top of page
mmu_circAsxl1_313
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl1_313
mm39_Chr. Position ID:
chr2|153233448|153234854|+
Gene name:
Asxl1
Transcript:
ENSMUST00000227428.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,196,1312
Genomic length:
1406
Exon/intron sizes in nt:
121,98,94
Flanking exon/introns:
chr2:153199098-153233448|chr2:153234854-153235268
Splice length:
313
Other database IDs:
CIRCpedia: HSA_CIRCpedia_95633
Human Ortholog IDs:
Mature spliced Sequence:
AAAGATGCAGTGCAGTGGTCTAGAAATGCAGCTACAGTGGATGGAGACGAGCCAGAGGACTCCGCTGATGTGGAAAGCTGTGGGTCTAATGAAGCCAGCACTGTGAGTGGTGAAAATGATGTATCTCTGGATGAAACATCTTCAAATGCATCCTGCTCTACAGAGTCTCAGAGCCGACCCCTCTCCAATCCCAGGGACAGCCACAGGGCTTCCTCACAGGCAAACAAACAGAAGAAAAGGACTGGGGTTATGCTACCTCGTGTTGTCCTGACTCCTCTGAAGGTAAACGGGGCCCACGTGGAACCTGCGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCGTGTTGTCCTGACTCC
60.04
CACAGCTTTCCACATCAGCG
59.83
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTACCTCGTGTTGTCCTG
59.68
CACAGCTTTCCACATCAGCG
59.83
145
PCR template sequence:
TCACAGGCAAACAAACAGAAGAAAAGGACTGGGGTTATGCTACCTCGTGTTGTCCTGACTCCTCTGAAGGTAAACGGGGCCCACGTGGAACCTGCGTCAGAAAGATGCAGTGCAGTGGTCTAGAAATGCAGCTACAGTGGATGGAGACGAGCCAGAGGACTCCGCTGATGTGGAAAGCTGTGGGTCTAATGAAGCCAGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-149-5p(1), mmu-miR-98-5p(1), mmu-miR-5101(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GAACCTGCGTCAGAAAGATGCAGTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL1_313_ORF_5
1.0037
0.035697723
0.068023941
87
ORF sequence:
ATGCTACCTCGTGTTGTCCTGACTCCTCTGAAGGTAAACGGGGCCCACGTGGAACCTGCGTCAGAAAGATGCAGTGCAGTGGTCTAG
Peptide sequence:
MLPRVVLTPLKVNGAHVEPASERCSAVV
IRESfinder result
IRESfinder score
0.413921581
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page