTMKLNLTSPKRGQKREEGWKEVVRRVM
IRESfinder result
IRESfinder score
0.477135598
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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