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mmu_circAsxl2_482
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl2_482
mm39_Chr. Position ID:
chr12|3505546|3524613|+
Gene name:
Asxl2
Transcript:
ENSMUST00000138740.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
4,5,6,7
Exon/intron offsets:
0,1515,13931,18943
Genomic length:
19067
Exon/intron sizes in nt:
94,14,81,16,124
Flanking exon/introns:
chr12:3501770-3505546|chr12:3524613-3534444
Splice length:
482
Other database IDs:
circAtlas: mmu-Asxl2_0029
Human Ortholog IDs:
Mature spliced Sequence:
ATACTTGTTGAACCTACAGGTCAAGATGTCTGGCTGGCAACTAACTCTATAAAAGCTGTCCTGCATTTTGAAGGAAGGAATATAAAAATATGGGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGTATCATCTAGACTGTCACATCCACCCTCTCCCCCGTCAGGCTGCCCATCACCCACCATTCCAGCAAGTAAAGTCATTTCTCCATCACAGAAGCACAGCAAAAAGGCATTAAAACAGGCCTTGAAGCAGCAACAACAGAAGAAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAAGCAGCAGCAATGCAG
59.76
TTGCCAGCCAGACATCTTGA
59.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAAGCAGCAGCAATGCAG
59.76
AGTTGCCAGCCAGACATCTT
59.6
142
PCR template sequence:
AAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGATACTTGTTGAACCTACAGGTCAAGATGTCTGGCTGGCAACTAACTCTATAAAAGCTGTCCTGCATTTTGAAGGAAGGAATATAAAAATATGGGAAAGAT
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-33-5p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGCCAAACCTGATACTTGTTGAAC
siRNA sets
AAGTATCAGGTTTGGCAGG, AACAAGTATCAGGTTTGGC, ACAAGTATCAGGTTTGGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL2_482_ORF_3
0.8952
0.015736228
0.050671681
84
ORF sequence:
ATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGATACTTGTTGA
Peptide sequence:
MSISNQHLSLKTVKAASDSVPAKPDTC
IRESfinder result
IRESfinder score
0.509975724
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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