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mmu_circAsxl2_641
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl2_641
mm39_Chr. Position ID:
chr12|3501661|3526169|+
Gene name:
Asxl2
Transcript:
ENSMUST00000144247.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,5400,17816,22828,24364
Genomic length:
24508
Exon/intron sizes in nt:
10,91,48,11,61,24,144
Flanking exon/introns:
chr12:3495454-3501661|chr12:3526169-3534444
Splice length:
641
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17369, circAtlas: mmu-Asxl2_0008
circAtlas: hsa-ASXL2_0004, CIRCpedia: HSA_CIRCpedia_40509
Human Ortholog IDs:
Mature spliced Sequence:
TGGGACTTCCCCTCTTGCATGCTTGAATGCAATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTATACTTTGAAGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGTATCATCTAGACTGTCACATCCACCCTCTCCCCCGTCAGGCTGCCCATCACCCACCATTCCAGCAAGTAAAGTCATTTCTCCATCACAGAAGCACAGCAAAAAGGCATTAAAACAGGCCTTGAAGCAGCAACAACAGAAGAAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGCCCTATGGGAAGGAAAGCAATCTGATGGACAGTCAAGCAGTCCCCAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCTCTGCTAGGCTTGGGG
60.11
CACGCCCATTCTACCTGGAA
59.75
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCTCTGCTAGGCTTGGGG
60.11
ACGCCCATTCTACCTGGAAC
59.75
153
PCR template sequence:
CAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACAATGGGACTTCCCCTCTTGCATGCTTGAATGCAATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTAT
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-103-3p(1), mmu-miR-33-5p(1), mmu-miR-320-3p(1), mmu-miR-107-3p(1), mmu-miR-300-3p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGACTCCACACAATGGGACTTCCCCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL2_641_ORF_1
0.4965
0.089920028
0.647352636
636
ORF sequence:
ATGCTGCACACAAACTCCCGAGGAGAAGAAGGCATCTTCTATAAAGTTCCAGGTAGAATGGGCGTGTATACTTTGAAGAAAGATGTGCCAGATGGAGTGAAAGAGCTGTCAGAAGGTTCAGAAGAAAGCAGTGATGGTCAGTCAGATTCTCAGAGCTCTGAGAACAGCAGCAGCAGTGATGGTGGCAGCAACAAAGAAGGGAGAAAGAGCAGGTGGAAAAGGAAAGTATCATCTAGACTGTCACATCCACCCTCTCCCCCGTCAGGCTGCCCATCACCCACCATTCCAGCAAGTAAAGTCATTTCTCCATCACAGAAGCACAGCAAAAAGGCATTAAAACAGGCCTTGAAGCAGCAACAACAGAAGAAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGCCCTATGGGAAGGAAAGCAATCTGATGGACAGTCAAGCAGTCCCCAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACAATGGGACTTCCCCTCTTGCATGCTTGA
Peptide sequence:
MLHTNSRGEEGIFYKVPGRMGVYTLKKDVPDGVKELSEGSEESSDGQSDSQSSENSSSSDGGSNKEGRKSRWKRKVSSRLSHPPSPPSGCPSPTIPASKVISPSQKHSKKALKQALKQQQQKKKQQQCRPSMSISNQHLSLKTVKAASDSVPAKPALWEGKQSDGQSSSPQNSNSSFSSSVKVESSLLGLGKKSFQRSDRLHTMGLPLLHA
IRESfinder result
IRESfinder score
0.607975827
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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