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mmu_circAsxl2_343
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl2_343
mm39_Chr. Position ID:
chr12|3492473|3507209|+
Gene name:
Asxl2
Transcript:
ENSMUST00000111215.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,7777,9188,14588
Genomic length:
14736
Exon/intron sizes in nt:
83,3,109,148
Flanking exon/introns:
chr12:3477212-3492473|chr12:3507209-3519477
Splice length:
343
Other database IDs:
circBase: mmu_circ_0000346, CIRCpedia: MMU_CIRCpedia_17303, circAtlas: mmu-Asxl2_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTCTTAGAAAAATACCCTAATACACCCATGAGTCATAAAGAAATTCTTCAGGTTATCCAGAGAGAAGGACTGAAAGAAATCAGGTGTGGGACTTCCCCTCTTGCATGCTTGAATGCAATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTATACTTTGAAGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGCAGCAACAAAGAAGGG
59.97
GGAAGTCCCACACCTGATTTCT
59.96
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGGCAGCAACAAAGAAGG
59.97
GGAAGTCCCACACCTGATTTCT
59.96
142
PCR template sequence:
AGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGGTCTTAGAAAAATACCCTAATACACCCATGAGTCATAAAGAAATTCTTCAGGTTATCCAGAGAGAAGGACTGAAAGAAATCAGGTGTGGGACTTCCCCTC
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-103-3p(1), mmu-miR-107-3p(1), mmu-miR-300-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGAAAAGGAAAGGTCTTAGAAAAAT
siRNA sets
ATTTTTCTAAGACCTTTCC, TTTTTCTAAGACCTTTCCT, CTAAGACCTTTCCTTTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL2_343_ORF_1
0.8505
0.133260617
0.501602369
435
ORF sequence:
ATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGGTCTTAGAAAAATACCCTAATACACCCATGAGTCATAAAGAAATTCTTCAGGTTATCCAGAGAGAAGGACTGAAAGAAATCAGGTGTGGGACTTCCCCTCTTGCATGCTTGAATGCAATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTATACTTTGAAGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAA
Peptide sequence:
MVSQILRALRTAAAVMVAATKKGERAGGKGKVLEKYPNTPMSHKEILQVIQREGLKEIRCGTSPLACLNAMLHTNSRGEEGIFYKVPGRMGVYTLKKDVPDGVKELSEGSEESSDGQSDSQSSENSSSSDGGSNKEGRKSRWKRK
IRESfinder result
IRESfinder score
0.52055038
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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