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mmu_circAsxl2_511
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl2_511
mm39_Chr. Position ID:
chr12|3526025|3543839|+
Gene name:
Asxl2
Transcript:
ENSMUST00000144247.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,8419,13611,17708
Genomic length:
17814
Exon/intron sizes in nt:
144,164,97,106
Flanking exon/introns:
chr12:3524613-3526025|chr12:3543839-3546224
Splice length:
511
Other database IDs:
CIRCpedia: HSA_CIRCpedia_91493
Human Ortholog IDs:
Mature spliced Sequence:
CCCTATGGGAAGGAAAGCAATCTGATGGACAGTCAAGCAGTCCCCAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACAAGACAGATGAAAAGGACTAAATGTGCTGACATTGATGTTGAGACTCCTGATTCCATTCTGGTTAATACTAATCTTCGAGCACTGATCAACAAGCACACCTTTTCAGTTCTTCCTGGAGACTGCCAGCAGCGCCTGCTTTTGTTGCTTCCAGAGGTGGATCGACAGGTTGGTCCAGATGGCCTGATGAAGTTGAATGGCTCAGCCCTTAACAATGAGTTCTTCACTTCTGCAGCCCAGGGCTGGAAGGAAAGGCTCTCAGAAGGTGAATTTACTCCTGAAATGCAGGTGAGAATTCGACAAGAGATTGAGAAGGAGAAGAAAGTAGAGCTGTGGAAGGAACAATTCTTTGAAAATTACTATGGTCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGGTGAGAATTCGACAAGA
59.96
TGAGTTCTGGGGACTGCTTG
59.6
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGGTGAGAATTCGACAAGA
59.96
GAGTTCTGGGGACTGCTTGA
59.31
140
PCR template sequence:
TTACTCCTGAAATGCAGGTGAGAATTCGACAAGAGATTGAGAAGGAGAAGAAAGTAGAGCTGTGGAAGGAACAATTCTTTGAAAATTACTATGGTCAGAGCCCTATGGGAAGGAAAGCAATCTGATGGACAGTCAAGCAGTCCCCAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGG
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-320-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTATGGTCAGAGCCCTATGGGAAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL2_511_ORF_1
0.8006
0.177348943
0.666452947
519
ORF sequence:
ATGGTCAGAGCCCTATGGGAAGGAAAGCAATCTGATGGACAGTCAAGCAGTCCCCAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACAAGACAGATGAAAAGGACTAAATGTGCTGACATTGATGTTGAGACTCCTGATTCCATTCTGGTTAATACTAATCTTCGAGCACTGATCAACAAGCACACCTTTTCAGTTCTTCCTGGAGACTGCCAGCAGCGCCTGCTTTTGTTGCTTCCAGAGGTGGATCGACAGGTTGGTCCAGATGGCCTGATGAAGTTGAATGGCTCAGCCCTTAACAATGAGTTCTTCACTTCTGCAGCCCAGGGCTGGAAGGAAAGGCTCTCAGAAGGTGAATTTACTCCTGAAATGCAGGTGAGAATTCGACAAGAGATTGAGAAGGAGAAGAAAGTAGAGCTGTGGAAGGAACAATTCTTTGAAAATTACTATGGTCAG
Peptide sequence:
MVRALWEGKQSDGQSSSPQNSNSSFSSSVKVESSLLGLGKKSFQRSDRLHTRQMKRTKCADIDVETPDSILVNTNLRALINKHTFSVLPGDCQQRLLLLLPEVDRQVGPDGLMKLNGSALNNEFFTSAAQGWKERLSEGEFTPEMQVRIRQEIEKEKKVELWKEQFFENYYGQ
IRESfinder result
IRESfinder score
0.610823586
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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