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mmu_circL3mbtl3_272

Basic information of circular RNA
PanCircBase ID:

mmu_circL3mbtl3_272

mm39_Chr. Position ID:

chr10|26218405|26220621|-

Gene name:

L3mbtl3

Transcript:

ENSMUST00000105519.10

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

2

Exon/intron indexes:

4,3

Exon/intron offsets:

0,2104

Genomic length:

2216

Exon/intron sizes in nt:

1,60,112

Flanking exon/introns:

chr10:26216938-26218405|chr10:26220621-26228156

Splice length:

272

Other database IDs:

circAtlas: mmu-L3mbtl3_0014

Human Ortholog IDs:
Mature spliced Sequence:

TTTCGAGTAAATGAGTTTGGAGCTTTGGAAGTTATCACAGACGAAAGCGAGATGGAAAGTGTTAAGAAAGCTACAGCCACTACCACATGGATGGTCCCAACTGCTCAAGACGTCTTTTCAGAGAAGACTGGGGTACCCTTCAGGCTGAAGGAGCAATCAAAAGCAGACGGGCTTCAGTTTTGTGAGAACTGTTGTCAGTATGGCAACGGAGATGAATGTCTTTCGGGAGGAAAGTATTGCAGCCAGAATTGTGCTCGGCATGCCAAAGACAA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CGGGAGGAAAGTATTGCAGC

58.98

CCATCCATGTGGTAGTGGCT

59.45

143

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TGGCAACGGAGATGAATGTCT

59.72

CCATCCATGTGGTAGTGGCT

59.45

166

PCR template sequence:

TTCAGTTTTGTGAGAACTGTTGTCAGTATGGCAACGGAGATGAATGTCTTTCGGGAGGAAAGTATTGCAGCCAGAATTGTGCTCGGCATGCCAAAGACAATTTCGAGTAAATGAGTTTGGAGCTTTGGAAGTTATCACAGACGAAAGCGAGATGGAAAGTGTTAAGAAAGCTACAGCCACTACCACATGGATGGTCCCAA

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-7b-5p(1), mmu-miR-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-181d-5p(1)

siRNAs for circular RNA silencing
Junction sequence

ATGCCAAAGACAATTTCGAGTAAATG

siRNA sets

CATTTACTCGAAATTGTCT, TTACTCGAAATTGTCTTTG, ATTTACTCGAAATTGTCTT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCL3MBTL3_272_ORF_1

0.6285

0.104301251

0.214013943

327

ORF sequence:

ATGTCTTTCGGGAGGAAAGTATTGCAGCCAGAATTGTGCTCGGCATGCCAAAGACAATTTCGAGTAAATGAGTTTGGAGCTTTGGAAGTTATCACAGACGAAAGCGAGATGGAAAGTGTTAAGAAAGCTACAGCCACTACCACATGGATGGTCCCAACTGCTCAAGACGTCTTTTCAGAGAAGACTGGGGTACCCTTCAGGCTGAAGGAGCAATCAAAAGCAGACGGGCTTCAGTTTTGTGAGAACTGTTGTCAGTATGGCAACGGAGATGAATGTCTTTCGGGAGGAAAGTATTGCAGCCAGAATTGTGCTCGGCATGCCAAAGAC

Peptide sequence:

MSFGRKVLQPELCSACQRQFRVNEFGALEVITDESEMESVKKATATTTWMVPTAQDVFSEKTGVPFRLKEQSKADGLQFCENCCQYGNGDECLSGGKYCSQNCARHAKD

IRESfinder result

IRESfinder score

0.290959162

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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