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mmu_circAtp8b1_459

Basic information of circular RNA
PanCircBase ID:

mmu_circAtp8b1_459

mm39_Chr. Position ID:

chr18|64688184|64694807|-

Gene name:

Atp8b1

Transcript:

ENSMUST00000025482.10

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

17,16,15

Exon/intron offsets:

0,1727,6466

Genomic length:

6623

Exon/intron sizes in nt:

11,31,89,157

Flanking exon/introns:

chr18:64686249-64688184|chr18:64694807-64695240

Splice length:

459

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

CTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGAT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

ACGGCTCCATCGGATGAATC

59.97

CTGGCTCTTTCCCTGACTGT

59.31

146

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GAACGGCTCCATCGGATGAA

60.18

CTGGCTCTTTCCCTGACTGT

59.31

148

PCR template sequence:

AGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGATCTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTAC

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

4

Interacting miRNAs (#binding sites)

mmu-miR-101a-3p(1), mmu-miR-101b-3p(1), mmu-miR-149-5p(1), mmu-miR-670-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GGATGCCCTGGATCTAGTGGACTTTA

siRNA sets

AAAGTCCACTAGATCCAGG,AAGTCCACTAGATCCAGGG,TAAAGTCCACTAGATCCAG

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCATP8B1_459_ORF_1

1.2965

0.43970892

0.98977843

780

ORF sequence:

ATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGATCTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGAT

Peptide sequence:

MVDRIDGQINYQAASPDEGALVNAARNFGFAFLARTQNTITVSELGSERTYNVLAILDFNSDRKRMSIIVRTPEGSIRLYCKGADTVIYERLHRMNPTKQETQDALDLVDFSWNTFADGKLAFYDHYLIEQIQSGKEPEVRQFFFLLSICHTVMVDRIDGQINYQAASPDEGALVNAARNFGFAFLARTQNTITVSELGSERTYNVLAILDFNSDRKRMSIIVRTPEGSIRLYCKGADTVIYERLHRMNPTKQETQDALD

IRESfinder result

IRESfinder score

0.278761175

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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