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mmu_circDock10_237

Basic information of circular RNA
PanCircBase ID:

mmu_circDock10_237

mm39_Chr. Position ID:

chr1|80501432|80501809|-

Gene name:

Dock10

Transcript:

ENSMUST00000077946.12

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

2

Exon/intron indexes:

50,49

Exon/intron offsets:

0,254

Genomic length:

377

Exon/intron sizes in nt:

1,14,123

Flanking exon/introns:

chr1:80493352-80501432|chr1:80501809-80503940

Splice length:

237

Other database IDs:

circAtlas: mmu-Dock10_0054

CIRCpedia: HSA_CIRCpedia_93780

Human Ortholog IDs:
Mature spliced Sequence:

AACATCCTAGTGGAACAGCTGTATATGTGTGTGGAGTTCCTTTGGAAGTCTGAACGATACGAACTCATCGCTGATGTCAATAAGCCCATCATCGCTGTCTTTGAAAAGCAACGAGACTTCAAAAAATTATCAGATCTCTATTATGACATCCACCGGTCCTATCTGAAAGTGGCAGAGGTGGTGAATTCGGAGAAGCGATTGTTTGGTCGTTACTATAGAGTGGCGTTTTATGGGCAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GCAGAGGTGGTGAATTCGGA

60.04

AGACAGCGATGATGGGCTTA

58.88

166

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GAAAGTGGCAGAGGTGGTGA

59.89

AGACAGCGATGATGGGCTTA

58.88

173

PCR template sequence:

CTATTATGACATCCACCGGTCCTATCTGAAAGTGGCAGAGGTGGTGAATTCGGAGAAGCGATTGTTTGGTCGTTACTATAGAGTGGCGTTTTATGGGCAGAACATCCTAGTGGAACAGCTGTATATGTGTGTGGAGTTCCTTTGGAAGTCTGAACGATACGAACTCATCGCTGATGTCAATAAGCCCATCATCGCTGTCT

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

1

Interacting miRNAs (#binding sites)

mmu-miR-207(1)

siRNAs for circular RNA silencing
Junction sequence

GTTTTATGGGCAGAACATCCTAGTGG

siRNA sets

CCACTAGGATGTTCTGCCC, CACTAGGATGTTCTGCCCA, GATGTTCTGCCCATAAAAC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCDOCK10_237_ORF_1

0.9807

0.363026512

0.786027647

450

ORF sequence:

ATGTGTGTGGAGTTCCTTTGGAAGTCTGAACGATACGAACTCATCGCTGATGTCAATAAGCCCATCATCGCTGTCTTTGAAAAGCAACGAGACTTCAAAAAATTATCAGATCTCTATTATGACATCCACCGGTCCTATCTGAAAGTGGCAGAGGTGGTGAATTCGGAGAAGCGATTGTTTGGTCGTTACTATAGAGTGGCGTTTTATGGGCAGAACATCCTAGTGGAACAGCTGTATATGTGTGTGGAGTTCCTTTGGAAGTCTGAACGATACGAACTCATCGCTGATGTCAATAAGCCCATCATCGCTGTCTTTGAAAAGCAACGAGACTTCAAAAAATTATCAGATCTCTATTATGACATCCACCGGTCCTATCTGAAAGTGGCAGAGGTGGTGAATTCGGAGAAGCGATTGTTTGGTCGTTACTATAGAGTGGCGTTTTATGGGCAG

Peptide sequence:

MCVEFLWKSERYELIADVNKPIIAVFEKQRDFKKLSDLYYDIHRSYLKVAEVVNSEKRLFGRYYRVAFYGQNILVEQLYMCVEFLWKSERYELIADVNKPIIAVFEKQRDFKKLSDLYYDIHRSYLKVAEVVNSEKRLFGRYYRVAFYGQ

IRESfinder result

IRESfinder score

0.40144555

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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