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mmu_circCers6_675
Basic information of circular RNA
PanCircBase ID:
mmu_circCers6_675
mm39_Chr. Position ID:
chr2|68764858|68901782|+
Gene name:
Cers6
Transcript:
ENSMUST00000028426.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,12712,68232,112630,116265,134114,136817
Genomic length:
136924
Exon/intron sizes in nt:
1,06,13,15,85,19,31,29,000
Flanking exon/introns:
chr2:68692149-68764858|chr2:68901782-68935346
Splice length:
675
Other database IDs:
CIRCpedia: MMU_CIRCpedia_27072, circAtlas: mmu-Cers6_0008
circBase: hsa_circ_0056941, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_93001
Human Ortholog IDs:
Mature spliced Sequence:
ATTCATAGCCAAACCATGTGCCATAGCCCTCAACATCCAAGCCAATGGACCACAAACTGCCCAGCCAAATGCCATTCTGGAAAAGGTTTTCACTGCTATAACAAAGCATCCTGATGAAAAGAGATTAGAAGGGCTCTCCAAGCAGCTGGACTGGGATGTTCGGAGCATTCAACGCTGGTTTCGACAAAGACGCAACCAGGAGAAACCCAGCACTCTGACCAGGTTCTGTGAGAGCATGTGGAGATTTTCCTTTTACCTCTATGTATTTAGCTACGGAGTCCGGTTCTTGAAACAGACCCCTTGGTTGTGGAATACAAGACACTGCTGGTATAACTACCCTTACCAGCCACTCACAGCTGACCTTCACTACTATTACATCCTGGAGCTGTCATTTTATTGGTCTTTAATGGTTTCCCAGTTCACAGATATCAAAAGGAAGGACTTCGGCATTATGTTCCTGCACCACCTTGCAACAATTTTCTTAATAACCTTTTCATATGTCAACAACATGGCCCGAGTAGGAACCCTGGTCCTCTGTCTTCACGACTCAGCCGATGCTCTGCTAGAGGCTGCCAAAATGGCAAATTACGCCAAATTTCAGAAAATGTGTGATCTCCTGTTTGTCATGTTTGCCGTGGTTTTTATCACCACACGGCTGGGCATATTTCCTCTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGTTTGTCATGTTTGCCG
59.66
CAGAATGGCATTTGGCTGGG
59.82
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCTGTTTGTCATGTTTGCCG
60.61
CAGAATGGCATTTGGCTGGG
59.82
141
PCR template sequence:
AAATGGCAAATTACGCCAAATTTCAGAAAATGTGTGATCTCCTGTTTGTCATGTTTGCCGTGGTTTTTATCACCACACGGCTGGGCATATTTCCTCTCTGATTCATAGCCAAACCATGTGCCATAGCCCTCAACATCCAAGCCAATGGACCACAAACTGCCCAGCCAAATGCCATTCTGGAAAAGGTTTTCACTGCTATA
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-136-5p(1), mmu-miR-183-5p(1), mmu-miR-335-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TATTTCCTCTCTGATTCATAGCCAAA
siRNA sets
TGGCTATGAATCAGAGAGG, TTTGGCTATGAATCAGAGA, TTGGCTATGAATCAGAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCERS6_675_ORF_1
0.8746
0.066164092
0.451326654
441
ORF sequence:
ATGTGGAGATTTTCCTTTTACCTCTATGTATTTAGCTACGGAGTCCGGTTCTTGAAACAGACCCCTTGGTTGTGGAATACAAGACACTGCTGGTATAACTACCCTTACCAGCCACTCACAGCTGACCTTCACTACTATTACATCCTGGAGCTGTCATTTTATTGGTCTTTAATGGTTTCCCAGTTCACAGATATCAAAAGGAAGGACTTCGGCATTATGTTCCTGCACCACCTTGCAACAATTTTCTTAATAACCTTTTCATATGTCAACAACATGGCCCGAGTAGGAACCCTGGTCCTCTGTCTTCACGACTCAGCCGATGCTCTGCTAGAGGCTGCCAAAATGGCAAATTACGCCAAATTTCAGAAAATGTGTGATCTCCTGTTTGTCATGTTTGCCGTGGTTTTTATCACCACACGGCTGGGCATATTTCCTCTCTGA
Peptide sequence:
MWRFSFYLYVFSYGVRFLKQTPWLWNTRHCWYNYPYQPLTADLHYYYILELSFYWSLMVSQFTDIKRKDFGIMFLHHLATIFLITFSYVNNMARVGTLVLCLHDSADALLEAAKMANYAKFQKMCDLLFVMFAVVFITTRLGIFPL
IRESfinder result
IRESfinder score
0.65628733
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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