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mmu_circAqr_257
Basic information of circular RNA
PanCircBase ID:
mmu_circAqr_257
mm39_Chr. Position ID:
chr2|113938584|113940535|-
Gene name:
Aqr
Transcript:
ENSMUST00000043160.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
32,31
Exon/intron offsets:
0,1780
Genomic length:
1951
Exon/intron sizes in nt:
86,171
Flanking exon/introns:
chr2:113936455-113938584|chr2:113940535-113942962
Splice length:
257
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AACCTTGGAGAGGCAGAGTATGTAGTGGCGCTCTTCATGTACATGTGCTTGCTTGGTTACCCTGCAGACAAGATCAGTATTCTAACAACCTACAATGGACAGAAGCATCTGATTCGGGACATCATCAATAGGCGCTGTGGGAATAATCCACTGATTGGAAGGCCAAACAAAGTGACAACAGTTGACAGATTCCAGGGTCAGCAGAACGATTATATCCTCCTTTCGCTAGTGCGGACCAGGGCTGTGGGTCATCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGGTCAGCAGAACGATT
60.04
ACTGATCTTGTCTGCAGGGT
58.64
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCCAGGGTCAGCAGAACG
60.04
ACTGATCTTGTCTGCAGGGT
58.64
147
PCR template sequence:
GAAGGCCAAACAAAGTGACAACAGTTGACAGATTCCAGGGTCAGCAGAACGATTATATCCTCCTTTCGCTAGTGCGGACCAGGGCTGTGGGTCATCTGAGAACCTTGGAGAGGCAGAGTATGTAGTGGCGCTCTTCATGTACATGTGCTTGCTTGGTTACCCTGCAGACAAGATCAGTATTCTAACAACCTACAATGGAC
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-429-3p(1), mmu-miR-673-5p(1), mmu-miR-5101(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGTCATCTGAGAACCTTGGAGAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAQR_257_ORF_1
1.1756
0.134947205
0.322574965
246
ORF sequence:
ATGTACATGTGCTTGCTTGGTTACCCTGCAGACAAGATCAGTATTCTAACAACCTACAATGGACAGAAGCATCTGATTCGGGACATCATCAATAGGCGCTGTGGGAATAATCCACTGATTGGAAGGCCAAACAAAGTGACAACAGTTGACAGATTCCAGGGTCAGCAGAACGATTATATCCTCCTTTCGCTAGTGCGGACCAGGGCTGTGGGTCATCTGAGAACCTTGGAGAGGCAGAGTATGTAG
Peptide sequence:
MYMCLLGYPADKISILTTYNGQKHLIRDIINRRCGNNPLIGRPNKVTTVDRFQGQQNDYILLSLVRTRAVGHLRTLERQSM
IRESfinder result
IRESfinder score
0.650214737
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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