top of page
mmu_circAtp6v0a2_535
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v0a2_535
mm39_Chr. Position ID:
chr5|124773952|124782987|+
Gene name:
Atp6v0a2
Transcript:
ENSMUST00000037865.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,1471,3180,5455,8952
Genomic length:
9035
Exon/intron sizes in nt:
98,138,89,127,83
Flanking exon/introns:
chr5:124770896-124773952|chr5:124782987-124783884
Splice length:
535
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGTACCTGGTGCAGGAAATCACCAGAGCTGATATTCCCCTGCCTGAAGGAGAGGCCAGTCCTCCCGCACCACCTCTTAAACATGTCCTAGAAATGCAGGAACAGCTGCAGAAGCTGGAGGTGGAGCTCAGAGAAGTCACCAAGAACAAGGAGAAGCTGAGGAAGAACCTGTTGGAGCTGGTGGAGTACACCCACATGCTGAGGGTCACGAAGACCTTCCTCAAGCGGAATGTGGAGTTTGAGCCCACGTATGAAGAGTTTCCCGCCTTAGAGAACGACTCTCTGTTGGACTACAGCTGCATGCAGCGGCTGGGCGCCAAGCTGGGATTCGTTTCTGGCCTGATTCAGCAAGGCAGAGTTGAAGCATTTGAAAGGATGCTGTGGCGGGCCTGCAAAGGGTACACCATTGTGACCTATGCAGAGCTGGACGAGTGCCTGGAGGACCCTGAAACGGGTGAAGTCATAAAGTGGTACGTGTTCCTGATTTCCTTTTGGGGAGAGCAGATTGGCCACAAGGTTAAGAAGATATGTGACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTGAAACGGGTGAAGTCA
59.89
GTTTAAGAGGTGGTGCGGGA
59.96
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTGAAACGGGTGAAGTCA
59.89
TGTTTAAGAGGTGGTGCGGG
60.25
175
PCR template sequence:
TGGAGGACCCTGAAACGGGTGAAGTCATAAAGTGGTACGTGTTCCTGATTTCCTTTTGGGGAGAGCAGATTGGCCACAAGGTTAAGAAGATATGTGACTGTGTACCTGGTGCAGGAAATCACCAGAGCTGATATTCCCCTGCCTGAAGGAGAGGCCAGTCCTCCCGCACCACCTCTTAAACATGTCCTAGAAATGCAGGA
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-326-3p(1), mmu-miR-153-3p(1), mmu-miR-207(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGATATGTGACTGTGTACCTGGTGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP6V0A2_535_ORF_1
1.2861
0.435612387
0.910938021
474
ORF sequence:
ATGCAGGAACAGCTGCAGAAGCTGGAGGTGGAGCTCAGAGAAGTCACCAAGAACAAGGAGAAGCTGAGGAAGAACCTGTTGGAGCTGGTGGAGTACACCCACATGCTGAGGGTCACGAAGACCTTCCTCAAGCGGAATGTGGAGTTTGAGCCCACGTATGAAGAGTTTCCCGCCTTAGAGAACGACTCTCTGTTGGACTACAGCTGCATGCAGCGGCTGGGCGCCAAGCTGGGATTCGTTTCTGGCCTGATTCAGCAAGGCAGAGTTGAAGCATTTGAAAGGATGCTGTGGCGGGCCTGCAAAGGGTACACCATTGTGACCTATGCAGAGCTGGACGAGTGCCTGGAGGACCCTGAAACGGGTGAAGTCATAAAGTGGTACGTGTTCCTGATTTCCTTTTGGGGAGAGCAGATTGGCCACAAGGTTAAGAAGATATGTGACTGTGTACCTGGTGCAGGAAATCACCAGAGCTGA
Peptide sequence:
MQEQLQKLEVELREVTKNKEKLRKNLLELVEYTHMLRVTKTFLKRNVEFEPTYEEFPALENDSLLDYSCMQRLGAKLGFVSGLIQQGRVEAFERMLWRACKGYTIVTYAELDECLEDPETGEVIKWYVFLISFWGEQIGHKVKKICDCVPGAGNHQS
IRESfinder result
IRESfinder score
0.444222373
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page