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mmu_circAtp8b1_600
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b1_600
mm39_Chr. Position ID:
chr18|64666664|64673439|-
Gene name:
Atp8b1
Transcript:
ENSMUST00000025482.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
27,26,25,24
Exon/intron offsets:
0,4957,5437,6691
Genomic length:
6775
Exon/intron sizes in nt:
131,139,246,84
Flanking exon/introns:
chr18:64664635-64666664|chr18:64673439-64674348
Splice length:
600
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACGGCGTATGAGGATTGGTTTATCACCCTCTACAACGTGCTGTACTCCAGTTTGCCTGTGCTCCTCATGGGGCTGCTGGATCAGGACGTGAGTGACAAGCTGAGCCTCCGATTCCCTGGGCTGTATGTAGTGGGGCAGAGGGACTTGCTGTTCAACTATAAGAGATTCTTTGTCAGTTTGCTGCATGGGGTCTTAACCTCAATGGTCCTCTTCTTCATACCGCTTGGTGCTTATCTGCAAACAGTGGGACAGGATGGGGAGGCGCCTTCAGACTACCAGTCCTTCGCCGTCACGGTGGCCTCCGCTCTAGTGATAACGGTCAACTTCCAGATTGGCTTGGATACTTCATACTGGACTTTTGTGAATGCCTTTTCAATTTTCGGCAGCATCGCACTGTACTTCGGCATCATGTTTGATTTCCACAGTGCTGGGATACACGTTCTCTTTCCGTCCGCATTTCAGTTCACAGGTACAGCTTCCAATGCCCTGAGACAGCCATACATCTGGCTGACCATCATCCTGACGGTTGCCGTGTGCTTACTACCTGTCGTCGCCATCCGTTTCCTGTCCATGACCATTTGGCCCTCAGAAAGTGATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGTTTCCTGTCCATGACCA
59.96
GCTTGTCACTCACGTCCTGA
59.97
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCGTGTGCTTACTACCTGT
60.04
GCTTGTCACTCACGTCCTGA
59.97
172
PCR template sequence:
CATCTGGCTGACCATCATCCTGACGGTTGCCGTGTGCTTACTACCTGTCGTCGCCATCCGTTTCCTGTCCATGACCATTTGGCCCTCAGAAAGTGATAAGACGGCGTATGAGGATTGGTTTATCACCCTCTACAACGTGCTGTACTCCAGTTTGCCTGTGCTCCTCATGGGGCTGCTGGATCAGGACGTGAGTGACAAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAAGTGATAAGACGGCGTATGAGG
siRNA sets
TCATACGCCGTCTTATCAC, ATACGCCGTCTTATCACTT, CATACGCCGTCTTATCACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B1_600_ORF_1
1.2427
0.258679518
0.998131556
1134
ORF sequence:
ATGGGGCTGCTGGATCAGGACGTGAGTGACAAGCTGAGCCTCCGATTCCCTGGGCTGTATGTAGTGGGGCAGAGGGACTTGCTGTTCAACTATAAGAGATTCTTTGTCAGTTTGCTGCATGGGGTCTTAACCTCAATGGTCCTCTTCTTCATACCGCTTGGTGCTTATCTGCAAACAGTGGGACAGGATGGGGAGGCGCCTTCAGACTACCAGTCCTTCGCCGTCACGGTGGCCTCCGCTCTAGTGATAACGGTCAACTTCCAGATTGGCTTGGATACTTCATACTGGACTTTTGTGAATGCCTTTTCAATTTTCGGCAGCATCGCACTGTACTTCGGCATCATGTTTGATTTCCACAGTGCTGGGATACACGTTCTCTTTCCGTCCGCATTTCAGTTCACAGGTACAGCTTCCAATGCCCTGAGACAGCCATACATCTGGCTGACCATCATCCTGACGGTTGCCGTGTGCTTACTACCTGTCGTCGCCATCCGTTTCCTGTCCATGACCATTTGGCCCTCAGAAAGTGATAAGACGGCGTATGAGGATTGGTTTATCACCCTCTACAACGTGCTGTACTCCAGTTTGCCTGTGCTCCTCATGGGGCTGCTGGATCAGGACGTGAGTGACAAGCTGAGCCTCCGATTCCCTGGGCTGTATGTAGTGGGGCAGAGGGACTTGCTGTTCAACTATAAGAGATTCTTTGTCAGTTTGCTGCATGGGGTCTTAACCTCAATGGTCCTCTTCTTCATACCGCTTGGTGCTTATCTGCAAACAGTGGGACAGGATGGGGAGGCGCCTTCAGACTACCAGTCCTTCGCCGTCACGGTGGCCTCCGCTCTAGTGATAACGGTCAACTTCCAGATTGGCTTGGATACTTCATACTGGACTTTTGTGAATGCCTTTTCAATTTTCGGCAGCATCGCACTGTACTTCGGCATCATGTTTGATTTCCACAGTGCTGGGATACACGTTCTCTTTCCGTCCGCATTTCAGTTCACAGGTACAGCTTCCAATGCCCTGAGACAGCCATACATCTGGCTGACCATCATCCTGACGGTTGCCGTGTGCTTACTACCTGTCGTCGCCATCCGTTTCCTGTCCATGACCATTTGGCCCTCAGAAAGTGATAAG
Peptide sequence:
MGLLDQDVSDKLSLRFPGLYVVGQRDLLFNYKRFFVSLLHGVLTSMVLFFIPLGAYLQTVGQDGEAPSDYQSFAVTVASALVITVNFQIGLDTSYWTFVNAFSIFGSIALYFGIMFDFHSAGIHVLFPSAFQFTGTASNALRQPYIWLTIILTVAVCLLPVVAIRFLSMTIWPSESDKTAYEDWFITLYNVLYSSLPVLLMGLLDQDVSDKLSLRFPGLYVVGQRDLLFNYKRFFVSLLHGVLTSMVLFFIPLGAYLQTVGQDGEAPSDYQSFAVTVASALVITVNFQIGLDTSYWTFVNAFSIFGSIALYFGIMFDFHSAGIHVLFPSAFQFTGTASNALRQPYIWLTIILTVAVCLLPVVAIRFLSMTIWPSESDK
IRESfinder result
IRESfinder score
0.598989355
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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