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mmu_circAtp7a_537
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp7a_537
mm39_Chr. Position ID:
chrX|105140382|105142625|+
Gene name:
Atp7a
Transcript:
ENSMUST00000113557.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,613,2009
Genomic length:
2243
Exon/intron sizes in nt:
77,226,234
Flanking exon/introns:
chrX:105138620-105140382|chrX:105142625-105144132
Splice length:
537
Other database IDs:
circBase: mmu_circ_0016073, CIRCpedia: MMU_CIRCpedia_30834, circAtlas: mmu-Atp7a_0010
CIRCpedia: HSA_CIRCpedia_94761
Human Ortholog IDs:
Mature spliced Sequence:
AGCTTAGGCTTTGAAGCTTCTTTGGTCAAGAAAGATCGATCAGCCAACCACTTAGATCATAAACGAGAAATAAAACAATGGAGAGGGTCTTTCCTTGTGAGCCTGTTTTTCTGTATCCCTGTAATGGGACTGATGGTCTATATGATGGTTATGGATCACCACCTTGCAACTCTTCACCATAATCAGAACATGAGTAATGAAGAAATGATCAACATGCATTCTGCTATGTTTCTGGAGCGTCAGATCCTGCCAGGACTGTCCATTATGAATTTGTTGTCCCTTTTATTGTGTCTACCTGTACAGTTTTGTGGCGGCTGGTACTTCTACATTCAGGCTTACAAAGCACTGAAGCATAAGACAGCAAACATGGATGTGCTGATTGTGCTGGCAACCACCATCGCATTTGCCTACTCTCTGGTTATTCTTCTGGTTGCAATGTTTGAGAGAGCCAAAGTGAACCCCATTACCTTCTTTGATACACCTCCTATGCTGTTTGTGTTTATTGCACTAGGACGATGGCTGGAACATATAGCGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGCCAAAGTGAACCCCA
59.89
AGTGGTTGGCTGATCGATCT
58.8
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGAGCCAAAGTGAACCCC
59.6
AGTGGTTGGCTGATCGATCT
58.8
147
PCR template sequence:
GTTTGAGAGAGCCAAAGTGAACCCCATTACCTTCTTTGATACACCTCCTATGCTGTTTGTGTTTATTGCACTAGGACGATGGCTGGAACATATAGCGAAGAGCTTAGGCTTTGAAGCTTCTTTGGTCAAGAAAGATCGATCAGCCAACCACTTAGATCATAAACGAGAAATAAAACAATGGAGAGGGTCTTTCCTTGTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-130a-3p(1), mmu-miR-136-5p(1), mmu-miR-494-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-301a-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACATATAGCGAAGAGCTTAGGCTTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP7A_537_ORF_1
1.0502
0.102417311
0.981407988
951
ORF sequence:
ATGGGACTGATGGTCTATATGATGGTTATGGATCACCACCTTGCAACTCTTCACCATAATCAGAACATGAGTAATGAAGAAATGATCAACATGCATTCTGCTATGTTTCTGGAGCGTCAGATCCTGCCAGGACTGTCCATTATGAATTTGTTGTCCCTTTTATTGTGTCTACCTGTACAGTTTTGTGGCGGCTGGTACTTCTACATTCAGGCTTACAAAGCACTGAAGCATAAGACAGCAAACATGGATGTGCTGATTGTGCTGGCAACCACCATCGCATTTGCCTACTCTCTGGTTATTCTTCTGGTTGCAATGTTTGAGAGAGCCAAAGTGAACCCCATTACCTTCTTTGATACACCTCCTATGCTGTTTGTGTTTATTGCACTAGGACGATGGCTGGAACATATAGCGAAGAGCTTAGGCTTTGAAGCTTCTTTGGTCAAGAAAGATCGATCAGCCAACCACTTAGATCATAAACGAGAAATAAAACAATGGAGAGGGTCTTTCCTTGTGAGCCTGTTTTTCTGTATCCCTGTAATGGGACTGATGGTCTATATGATGGTTATGGATCACCACCTTGCAACTCTTCACCATAATCAGAACATGAGTAATGAAGAAATGATCAACATGCATTCTGCTATGTTTCTGGAGCGTCAGATCCTGCCAGGACTGTCCATTATGAATTTGTTGTCCCTTTTATTGTGTCTACCTGTACAGTTTTGTGGCGGCTGGTACTTCTACATTCAGGCTTACAAAGCACTGAAGCATAAGACAGCAAACATGGATGTGCTGATTGTGCTGGCAACCACCATCGCATTTGCCTACTCTCTGGTTATTCTTCTGGTTGCAATGTTTGAGAGAGCCAAAGTGAACCCCATTACCTTCTTTGATACACCTCCTATGCTGTTTGTGTTTATTGCACTAGGACGATGGCTGGAACATATAGCGAAG
Peptide sequence:
MGLMVYMMVMDHHLATLHHNQNMSNEEMINMHSAMFLERQILPGLSIMNLLSLLLCLPVQFCGGWYFYIQAYKALKHKTANMDVLIVLATTIAFAYSLVILLVAMFERAKVNPITFFDTPPMLFVFIALGRWLEHIAKSLGFEASLVKKDRSANHLDHKREIKQWRGSFLVSLFFCIPVMGLMVYMMVMDHHLATLHHNQNMSNEEMINMHSAMFLERQILPGLSIMNLLSLLLCLPVQFCGGWYFYIQAYKALKHKTANMDVLIVLATTIAFAYSLVILLVAMFERAKVNPITFFDTPPMLFVFIALGRWLEHIAK
IRESfinder result
IRESfinder score
0.73502027
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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