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mmu_circCntrl_360
Basic information of circular RNA
PanCircBase ID:
mmu_circCntrl_360
mm39_Chr. Position ID:
chr2|35035068|35037423|+
Gene name:
Cntrl
Transcript:
ENSMUST00000156933.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
18,19
Exon/intron offsets:
0,2175
Genomic length:
2355
Exon/intron sizes in nt:
1,80,180
Flanking exon/introns:
chr2:35034433-35035068|chr2:35037423-35038502
Splice length:
360
Other database IDs:
circAtlas: mmu-Cntrl_0012
circBase: hsa_circ_0088328
Human Ortholog IDs:
Mature spliced Sequence:
ATTAAGTTTGATAAAAGACAACATAATGCAAGAATCCAGCAATTAGAAAATGAAATTCACTATTTGCAAGAGAACCTAAAAAGTATGGAAAAAATCCAAGGCCTTACAGACCTTCAGCTTCAGGAAGCAGATGAAGAGAAGGAAAGAATTCTGGCCCAACTCCAGGAGTTAGAGAAAAAGAAGAAGCGTGAAGATGCCAGATCTCAGGAACAGTTTCTTGGTTTAGATGAAGAACTGAAGAGTCTGAAGAAAGCGGTGGCTGCTTCTGATAAATTAGCTGCGGCTGAGCTCACCATTGCCAAAGACCAGCTCAAGTCCCTGCACGGAACTGTTGTGAGAATTAATCAGGAGCGAGCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCATTGCCAAAGACCAGC
60.04
AGGTTCTCTTGCAAATAGTGAA
55.65
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCATTGCCAAAGACCAGCT
60.18
AGGTTCTCTTGCAAATAGTGAA
55.65
146
PCR template sequence:
TGCTTCTGATAAATTAGCTGCGGCTGAGCTCACCATTGCCAAAGACCAGCTCAAGTCCCTGCACGGAACTGTTGTGAGAATTAATCAGGAGCGAGCAGAGATTAAGTTTGATAAAAGACAACATAATGCAAGAATCCAGCAATTAGAAAATGAAATTCACTATTTGCAAGAGAACCTAAAAAGTATGGAAAAAATCCAAG
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-127-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGCGAGCAGAGATTAAGTTTGATA
siRNA sets
TATCAAACTTAATCTCTGC, CTTAATCTCTGCTCGCTCC, ATCAAACTTAATCTCTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNTRL_360_ORF_1
1.2431
0.333074969
0.952717213
636
ORF sequence:
ATGGAAAAAATCCAAGGCCTTACAGACCTTCAGCTTCAGGAAGCAGATGAAGAGAAGGAAAGAATTCTGGCCCAACTCCAGGAGTTAGAGAAAAAGAAGAAGCGTGAAGATGCCAGATCTCAGGAACAGTTTCTTGGTTTAGATGAAGAACTGAAGAGTCTGAAGAAAGCGGTGGCTGCTTCTGATAAATTAGCTGCGGCTGAGCTCACCATTGCCAAAGACCAGCTCAAGTCCCTGCACGGAACTGTTGTGAGAATTAATCAGGAGCGAGCAGAGATTAAGTTTGATAAAAGACAACATAATGCAAGAATCCAGCAATTAGAAAATGAAATTCACTATTTGCAAGAGAACCTAAAAAGTATGGAAAAAATCCAAGGCCTTACAGACCTTCAGCTTCAGGAAGCAGATGAAGAGAAGGAAAGAATTCTGGCCCAACTCCAGGAGTTAGAGAAAAAGAAGAAGCGTGAAGATGCCAGATCTCAGGAACAGTTTCTTGGTTTAGATGAAGAACTGAAGAGTCTGAAGAAAGCGGTGGCTGCTTCTGATAAATTAGCTGCGGCTGAGCTCACCATTGCCAAAGACCAGCTCAAGTCCCTGCACGGAACTGTTGTGAGAATTAATCAGGAGCGAGCAGAG
Peptide sequence:
MEKIQGLTDLQLQEADEEKERILAQLQELEKKKKREDARSQEQFLGLDEELKSLKKAVAASDKLAAAELTIAKDQLKSLHGTVVRINQERAEIKFDKRQHNARIQQLENEIHYLQENLKSMEKIQGLTDLQLQEADEEKERILAQLQELEKKKKREDARSQEQFLGLDEELKSLKKAVAASDKLAAAELTIAKDQLKSLHGTVVRINQERAE
IRESfinder result
IRESfinder score
0.44163393
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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