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mmu_circCntrl_591_1
Basic information of circular RNA
PanCircBase ID:
mmu_circCntrl_591_1
mm39_Chr. Position ID:
chr2|35003335|35010135|+
Gene name:
Cntrl
Transcript:
ENSMUST00000028235.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,3348,4731,6613
Genomic length:
6800
Exon/intron sizes in nt:
1,31,13,11,42,187
Flanking exon/introns:
chr2:35001814-35003335|chr2:35010135-35012671
Splice length:
591
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTGAGTCATATGTAGGAGTCCGGTATATTACAGAAGCCCTCATCAAAAAACTCACTAAACAGGACAATTTGGCCTTGGTGAAGTCTCTGAATCTTTCACTTTCTAAAGATGGCGGCAAGAAATTTAGGTACATCGAAAATTTGGAAAAGTGTGTTAAACTTGAAGTACTAAATCTCAGCTATAATCTAATAGTGAAGATAGAGAAAGTGGACAAGCTGTTACGATTACGTGAACTCAACTTATCATATAACAAAATCAGCAAAATTGAAGGACTAGAAAACATGTGTAACCTGCAGAAGCTAAACCTAGCAGGTAATGAAATCGAGCATATTCCAGTGTGGTTCGCAAAGAAATTGAAATCTTTACGAGTCCTCAATCTGAAAGGCAATAAGATATCATCGCTCCAGGATGTAAGCAAGTTGAAGCCACTTCAAGATTTGACTTCTTTAGTCCTCATTGACAATCCAGTTGTGGCCCTTCCGCATTACCTCCAGTTCATCATTTTCCACCTCCGTTCCCTGGAAAGTTTGGAAGGTCAGCCAGTAACCACTCAGGATAGACAAGAGGCTTTCGAGAGATTCAGCTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTTCCACCTCCGTTCCCTG
59.89
CAGAGACTTCACCAAGGCCA
59.6
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCTCCGTTCCCTGGAAAG
60.32
CAGAGACTTCACCAAGGCCA
59.6
174
PCR template sequence:
CTCCAGTTCATCATTTTCCACCTCCGTTCCCTGGAAAGTTTGGAAGGTCAGCCAGTAACCACTCAGGATAGACAAGAGGCTTTCGAGAGATTCAGCTTGGGAGCTGAGTCATATGTAGGAGTCCGGTATATTACAGAAGCCCTCATCAAAAAACTCACTAAACAGGACAATTTGGCCTTGGTGAAGTCTCTGAATCTTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-194-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
AGATTCAGCTTGGGAGCTGAGTCATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNTRL_591_1_ORF_1
1.0785
0.131780643
0.97694919
897
ORF sequence:
ATGTGTAACCTGCAGAAGCTAAACCTAGCAGGTAATGAAATCGAGCATATTCCAGTGTGGTTCGCAAAGAAATTGAAATCTTTACGAGTCCTCAATCTGAAAGGCAATAAGATATCATCGCTCCAGGATGTAAGCAAGTTGAAGCCACTTCAAGATTTGACTTCTTTAGTCCTCATTGACAATCCAGTTGTGGCCCTTCCGCATTACCTCCAGTTCATCATTTTCCACCTCCGTTCCCTGGAAAGTTTGGAAGGTCAGCCAGTAACCACTCAGGATAGACAAGAGGCTTTCGAGAGATTCAGCTTGGGAGCTGAGTCATATGTAGGAGTCCGGTATATTACAGAAGCCCTCATCAAAAAACTCACTAAACAGGACAATTTGGCCTTGGTGAAGTCTCTGAATCTTTCACTTTCTAAAGATGGCGGCAAGAAATTTAGGTACATCGAAAATTTGGAAAAGTGTGTTAAACTTGAAGTACTAAATCTCAGCTATAATCTAATAGTGAAGATAGAGAAAGTGGACAAGCTGTTACGATTACGTGAACTCAACTTATCATATAACAAAATCAGCAAAATTGAAGGACTAGAAAACATGTGTAACCTGCAGAAGCTAAACCTAGCAGGTAATGAAATCGAGCATATTCCAGTGTGGTTCGCAAAGAAATTGAAATCTTTACGAGTCCTCAATCTGAAAGGCAATAAGATATCATCGCTCCAGGATGTAAGCAAGTTGAAGCCACTTCAAGATTTGACTTCTTTAGTCCTCATTGACAATCCAGTTGTGGCCCTTCCGCATTACCTCCAGTTCATCATTTTCCACCTCCGTTCCCTGGAAAGTTTGGAAGGTCAGCCAGTAACCACTCAGGATAGACAAGAGGCTTTCGAGAGATTCAGCTTG
Peptide sequence:
MCNLQKLNLAGNEIEHIPVWFAKKLKSLRVLNLKGNKISSLQDVSKLKPLQDLTSLVLIDNPVVALPHYLQFIIFHLRSLESLEGQPVTTQDRQEAFERFSLGAESYVGVRYITEALIKKLTKQDNLALVKSLNLSLSKDGGKKFRYIENLEKCVKLEVLNLSYNLIVKIEKVDKLLRLRELNLSYNKISKIEGLENMCNLQKLNLAGNEIEHIPVWFAKKLKSLRVLNLKGNKISSLQDVSKLKPLQDLTSLVLIDNPVVALPHYLQFIIFHLRSLESLEGQPVTTQDRQEAFERFSL
IRESfinder result
IRESfinder score
0.694325016
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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