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mmu_circAtp8b1_648
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b1_648
mm39_Chr. Position ID:
chr18|64697413|64704612|-
Gene name:
Atp8b1
Transcript:
ENSMUST00000025482.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,3723,6674,7040
Genomic length:
7199
Exon/intron sizes in nt:
20,91,91,89,159
Flanking exon/introns:
chr18:64695284-64697413|chr18:64704612-64704729
Splice length:
648
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTCATCGAATGTGAAGAACCAAACAATCGGTTAGACAAGTTCACAGGAACGCTGTTTTGGAAGAACCAAAGCTTTCCTTTGGATGCTGATAAAATCCTGTTACGAGGTTGTGTGATAAGGAACACCGATGTCTGCCATGGCCTGGTCATTTTTGCAGGTGCTGACACAAAGATAATGAAGAATAGTGGGAAAACCAGATTTAAAAGAACCAAAATTGATTACTTGATGAACTACATGGTGTACACGATCTTTATTGTTCTCATCCTGGTTTCTGCCGGCCTCGCCATTGGCCACGCCTATTGGGAAGCCCAAGTTGGCAATTATTCCTGGTACCTCTATGATGGAGAAAATGCCACACCGTCCTACCGGGGATTCCTGAATTTCTGGGGCTACATCATTGTATTGAACACCATGGTGCCCATTTCTCTCTATGTCAGTGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATAAGACGGGGACACTCACG
60.2
TGGTTCTTCCAAAACAGCGT
58.24
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATAAGACGGGGACACTCACG
60.2
TGGTTCTTCCAAAACAGCGTT
58.9
140
PCR template sequence:
CAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATGGTTTCATCGAATGTGAAGAACCAAACAATCGGTTAGACAAGTTCACAGGAACGCTGTTTTGGAAGAACCAAAGCTTTCCTTTGGATGCTGATAAAATCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-26a-5p(1), mmu-miR-26b-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGACTATCTATGGTTTCATCGAATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B1_648_ORF_1
0.9485
0.273747952
0.996614171
1119
ORF sequence:
ATGAAGAATAGTGGGAAAACCAGATTTAAAAGAACCAAAATTGATTACTTGATGAACTACATGGTGTACACGATCTTTATTGTTCTCATCCTGGTTTCTGCCGGCCTCGCCATTGGCCACGCCTATTGGGAAGCCCAAGTTGGCAATTATTCCTGGTACCTCTATGATGGAGAAAATGCCACACCGTCCTACCGGGGATTCCTGAATTTCTGGGGCTACATCATTGTATTGAACACCATGGTGCCCATTTCTCTCTATGTCAGTGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATGGTTTCATCGAATGTGAAGAACCAAACAATCGGTTAGACAAGTTCACAGGAACGCTGTTTTGGAAGAACCAAAGCTTTCCTTTGGATGCTGATAAAATCCTGTTACGAGGTTGTGTGATAAGGAACACCGATGTCTGCCATGGCCTGGTCATTTTTGCAGGTGCTGACACAAAGATAATGAAGAATAGTGGGAAAACCAGATTTAAAAGAACCAAAATTGATTACTTGATGAACTACATGGTGTACACGATCTTTATTGTTCTCATCCTGGTTTCTGCCGGCCTCGCCATTGGCCACGCCTATTGGGAAGCCCAAGTTGGCAATTATTCCTGGTACCTCTATGATGGAGAAAATGCCACACCGTCCTACCGGGGATTCCTGAATTTCTGGGGCTACATCATTGTATTGAACACCATGGTGCCCATTTCTCTCTATGTCAGTGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTAT
Peptide sequence:
MKNSGKTRFKRTKIDYLMNYMVYTIFIVLILVSAGLAIGHAYWEAQVGNYSWYLYDGENATPSYRGFLNFWGYIIVLNTMVPISLYVSVEVIRLGQSHFINWDLQMYYAEKDTPAKARTTTLNEQLGQIHYIFSDKTGTLTQNIMTFKKCCINGTIYGFIECEEPNNRLDKFTGTLFWKNQSFPLDADKILLRGCVIRNTDVCHGLVIFAGADTKIMKNSGKTRFKRTKIDYLMNYMVYTIFIVLILVSAGLAIGHAYWEAQVGNYSWYLYDGENATPSYRGFLNFWGYIIVLNTMVPISLYVSVEVIRLGQSHFINWDLQMYYAEKDTPAKARTTTLNEQLGQIHYIFSDKTGTLTQNIMTFKKCCINGTIY
IRESfinder result
IRESfinder score
0.590318435
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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