top of page
mmu_circAsxl2_257
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl2_257
mm39_Chr. Position ID:
chr12|3501661|3507209|+
Gene name:
Asxl2
Transcript:
ENSMUST00000111215.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,5400
Genomic length:
5548
Exon/intron sizes in nt:
109,148
Flanking exon/introns:
chr12:3500253-3501661|chr12:3507209-3519477
Splice length:
257
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17367, circAtlas: mmu-Asxl2_0002
circBase: hsa_circ_0004476, circAtlas: hsa-ASXL2_0001, CIRCpedia: HSA_CIRCpedia_40511
Human Ortholog IDs:
Mature spliced Sequence:
TGGGACTTCCCCTCTTGCATGCTTGAATGCAATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTATACTTTGAAGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCTGAGAACAGCAGCAG
60.04
GATGCCTTCTTCTCCTCGGG
59.89
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCTCTGAGAACAGCAGCA
60.04
GATGCCTTCTTCTCCTCGGG
59.89
141
PCR template sequence:
AGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGTGGGACTTCCCCTCTTGCATGCTTGAATGCAATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTAT
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
TGGAAAAGGAAAGTGGGACTTCCCCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL2_257_ORF_1
0.6831
0.151893932
0.175766541
252
ORF sequence:
ATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTATACTTTGAAGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGTGGGACTTCCCCTCTTGCATGCTTGA
Peptide sequence:
MLHTNSRGEEGIFYKVPGRMGVYTLKKDVPDGVKELSEGSEESSDGQSDSQSSENSSSSDGGSNKEGRKSRWKRKVGLPLLHA
IRESfinder result
IRESfinder score
0.470975487
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page