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mmu_circAsxl2_497
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl2_497
mm39_Chr. Position ID:
chr12|3501661|3524613|+
Gene name:
Asxl2
Transcript:
ENSMUST00000111215.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
4,5,6,7
Exon/intron offsets:
0,5400,17816,22828
Genomic length:
22952
Exon/intron sizes in nt:
109,148,116,124
Flanking exon/introns:
chr12:3500253-3501661|chr12:3524613-3534444
Splice length:
497
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17368, circAtlas: mmu-Asxl2_0013
Human Ortholog IDs:
Mature spliced Sequence:
TGGGACTTCCCCTCTTGCATGCTTGAATGCAATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTATACTTTGAAGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGTATCATCTAGACTGTCACATCCACCCTCTCCCCCGTCAGGCTGCCCATCACCCACCATTCCAGCAAGTAAAGTCATTTCTCCATCACAGAAGCACAGCAAAAAGGCATTAAAACAGGCCTTGAAGCAGCAACAACAGAAGAAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGACCAAGCATGTCCAT
59.96
GATGCCTTCTTCTCCTCGGG
59.89
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCAGCAATGCAGACCAAG
60.11
GATGCCTTCTTCTCCTCGGG
59.89
161
PCR template sequence:
AAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGTGGGACTTCCCCTCTTGCATGCTTGAATGCAATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-33-5p(1), mmu-miR-107-3p(1), mmu-miR-300-3p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGCCAAACCTGTGGGACTTCCCCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL2_497_ORF_1
0.4608
0.121817964
0.410722971
492
ORF sequence:
ATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTATACTTTGAAGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGTATCATCTAGACTGTCACATCCACCCTCTCCCCCGTCAGGCTGCCCATCACCCACCATTCCAGCAAGTAAAGTCATTTCTCCATCACAGAAGCACAGCAAAAAGGCATTAAAACAGGCCTTGAAGCAGCAACAACAGAAGAAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGTGGGACTTCCCCTCTTGCATGCTTGA
Peptide sequence:
MLHTNSRGEEGIFYKVPGRMGVYTLKKDVPDGVKELSEGSEESSDGQSDSQSSENSSSSDGGSNKEGRKSRWKRKVSSRLSHPPSPPSGCPSPTIPASKVISPSQKHSKKALKQALKQQQQKKKQQQCRPSMSISNQHLSLKTVKAASDSVPAKPVGLPLLHA
IRESfinder result
IRESfinder score
0.571557439
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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