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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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