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mmu_circCnot6l_1450
Basic information of circular RNA
PanCircBase ID:
mmu_circCnot6l_1450
mm39_Chr. Position ID:
chr5|96227791|96281991|-
Gene name:
Cnot6l
Transcript:
ENSMUST00000155901.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,2937,6209,11651,14228,18312,26283,49010,51126,54078
Genomic length:
54200
Exon/intron sizes in nt:
20,32,28,15,21,55,15,80,00,00,00,00,000
Flanking exon/introns:
chr5:96225251-96227791|chr5:96281991-96309795
Splice length:
1450
Other database IDs:
CIRCpedia: MMU_CIRCpedia_35288, circAtlas: mmu-Cnot6l_0008
circAtlas: hsa-CNOT6L_0009, CIRCpedia: HSA_CIRCpedia_349407
Human Ortholog IDs:
Mature spliced Sequence:
ACTAATAGGGATGCCAAAGGAAAAATATGATCCTCCAGATCCTCGCAGAATTTACACCATCATGTCCGCAGAGGAGGTAGCCAATGGGAAAAAATCTCACTGGGCAGAGTTAGAGATCTCGGGTAGAGTGCGGAGCTTAAGTACATCACTCTGGTCATTAACACACTTGACAGCACTGCACCTAAATGACAATAACCTTGCTCGCATTCCACCTGATATTGCCAAGCTTCATAATCTGGTTTACCTGGATCTGTCATCCAATAAACTCAGAAGTTTACCAGCAGAACTAGGAAACATGGTGTCTCTCAGGGAATTGCTTTTAAATGACAATTATTTACGGGTGTTGCCTTATGAACTTGGCCGGCTCTTCCAGCTACAAACTCTAGGTTTAACAGGCAATCCTTTATCACAGGATATTATGAGCTTATACCAGGACCCAGATGGAACCCGAAAGCTACTGAACTTCATGCTTGACAATCTTGCAGTTCATCCAGAGCAGCTTCCTCCGAGGCCATGGATTACATTAAAAGAACGAGACCAAATTCTGCCATCAGCATCATTCACGGTTATGTGTTACAATGTGTTATGTGATAAATATGCTACCAGGCAGCTATATGGCTATTGTCCGTCCTGGGCATTAAACTGGGAATACAGGAAAAAGGGAATTATGGAAGAAATTGTTAACTGGGACGCAGATATCATTAGTCTTCAGGAAGTGGAAACAGAGCAATACTTTACTCTCTTTCTGCCAGCATTGAAGGATCGTGGATATGATGGATTTTTTTCTCCAAAGTCACGTGCCAAAATCATGTCTGAGCAGGAAAGAAAGCATGTGGATGGTTGTGCAATATTCTTCAAAACAGAAAAATTTACATTGGTGCAGAAGCATACAGTGGAATTCAACCAGGTAGCAATGGCAAATTCAGATGGATCCGAAGCAATGCTAAACAGAGTAATGACGAAAGATAACATTGGCGTTGCTGTGGTGTTAGAGGTCCACAAGGAGCTTTTTGGAACAGGTATGAAGCCTATTCATGCTGCAGACAAACAGCTGCTTATAGTGGCAAATGCCCACATGCATTGGGACCCAGAGTATTCTGATGTGAAACTTATTCAGACCATGATGTTTGTCTCAGAGGTTAAAAACATTCTGGAGAAAGCCTCAAGTAGGCCTGGCAGCCCAACTGCAGATCCCAATTCCATCCCGCTGGTGCTATGTGCAGATCTTAACTCATTGCCAGATTCAGGTGTTGTGGAATATTTAAGCAACGGTGGAGTAGCTGACAACCATAAAGACTTCAAGGAACTAAGGTACAATGAGTGTCTTATGAACTTCAGCTGTAGTGGAAAGAATGGAAGCTCAGAAGGGAGAATCACACATGGCTTCCAACTTAAGAGCGCCTATGAAAATAACTTGATGCCTTATACCAATTACACCTTTGATTTCAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCCAACTTAAGAGCGCC
59.55
TACCTCCTCTGCGGACATGA
60.03
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTTCCAACTTAAGAGCGC
59.55
TACCTCCTCTGCGGACATGA
60.03
148
PCR template sequence:
