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mmu_circAsxl2_384
Basic information of circular RNA
PanCircBase ID:
mmu_circAsxl2_384
mm39_Chr. Position ID:
chr12|3519477|3526169|+
Gene name:
Asxl2
Transcript:
ENSMUST00000144247.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,7,8
Exon/intron offsets:
0,5012,6548
Genomic length:
6692
Exon/intron sizes in nt:
116,124,144
Flanking exon/introns:
chr12:3507209-3519477|chr12:3526169-3534444
Splice length:
384
Other database IDs:
circBase: hsa_circ_0004976, circAtlas: hsa-ASXL2_0015, CIRCpedia: HSA_CIRCpedia_40508
Human Ortholog IDs:
Mature spliced Sequence:
TATCATCTAGACTGTCACATCCACCCTCTCCCCCGTCAGGCTGCCCATCACCCACCATTCCAGCAAGTAAAGTCATTTCTCCATCACAGAAGCACAGCAAAAAGGCATTAAAACAGGCCTTGAAGCAGCAACAACAGAAGAAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGCCCTATGGGAAGGAAAGCAATCTGATGGACAGTCAAGCAGTCCCCAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCTCTGCTAGGCTTGGGG
60.11
TGCTGTGCTTCTGTGATGGA
59.6
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTGCTAGGCTTGGGGAAG
59.82
TGCTGTGCTTCTGTGATGGA
59.6
153
PCR template sequence:
CAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACAATATCATCTAGACTGTCACATCCACCCTCTCCCCCGTCAGGCTGCCCATCACCCACCATTCCAGCAAGTAAAGTCATTTCTCCATCACAGAAGCACAGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-320-3p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGACTCCACACAATATCATCTAGACT
siRNA sets
AGTCTAGATGATATTGTGT, ATGATATTGTGTGGAGTCT, GTCTAGATGATATTGTGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASXL2_384_ORF_1
0.5158
0.052347296
0.560186876
600
ORF sequence:
ATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGCCCTATGGGAAGGAAAGCAATCTGATGGACAGTCAAGCAGTCCCCAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACAATATCATCTAGACTGTCACATCCACCCTCTCCCCCGTCAGGCTGCCCATCACCCACCATTCCAGCAAGTAAAGTCATTTCTCCATCACAGAAGCACAGCAAAAAGGCATTAAAACAGGCCTTGAAGCAGCAACAACAGAAGAAGAAGCAGCAGCAATGCAGACCAAGCATGTCCATCTCCAATCAACACCTCTCTCTCAAGACTGTCAAAGCAGCCAGTGACTCTGTACCTGCCAAACCTGCCCTATGGGAAGGAAAGCAATCTGATGGACAGTCAAGCAGTCCCCAGAACTCAAATTCCAGCTTTTCTTCCTCAGTGAAAGTGGAAAGTTCTCTGCTAGGCTTGGGGAAGAAGTCTTTCCAGAGGTCTGACAGACTCCACACA
Peptide sequence:
MSISNQHLSLKTVKAASDSVPAKPALWEGKQSDGQSSSPQNSNSSFSSSVKVESSLLGLGKKSFQRSDRLHTISSRLSHPPSPPSGCPSPTIPASKVISPSQKHSKKALKQALKQQQQKKKQQQCRPSMSISNQHLSLKTVKAASDSVPAKPALWEGKQSDGQSSSPQNSNSSFSSSVKVESSLLGLGKKSFQRSDRLHT
IRESfinder result
IRESfinder score
0.691514251
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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