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mmu_circAtp6v0a1_389
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v0a1_389
mm39_Chr. Position ID:
chr11|100909389|100917589|+
Gene name:
Atp6v0a1
Transcript:
ENSMUST00000154896.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,1909,2490,8117
Genomic length:
8200
Exon/intron sizes in nt:
79,98,129,83
Flanking exon/introns:
chr11:100902763-100909389|chr11:100917589-100918092
Splice length:
389
Other database IDs:
circAtlas: mmu-Atp6v0a1_0035
Human Ortholog IDs:
Mature spliced Sequence:
TTAAATCCAGATGTGAATGTTTTCCAGAGGAAATTTGTGAATGAAGTTAGAAGATGTGAAGAAATGGATCGAAAACTCCGATTTGTTGAGAAAGAGATAAGGAAAGCTAACATCCCAATTATGGACACCGGTGAAAACCCAGAGGTGCCCTTCCCTCGGGACATGATCGACTTAGAGGCCAATTTCGAGAAGATTGAAAATGAACTGAAGGAAATCAACACTAACCAGGAAGCTCTGAAGAGAAACTTCCTGGAACTGACTGAATTAAAATTTATCCTGCGAAAAACCCAGCAGTTTTTCGATGAGATGGCGGATCCAGACCTGTTGGAAGAGTCCTCATCACTCTTGGAGCCAAACGAGATGGGAAGAGGCGCACCCTTACGACTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCGATGAGATGGCGGATCC
59.68
ACAAATCGGAGTTTTCGATCCA
58.33
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCGATGAGATGGCGGATCC
59.68
AACAAATCGGAGTTTTCGATCCA
58.93
179
PCR template sequence:
AGCAGTTTTTCGATGAGATGGCGGATCCAGACCTGTTGGAAGAGTCCTCATCACTCTTGGAGCCAAACGAGATGGGAAGAGGCGCACCCTTACGACTTGGTTAAATCCAGATGTGAATGTTTTCCAGAGGAAATTTGTGAATGAAGTTAGAAGATGTGAAGAAATGGATCGAAAACTCCGATTTGTTGAGAAAGAGATAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-181b-5p(1), mmu-miR-382-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTTACGACTTGGTTAAATCCAGATG
siRNA sets
TCTGGATTTAACCAAGTCG, ATCTGGATTTAACCAAGTC, CATCTGGATTTAACCAAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP6V0A1_389_ORF_1
1.0782
0.406094818
0.686862509
330
ORF sequence:
ATGGATCGAAAACTCCGATTTGTTGAGAAAGAGATAAGGAAAGCTAACATCCCAATTATGGACACCGGTGAAAACCCAGAGGTGCCCTTCCCTCGGGACATGATCGACTTAGAGGCCAATTTCGAGAAGATTGAAAATGAACTGAAGGAAATCAACACTAACCAGGAAGCTCTGAAGAGAAACTTCCTGGAACTGACTGAATTAAAATTTATCCTGCGAAAAACCCAGCAGTTTTTCGATGAGATGGCGGATCCAGACCTGTTGGAAGAGTCCTCATCACTCTTGGAGCCAAACGAGATGGGAAGAGGCGCACCCTTACGACTTGGTTAA
Peptide sequence:
MDRKLRFVEKEIRKANIPIMDTGENPEVPFPRDMIDLEANFEKIENELKEINTNQEALKRNFLELTELKFILRKTQQFFDEMADPDLLEESSSLLEPNEMGRGAPLRLG
IRESfinder result
IRESfinder score
0.474706112
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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