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mmu_circCntrl_591_2
Basic information of circular RNA
PanCircBase ID:
mmu_circCntrl_591_2
mm39_Chr. Position ID:
chr2|35037243|35039606|+
Gene name:
Cntrl
Transcript:
ENSMUST00000156933.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
19,20,21,22
Exon/intron offsets:
0,1259,1639,2214
Genomic length:
2363
Exon/intron sizes in nt:
1,80,11,71,45,149
Flanking exon/introns:
chr2:35035248-35037243|chr2:35039606-35041691
Splice length:
591
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAGAAGCGTGAAGATGCCAGATCTCAGGAACAGTTTCTTGGTTTAGATGAAGAACTGAAGAGTCTGAAGAAAGCGGTGGCTGCTTCTGATAAATTAGCTGCGGCTGAGCTCACCATTGCCAAAGACCAGCTCAAGTCCCTGCACGGAACTGTTGTGAGAATTAATCAGGAGCGAGCAGAGGAGCTGCAGGAGGCAGAGAGGTTCAGCAGAGAGGCCATGCAAGCAGCCAAGGACCTGAGCAGAGCGGAGGCAGAGATCGAGCTCCTGCAGCACCTTCTCAGGGAGAGAGAGGGCCAGTTCCGAGATGAGATGGAAAATGCAGATTTAGGTGCTAAAGGAGCAAACTCCCAGCTGCTAGAGATTGAGGCGCTGAACGAGGCCATGGCGAAGCAAAGAGCTGAGATCACGAGACTCCGGGATGTATTAAACCTCACGGGGGCAGGTACAAAAGGAGGCATTGAGAACGTGTTAGAGGAAATCGCTGAGCTCCGGCATGCAGTCTCTGCTCAGAACGAGTACATCAGCAGCATGGCAGATCCTTTCAGAAGACAAGGCTGGTGGTACTTTATGCCACCAGCACCATCCTCAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGCATGGCAGATCCTTT
60.03
CAGCCACCGCTTTCTTCAGA
60.6
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGCATGGCAGATCCTTT
60.03
GCCACCGCTTTCTTCAGACT
60.6
149
PCR template sequence:
GCATGCAGTCTCTGCTCAGAACGAGTACATCAGCAGCATGGCAGATCCTTTCAGAAGACAAGGCTGGTGGTACTTTATGCCACCAGCACCATCCTCAAAAAAGAAGCGTGAAGATGCCAGATCTCAGGAACAGTTTCTTGGTTTAGATGAAGAACTGAAGAGTCTGAAGAAAGCGGTGGCTGCTTCTGATAAATTAGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-216a-5p(1), mmu-miR-217-5p(1), mmu-miR-138-5p(1), mmu-miR-351-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-670-5p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCATCCTCAAAAAAGAAGCGTGAAG
siRNA sets
TTCACGCTTCTTTTTTGAG, CTTCACGCTTCTTTTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNTRL_591_2_ORF_1
1.0246
0.39195757
0.994558027
966
ORF sequence:
ATGCAAGCAGCCAAGGACCTGAGCAGAGCGGAGGCAGAGATCGAGCTCCTGCAGCACCTTCTCAGGGAGAGAGAGGGCCAGTTCCGAGATGAGATGGAAAATGCAGATTTAGGTGCTAAAGGAGCAAACTCCCAGCTGCTAGAGATTGAGGCGCTGAACGAGGCCATGGCGAAGCAAAGAGCTGAGATCACGAGACTCCGGGATGTATTAAACCTCACGGGGGCAGGTACAAAAGGAGGCATTGAGAACGTGTTAGAGGAAATCGCTGAGCTCCGGCATGCAGTCTCTGCTCAGAACGAGTACATCAGCAGCATGGCAGATCCTTTCAGAAGACAAGGCTGGTGGTACTTTATGCCACCAGCACCATCCTCAAAAAAGAAGCGTGAAGATGCCAGATCTCAGGAACAGTTTCTTGGTTTAGATGAAGAACTGAAGAGTCTGAAGAAAGCGGTGGCTGCTTCTGATAAATTAGCTGCGGCTGAGCTCACCATTGCCAAAGACCAGCTCAAGTCCCTGCACGGAACTGTTGTGAGAATTAATCAGGAGCGAGCAGAGGAGCTGCAGGAGGCAGAGAGGTTCAGCAGAGAGGCCATGCAAGCAGCCAAGGACCTGAGCAGAGCGGAGGCAGAGATCGAGCTCCTGCAGCACCTTCTCAGGGAGAGAGAGGGCCAGTTCCGAGATGAGATGGAAAATGCAGATTTAGGTGCTAAAGGAGCAAACTCCCAGCTGCTAGAGATTGAGGCGCTGAACGAGGCCATGGCGAAGCAAAGAGCTGAGATCACGAGACTCCGGGATGTATTAAACCTCACGGGGGCAGGTACAAAAGGAGGCATTGAGAACGTGTTAGAGGAAATCGCTGAGCTCCGGCATGCAGTCTCTGCTCAGAACGAGTACATCAGCAGCATGGCAGATCCTTTCAGAAGACAAGGCTGGTGGTACTTTATGCCACCAGCACCATCCTCAAAA
Peptide sequence:
MQAAKDLSRAEAEIELLQHLLREREGQFRDEMENADLGAKGANSQLLEIEALNEAMAKQRAEITRLRDVLNLTGAGTKGGIENVLEEIAELRHAVSAQNEYISSMADPFRRQGWWYFMPPAPSSKKKREDARSQEQFLGLDEELKSLKKAVAASDKLAAAELTIAKDQLKSLHGTVVRINQERAEELQEAERFSREAMQAAKDLSRAEAEIELLQHLLREREGQFRDEMENADLGAKGANSQLLEIEALNEAMAKQRAEITRLRDVLNLTGAGTKGGIENVLEEIAELRHAVSAQNEYISSMADPFRRQGWWYFMPPAPSSK
IRESfinder result
IRESfinder score
0.239918301
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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