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mmu_circAsxl1_727
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl1_727
mm39_Chr. Position ID:
chr2|153233448|153235898|+
Gene name:
Asxl1
Transcript:
ENSMUST00000227428.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,196,1312,1820,2095,2353
Genomic length:
2450
Exon/intron sizes in nt:
121,98,94,153,164,97
Flanking exon/introns:
chr2:153199098-153233448|chr2:153235898-153238651
Splice length:
727
Other database IDs:
CIRCpedia: MMU_CIRCpedia_10465, circAtlas: mmu-Asxl1_0003
CIRCpedia: HSA_CIRCpedia_33665
Human Ortholog IDs:
Mature spliced Sequence:
AAAGATGCAGTGCAGTGGTCTAGAAATGCAGCTACAGTGGATGGAGACGAGCCAGAGGACTCCGCTGATGTGGAAAGCTGTGGGTCTAATGAAGCCAGCACTGTGAGTGGTGAAAATGATGTATCTCTGGATGAAACATCTTCAAATGCATCCTGCTCTACAGAGTCTCAGAGCCGACCCCTCTCCAATCCCAGGGACAGCCACAGGGCTTCCTCACAGGCAAACAAACAGAAGAAAAGGACTGGGGTTATGCTACCTCGTGTTGTCCTGACTCCTCTGAAGGTAAACGGGGCCCACGTGGAACCTGCGTCAGGATTCTCAGGCCGCCACGCAGATGGCGAGAGTGGCAGTCCATCGAGCAGCAGCAGCGGTTCTCTGGCCTTGGGCAACAGTGCCATTCGAGGCCAGGCCGAGGTCACTCGGGACCCTGCCCCCCTCTTAAGAGGCTTCCGGAAGCCAGCCACAGGGCAAATGAAGCGCAACAGAGGGGAAGAGGTAGATTTTGAGACGCCTGGGTCCATTCTTGTTAACACCAACCTCCGTGCTCTGATAAACTCTCGGACCTTCCATGCCCTGCCACTACACTTCCAGCAGCAACTCCTCCTCCTCCTGCCTGAAGTGGACAGACAGGTGGGGACAGATGGCCTGCTGCGCCTCAGCGGCAGTGCACTCAATAATGAGTTTTTCACCCATGCAGCTCAGAGCTGGCGAGAACGCCTTGCTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGGCAGTGCACTCAATAA
60.32
TTTCCACATCAGCGGAGTCC
60.04
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGGCAGTGCACTCAATAA
60.32
CACAGCTTTCCACATCAGCG
59.83
152
PCR template sequence:
CAGGTGGGGACAGATGGCCTGCTGCGCCTCAGCGGCAGTGCACTCAATAATGAGTTTTTCACCCATGCAGCTCAGAGCTGGCGAGAACGCCTTGCTGATGAAAGATGCAGTGCAGTGGTCTAGAAATGCAGCTACAGTGGATGGAGACGAGCCAGAGGACTCCGCTGATGTGGAAAGCTGTGGGTCTAATGAAGCCAGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-149-5p(1), mmu-miR-183-5p(1), mmu-miR-324-3p(1), mmu-miR-98-5p(1), mmu-miR-325-3p(1), mmu-miR-5101(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
CGCCTTGCTGATGAAAGATGCAGTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL1_727_ORF_1
0.794
0.250752249
0.973689003
885
ORF sequence:
ATGCCCTGCCACTACACTTCCAGCAGCAACTCCTCCTCCTCCTGCCTGAAGTGGACAGACAGGTGGGGACAGATGGCCTGCTGCGCCTCAGCGGCAGTGCACTCAATAATGAGTTTTTCACCCATGCAGCTCAGAGCTGGCGAGAACGCCTTGCTGATGAAAGATGCAGTGCAGTGGTCTAGAAATGCAGCTACAGTGGATGGAGACGAGCCAGAGGACTCCGCTGATGTGGAAAGCTGTGGGTCTAATGAAGCCAGCACTGTGAGTGGTGAAAATGATGTATCTCTGGATGAAACATCTTCAAATGCATCCTGCTCTACAGAGTCTCAGAGCCGACCCCTCTCCAATCCCAGGGACAGCCACAGGGCTTCCTCACAGGCAAACAAACAGAAGAAAAGGACTGGGGTTATGCTACCTCGTGTTGTCCTGACTCCTCTGAAGGTAAACGGGGCCCACGTGGAACCTGCGTCAGGATTCTCAGGCCGCCACGCAGATGGCGAGAGTGGCAGTCCATCGAGCAGCAGCAGCGGTTCTCTGGCCTTGGGCAACAGTGCCATTCGAGGCCAGGCCGAGGTCACTCGGGACCCTGCCCCCCTCTTAAGAGGCTTCCGGAAGCCAGCCACAGGGCAAATGAAGCGCAACAGAGGGGAAGAGGTAGATTTTGAGACGCCTGGGTCCATTCTTGTTAACACCAACCTCCGTGCTCTGATAAACTCTCGGACCTTCCATGCCCTGCCACTACACTTCCAGCAGCAACTCCTCCTCCTCCTGCCTGAAGTGGACAGACAGGTGGGGACAGATGGCCTGCTGCGCCTCAGCGGCAGTGCACTCAATAATGAGTTTTTCACCCATGCAGCTCAGAGCTGGCGAGAACGCCTTGCTGAT
Peptide sequence:
MPCHYTSSSNSSSSCLKWTDRWGQMACCASAAVHSIMSFSPMQLRAGENALLMKDAVQWSRNAATVDGDEPEDSADVESCGSNEASTVSGENDVSLDETSSNASCSTESQSRPLSNPRDSHRASSQANKQKKRTGVMLPRVVLTPLKVNGAHVEPASGFSGRHADGESGSPSSSSSGSLALGNSAIRGQAEVTRDPAPLLRGFRKPATGQMKRNRGEEVDFETPGSILVNTNLRALINSRTFHALPLHFQQQLLLLLPEVDRQVGTDGLLRLSGSALNNEFFTHAAQSWRERLAD
IRESfinder result
IRESfinder score
0.334917649
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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