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mmu_circCoil_1393
Basic information of circular RNA
PanCircBase ID:
mmu_circCoil_1393
mm39_Chr. Position ID:
chr11|88871894|88878893|+
Gene name:
Coil
Transcript:
ENSMUST00000107898.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,7,8,9,10
Exon/intron offsets:
0,1220,1534,3948,6910
Genomic length:
6999
Exon/intron sizes in nt:
1099,87,48,70,89
Flanking exon/introns:
chr11:88865028-88871894|chr11:88878893-88881493
Splice length:
1393
Other database IDs:
circAtlas: mmu-Coil_0002
CIRCpedia: HSA_CIRCpedia_173181
Human Ortholog IDs:
Mature spliced Sequence:
GGTTAAGTTAGAAGACCAAGGACTCCCTGAGAACCTGATAGTAAGCAATGGTGGCGACTCTAGTTTCCCATGCAGGAAAGCAAAGAAACGGGCTTTTAAGTTGATGGAGGATGAGGAAACAGATCAGGGATACAAGTCTTTGAAGAAGCACTGCAAGAGGCAGGAGGACAGCGGCCAGAATGAGAAGGCCTCGGACCTGGAAACTAAACTCCTCCCAGATGAGACGGGGCGGACAAAGAGCAAGAAAAAGAGCAAAGTGACAGGCAGCCCAGCCGAAGAGGATGAGGAAGAGACCAAAAAGAAGTCTTCAAAAAGAAAGGAGAAGTGTGAACCGAAGAAGCAGACCAGGGCCTCCAAGTCTTCCAAACAACAGACGCCTAAAGAGGGGGCCTCACAGAACTGCAGCTTCCCCAGGGCCTCCCCCAGAAGCCTCGGTAAAGCCCGAAGGAGAAGCAGCACGGGGCTAAAAGGTAGCTCAGGCCACCTGTCAGAGTCTGAGTCCTGCCCAGAGTCAGTCAGCGATGGCCACTGCAGTGTCATGATGCAGGAGGTCACCTTTTCAGAGAAACTGTCAGCTGAGCTGTTGAAAGATGCACCTGCTACCAAGACTGCAGCTGCCAACAGGCAGGCCTCAAAGCCTGGCTTTACCTTCAGCTCCGGCAAGGGCAAGGCCTCCAGAACCTCGTCATCCAGTTCAGACTCCAGTTCAGAGTCGGAAGACCAGTTCCTGGTGTCCAAGAACATGCTCGAGGGCGCATCTGCTGGCTTCTTAAAGCCAACTGGCCTCTTTGCAGGGCAAGGGGGTTCTGGTCCAGGGCTGTCATTGGAGACTCCGGGTATTATGGGATGGAAGTCTTCTGACTCAAACCGGGGCAGACAAGCTCCTGGTCCTCCCAGTACGCCTGTCCCCACCAGTTTGGGAAGAGGATGGGGGCGAGGAGAGGACTTGTTGTTTGGGAAGGGACTGAGGGGCCGGGGTGTCCGGGGCCGAGGGCGAGGGCGCGGGCAAGCGGTCTCCTGTGTCTTTAATAGAAGCTCTGAGAGTCAGAAGCAGAGACAGTTAAATGATATTCTAACAAACTCATCTGTGGTGATCCAGAATCCAGTAGAGCCCCCCAAGAAGGACTATAGTCTATTACCACTGTTGGCAGCTGCCCCTCAAGTTGGAGAAAAGATTGCATTTAAGCTTTTGGAACTCACATCCGACTACTCTCCTGATGTCTCTGACTACAAGGAAGGAAAAATATTAAGTCACGATCCAGAGACCCAGCAAGTGGACATAGAGGTCCTCTCCTCGCTACCGGCTTTGAAAGAACCTGGGAAGTTTGATTTGGTCTATCACAATGAAAATGGAACCGAGGTGGTGGAATACGCTGTGACTCAGGAGAAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGCTACCGGCTTTGAAAGA
59.68
ACTAGAGTCGCCACCATTGC
60.11
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGCTACCGGCTTTGAAAGA
59.68
GGGAAACTAGAGTCGCCACC
60.11
168
PCR template sequence:
