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mmu_circAff2_206
Basic information of circular RNA
PanCircBase ID:
mmu_circAff2_206
mm39_Chr. Position ID:
chrX|68768647|68828705|+
Gene name:
Aff2
Transcript:
ENSMUST00000033532.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,371,42140,60020
Genomic length:
60058
Exon/intron sizes in nt:
37,34,97,38
Flanking exon/introns:
chrX:68737594-68768647|chrX:68828705-68874349
Splice length:
206
Other database IDs:
circAtlas: mmu-Aff2_0004
circAtlas: hsa-AFF2_0004
Human Ortholog IDs:
Mature spliced Sequence:
GAATCTCAGCATCTGACTCCAGGATTTACCTTACAAAAGTGGAGCGACCCAAGCAGCAGAGCTTCCACAAAGATGCTTGAGGATGACTTGAAGCTGAGCAGTGATGAAGATGACCTTGAGCCTGTGAAGACCTTGACCACACAGTGCACAGCCAACGAGCTTTACCAGGCTGTTGAAAAGGCAAAACCTAAGAATAATCCTGTGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGTGAAGACCTTGACCA
59.89
TTTGTGGAAGCTCTGCTGCT
60.18
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGTGAAGACCTTGACCA
59.89
CTTTGTGGAAGCTCTGCTGC
59.76
159
PCR template sequence:
AAGATGACCTTGAGCCTGTGAAGACCTTGACCACACAGTGCACAGCCAACGAGCTTTACCAGGCTGTTGAAAAGGCAAAACCTAAGAATAATCCTGTGAAGAATCTCAGCATCTGACTCCAGGATTTACCTTACAAAAGTGGAGCGACCCAAGCAGCAGAGCTTCCACAAAGATGCTTGAGGATGACTTGAAGCTGAGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
ATAATCCTGTGAAGAATCTCAGCATC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAFF2_206_ORF_1
1.1783
0.404378774
0.419274335
150
ORF sequence:
ATGCTTGAGGATGACTTGAAGCTGAGCAGTGATGAAGATGACCTTGAGCCTGTGAAGACCTTGACCACACAGTGCACAGCCAACGAGCTTTACCAGGCTGTTGAAAAGGCAAAACCTAAGAATAATCCTGTGAAGAATCTCAGCATCTGA
Peptide sequence:
MLEDDLKLSSDEDDLEPVKTLTTQCTANELYQAVEKAKPKNNPVKNLSI
IRESfinder result
IRESfinder score
0.468443255
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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