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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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Institute of Life sciences, Bhubaneswar, India

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