GAATGGAAGCTCAGAAGGGAGAATCACACATGGCTTCCAACTTAAGAGCGCCTATGAAAATAACTTGATGCCTTATACCAATTACACCTTTGATTTCAAAACTAATAGGGATGCCAAAGGAAAAATATGATCCTCCAGATCCTCGCAGAATTTACACCATCATGTCCGCAGAGGAGGTAGCCAATGGGAAAAAATCTCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-182-5p(2), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-29a-3p(1), mmu-miR-7a-5p(1), mmu-miR-184-3p(1), mmu-miR-125b-5p(1), mmu-miR-127-3p(1), mmu-miR-351-5p(1), mmu-miR-363-3p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1), mmu-miR-99a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTGATTTCAAAACTAATAGGGATG
siRNA sets
ATTAGTTTTGAAATCAAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNOT6L_1450_ORF_1
0.7566
0.087911332
0.99914499
1470
ORF sequence:
ATGCCAAAGGAAAAATATGATCCTCCAGATCCTCGCAGAATTTACACCATCATGTCCGCAGAGGAGGTAGCCAATGGGAAAAAATCTCACTGGGCAGAGTTAGAGATCTCGGGTAGAGTGCGGAGCTTAAGTACATCACTCTGGTCATTAACACACTTGACAGCACTGCACCTAAATGACAATAACCTTGCTCGCATTCCACCTGATATTGCCAAGCTTCATAATCTGGTTTACCTGGATCTGTCATCCAATAAACTCAGAAGTTTACCAGCAGAACTAGGAAACATGGTGTCTCTCAGGGAATTGCTTTTAAATGACAATTATTTACGGGTGTTGCCTTATGAACTTGGCCGGCTCTTCCAGCTACAAACTCTAGGTTTAACAGGCAATCCTTTATCACAGGATATTATGAGCTTATACCAGGACCCAGATGGAACCCGAAAGCTACTGAACTTCATGCTTGACAATCTTGCAGTTCATCCAGAGCAGCTTCCTCCGAGGCCATGGATTACATTAAAAGAACGAGACCAAATTCTGCCATCAGCATCATTCACGGTTATGTGTTACAATGTGTTATGTGATAAATATGCTACCAGGCAGCTATATGGCTATTGTCCGTCCTGGGCATTAAACTGGGAATACAGGAAAAAGGGAATTATGGAAGAAATTGTTAACTGGGACGCAGATATCATTAGTCTTCAGGAAGTGGAAACAGAGCAATACTTTACTCTCTTTCTGCCAGCATTGAAGGATCGTGGATATGATGGATTTTTTTCTCCAAAGTCACGTGCCAAAATCATGTCTGAGCAGGAAAGAAAGCATGTGGATGGTTGTGCAATATTCTTCAAAACAGAAAAATTTACATTGGTGCAGAAGCATACAGTGGAATTCAACCAGGTAGCAATGGCAAATTCAGATGGATCCGAAGCAATGCTAAACAGAGTAATGACGAAAGATAACATTGGCGTTGCTGTGGTGTTAGAGGTCCACAAGGAGCTTTTTGGAACAGGTATGAAGCCTATTCATGCTGCAGACAAACAGCTGCTTATAGTGGCAAATGCCCACATGCATTGGGACCCAGAGTATTCTGATGTGAAACTTATTCAGACCATGATGTTTGTCTCAGAGGTTAAAAACATTCTGGAGAAAGCCTCAAGTAGGCCTGGCAGCCCAACTGCAGATCCCAATTCCATCCCGCTGGTGCTATGTGCAGATCTTAACTCATTGCCAGATTCAGGTGTTGTGGAATATTTAAGCAACGGTGGAGTAGCTGACAACCATAAAGACTTCAAGGAACTAAGGTACAATGAGTGTCTTATGAACTTCAGCTGTAGTGGAAAGAATGGAAGCTCAGAAGGGAGAATCACACATGGCTTCCAACTTAAGAGCGCCTATGAAAATAACTTGATGCCTTATACCAATTACACCTTTGATTTCAAAACTAATAGGGATGCCAAAGGAAAAATATGA
Peptide sequence:
MPKEKYDPPDPRRIYTIMSAEEVANGKKSHWAELEISGRVRSLSTSLWSLTHLTALHLNDNNLARIPPDIAKLHNLVYLDLSSNKLRSLPAELGNMVSLRELLLNDNYLRVLPYELGRLFQLQTLGLTGNPLSQDIMSLYQDPDGTRKLLNFMLDNLAVHPEQLPPRPWITLKERDQILPSASFTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNWDADIISLQEVETEQYFTLFLPALKDRGYDGFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQVAMANSDGSEAMLNRVMTKDNIGVAVVLEVHKELFGTGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFVSEVKNILEKASSRPGSPTADPNSIPLVLCADLNSLPDSGVVEYLSNGGVADNHKDFKELRYNECLMNFSCSGKNGSSEGRITHGFQLKSAYENNLMPYTNYTFDFKTNRDAKGKI
IRESfinder result
IRESfinder score
0.615449964
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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