CTCGCTACCGGCTTTGAAAGAACCTGGGAAGTTTGATTTGGTCTATCACAATGAAAATGGAACCGAGGTGGTGGAATACGCTGTGACTCAGGAGAAGAGGGGTTAAGTTAGAAGACCAAGGACTCCCTGAGAACCTGATAGTAAGCAATGGTGGCGACTCTAGTTTCCCATGCAGGAAAGCAAAGAAACGGGCTTTTAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-207(4), mmu-miR-9-5p(1), mmu-miR-7b-5p(1), mmu-miR-217-5p(1), mmu-miR-7a-5p(1), mmu-miR-22-3p(1), mmu-miR-335-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGGAGAAGAGGGGTTAAGTTAGAA
siRNA sets
TAACTTAACCCCTCTTCTC, CTTAACCCCTCTTCTCCTG, CTAACTTAACCCCTCTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOIL_1393_ORF_1
0.7556
0.248458621
0.99844559
1296
ORF sequence:
ATGGAGGATGAGGAAACAGATCAGGGATACAAGTCTTTGAAGAAGCACTGCAAGAGGCAGGAGGACAGCGGCCAGAATGAGAAGGCCTCGGACCTGGAAACTAAACTCCTCCCAGATGAGACGGGGCGGACAAAGAGCAAGAAAAAGAGCAAAGTGACAGGCAGCCCAGCCGAAGAGGATGAGGAAGAGACCAAAAAGAAGTCTTCAAAAAGAAAGGAGAAGTGTGAACCGAAGAAGCAGACCAGGGCCTCCAAGTCTTCCAAACAACAGACGCCTAAAGAGGGGGCCTCACAGAACTGCAGCTTCCCCAGGGCCTCCCCCAGAAGCCTCGGTAAAGCCCGAAGGAGAAGCAGCACGGGGCTAAAAGGTAGCTCAGGCCACCTGTCAGAGTCTGAGTCCTGCCCAGAGTCAGTCAGCGATGGCCACTGCAGTGTCATGATGCAGGAGGTCACCTTTTCAGAGAAACTGTCAGCTGAGCTGTTGAAAGATGCACCTGCTACCAAGACTGCAGCTGCCAACAGGCAGGCCTCAAAGCCTGGCTTTACCTTCAGCTCCGGCAAGGGCAAGGCCTCCAGAACCTCGTCATCCAGTTCAGACTCCAGTTCAGAGTCGGAAGACCAGTTCCTGGTGTCCAAGAACATGCTCGAGGGCGCATCTGCTGGCTTCTTAAAGCCAACTGGCCTCTTTGCAGGGCAAGGGGGTTCTGGTCCAGGGCTGTCATTGGAGACTCCGGGTATTATGGGATGGAAGTCTTCTGACTCAAACCGGGGCAGACAAGCTCCTGGTCCTCCCAGTACGCCTGTCCCCACCAGTTTGGGAAGAGGATGGGGGCGAGGAGAGGACTTGTTGTTTGGGAAGGGACTGAGGGGCCGGGGTGTCCGGGGCCGAGGGCGAGGGCGCGGGCAAGCGGTCTCCTGTGTCTTTAATAGAAGCTCTGAGAGTCAGAAGCAGAGACAGTTAAATGATATTCTAACAAACTCATCTGTGGTGATCCAGAATCCAGTAGAGCCCCCCAAGAAGGACTATAGTCTATTACCACTGTTGGCAGCTGCCCCTCAAGTTGGAGAAAAGATTGCATTTAAGCTTTTGGAACTCACATCCGACTACTCTCCTGATGTCTCTGACTACAAGGAAGGAAAAATATTAAGTCACGATCCAGAGACCCAGCAAGTGGACATAGAGGTCCTCTCCTCGCTACCGGCTTTGAAAGAACCTGGGAAGTTTGATTTGGTCTATCACAATGAAAATGGAACCGAGGTGGTGGAATACGCTGTGACTCAGGAGAAGAGGGGTTAA
Peptide sequence:
MEDEETDQGYKSLKKHCKRQEDSGQNEKASDLETKLLPDETGRTKSKKKSKVTGSPAEEDEEETKKKSSKRKEKCEPKKQTRASKSSKQQTPKEGASQNCSFPRASPRSLGKARRRSSTGLKGSSGHLSESESCPESVSDGHCSVMMQEVTFSEKLSAELLKDAPATKTAAANRQASKPGFTFSSGKGKASRTSSSSSDSSSESEDQFLVSKNMLEGASAGFLKPTGLFAGQGGSGPGLSLETPGIMGWKSSDSNRGRQAPGPPSTPVPTSLGRGWGRGEDLLFGKGLRGRGVRGRGRGRGQAVSCVFNRSSESQKQRQLNDILTNSSVVIQNPVEPPKKDYSLLPLLAAAPQVGEKIAFKLLELTSDYSPDVSDYKEGKILSHDPETQQVDIEVLSSLPALKEPGKFDLVYHNENGTEVVEYAVTQEKRG
IRESfinder result
IRESfinder score
0.472347897
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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