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mmu_circDpysl2_333
Basic information of circular RNA
PanCircBase ID:
mmu_circDpysl2_333
mm39_Chr. Position ID:
chr14|67061793|67067431|-
Gene name:
Dpysl2
Transcript:
ENSMUST00000022629.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,7,6,5
Exon/intron offsets:
0,4426,5017,5576
Genomic length:
5638
Exon/intron sizes in nt:
121,69,81,62
Flanking exon/introns:
chr14:67053036-67061793|chr14:67067431-67071660
Splice length:
333
Other database IDs:
circBase: mmu_circ_0005388, CIRCpedia: MMU_CIRCpedia_26659, circAtlas: mmu-Dpysl2_0004
circBase: hsa_circ_0136214, circAtlas: hsa-DPYSL2_0005, CIRCpedia: HSA_CIRCpedia_141313
Human Ortholog IDs:
Mature spliced Sequence:
GGGTAAACTCCTTCCTCGTGTACATGGCTTTCAAAGATCGATTCCAGCTGACGGATTCCCAGATCTATGAAGTGCTGAGCGTGATCCGGGATATCGGTGCCATAGCTCAAGTCCACGCAGAGAATGGTGACATCATTGCTGAGGAACAGCAGAGGATCCTGGATCTGGGCATCACGGGCCCCGAGGGACACGTGTTGAGCCGGCCAGAGGAGGTCGAGGCTGAAGCTGTGAACCGGTCCATCACTATTGCCAACCAGACCAACTGCCCTCTGTATGTCACCAAAGTGATGAGCAAGAGTGCGGCTGAAGTCATCGCTCAGGCACGGAAGAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAACCAGACCAACTGCCCTC
60.89
CGATATCCCGGATCACGCTC
60.18
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAACCAGACCAACTGCCCTC
60.89
GGGAATCCGTCAGCTGGAAT
59.82
143
PCR template sequence:
CGGTCCATCACTATTGCCAACCAGACCAACTGCCCTCTGTATGTCACCAAAGTGATGAGCAAGAGTGCGGCTGAAGTCATCGCTCAGGCACGGAAGAAGGGGGTAAACTCCTTCCTCGTGTACATGGCTTTCAAAGATCGATTCCAGCTGACGGATTCCCAGATCTATGAAGTGCTGAGCGTGATCCGGGATATCGGTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-182-5p(1), mmu-miR-183-5p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACGGAAGAAGGGGGTAAACTCCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDPYSL2_333_ORF_1
1.2684
0.588601842
0.984319102
642
ORF sequence:
ATGGCTTTCAAAGATCGATTCCAGCTGACGGATTCCCAGATCTATGAAGTGCTGAGCGTGATCCGGGATATCGGTGCCATAGCTCAAGTCCACGCAGAGAATGGTGACATCATTGCTGAGGAACAGCAGAGGATCCTGGATCTGGGCATCACGGGCCCCGAGGGACACGTGTTGAGCCGGCCAGAGGAGGTCGAGGCTGAAGCTGTGAACCGGTCCATCACTATTGCCAACCAGACCAACTGCCCTCTGTATGTCACCAAAGTGATGAGCAAGAGTGCGGCTGAAGTCATCGCTCAGGCACGGAAGAAGGGGGTAAACTCCTTCCTCGTGTACATGGCTTTCAAAGATCGATTCCAGCTGACGGATTCCCAGATCTATGAAGTGCTGAGCGTGATCCGGGATATCGGTGCCATAGCTCAAGTCCACGCAGAGAATGGTGACATCATTGCTGAGGAACAGCAGAGGATCCTGGATCTGGGCATCACGGGCCCCGAGGGACACGTGTTGAGCCGGCCAGAGGAGGTCGAGGCTGAAGCTGTGAACCGGTCCATCACTATTGCCAACCAGACCAACTGCCCTCTGTATGTCACCAAAGTGATGAGCAAGAGTGCGGCTGAAGTCATCGCTCAGGCACGGAAGAAG
Peptide sequence:
MAFKDRFQLTDSQIYEVLSVIRDIGAIAQVHAENGDIIAEEQQRILDLGITGPEGHVLSRPEEVEAEAVNRSITIANQTNCPLYVTKVMSKSAAEVIAQARKKGVNSFLVYMAFKDRFQLTDSQIYEVLSVIRDIGAIAQVHAENGDIIAEEQQRILDLGITGPEGHVLSRPEEVEAEAVNRSITIANQTNCPLYVTKVMSKSAAEVIAQARKK
IRESfinder result
IRESfinder score
0.230810794
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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