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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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