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mmu_circAtp8b1_419
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b1_419
mm39_Chr. Position ID:
chr18|64706309|64712277|-
Gene name:
Atp8b1
Transcript:
ENSMUST00000025482.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,7,6,5,4
Exon/intron offsets:
0,248,4172,4349,5854
Genomic length:
5968
Exon/intron sizes in nt:
71,73,62,99,114
Flanking exon/introns:
chr18:64704812-64706309|chr18:64712277-64714971
Splice length:
419
Other database IDs:
circAtlas: mmu-Atp8b1_0008
CIRCpedia: HSA_CIRCpedia_24072
Human Ortholog IDs:
Mature spliced Sequence:
AGTAATGCAATTAAAACATACAAGTACAATGGATTTACCTTTCTACCCATGAATTTGTTTGAGCAGTTTAAGAGGGCAGCCAACTTCTATTTCCTCATCCTCCTGATCCTGCAGGCAATTCCTCAAATCTCCACCCTGGCATGGTATACCACACTTGTACCTCTGCTTTTGGTGCTGGGCATCACGGCCATCAAAGACCTGGTAGATGATGTGGCTCGTCATAAAATGGACAAGGAAATCAACAATAGGACGTGTGAAGTCATTAAGGATGGCAGGTTCAAAATCATCAAGTGGAAAGATATCCAGGTTGGAGATGTCATCCGCCTGAAGAAGAATGATTTTATTCCAGCTGACATCCTGCTGTTGTCCAGTTCAGAGCCTAACAGCCTCTGCTATGTAGAAACGGCTGAGCTCGACGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGACATCCTGCTGTTGT
59.6
GGCTGCCCTCTTAAACTGCT
60.32
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGACATCCTGCTGTTGT
59.6
TGGCTGCCCTCTTAAACTGC
60.61
154
PCR template sequence:
TCCGCCTGAAGAAGAATGATTTTATTCCAGCTGACATCCTGCTGTTGTCCAGTTCAGAGCCTAACAGCCTCTGCTATGTAGAAACGGCTGAGCTCGACGGAGTAATGCAATTAAAACATACAAGTACAATGGATTTACCTTTCTACCCATGAATTTGTTTGAGCAGTTTAAGAGGGCAGCCAACTTCTATTTCCTCATCC
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-221-3p(1), mmu-miR-135a-5p(1), mmu-miR-222-3p(1), mmu-miR-297a-5p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAGCTCGACGGAGTAATGCAATTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B1_419_ORF_1
1.2103
0.276507534
0.763336663
423
ORF sequence:
ATGAATTTGTTTGAGCAGTTTAAGAGGGCAGCCAACTTCTATTTCCTCATCCTCCTGATCCTGCAGGCAATTCCTCAAATCTCCACCCTGGCATGGTATACCACACTTGTACCTCTGCTTTTGGTGCTGGGCATCACGGCCATCAAAGACCTGGTAGATGATGTGGCTCGTCATAAAATGGACAAGGAAATCAACAATAGGACGTGTGAAGTCATTAAGGATGGCAGGTTCAAAATCATCAAGTGGAAAGATATCCAGGTTGGAGATGTCATCCGCCTGAAGAAGAATGATTTTATTCCAGCTGACATCCTGCTGTTGTCCAGTTCAGAGCCTAACAGCCTCTGCTATGTAGAAACGGCTGAGCTCGACGGAGTAATGCAATTAAAACATACAAGTACAATGGATTTACCTTTCTACCCATGA
Peptide sequence:
MNLFEQFKRAANFYFLILLILQAIPQISTLAWYTTLVPLLLVLGITAIKDLVDDVARHKMDKEINNRTCEVIKDGRFKIIKWKDIQVGDVIRLKKNDFIPADILLLSSSEPNSLCYVETAELDGVMQLKHTSTMDLPFYP
IRESfinder result
IRESfinder score
0.532782634
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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