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mmu_ciNhlrc2_583

Basic information of circular RNA
PanCircBase ID:

mmu_ciNhlrc2_583

mm39_Chr. Position ID:

chr19|56580239|56580822|+

Gene name:

Nhlrc2

Transcript:

ENSMUST00000071423.7

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

7

Exon/intron offsets:

0

Genomic length:

583

Exon/intron sizes in nt:

583

Flanking exon/introns:

chr19:56580239-56580824

Splice length:

583

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAAGAACCTGTCTGTGCGCACATCCCTGAGTGAGCCATCCATGGAGTGCAGGGGTTCATTTCTGGCCTGTCTGTAATAACATGCAGTCAAAGCAGAGAGAGTGTGGCTATAAATACAGAGCTGGGCAGTGGTGGCGCATGACTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTCCGAGGCCAGCCTGGTCTACAGAGAGAGTTCCAGGACAGCCAGGGCTACACAAAAGAAATACAAGTAAAGCCCTCCCTCTGAGAAAGGCGCCCACCTGACTACATACAAGCATTCAGGGGACGGGAAGAGAGTGATTGCACCGGGTTTGTGGCAGTGGGTTAGCAGGAGAACTGCACTAGATGTGAGCCTACTGTGGGCAAGACAGCATGGCAGTTAGTAGAGTGCAGAGTGAGCCTACTGTGTTCCCCATTCTCTATCGCACGCTGGAACTACTGGGAAAAGTCAGAGCTTCCCAGCTTTAGAAACACTGGAATCTTAGTTTTCACTTTACCTCCTAACAAAGCACTGAAAATTTTAATAACTGCTGTTTCTTTCTCTTTAAAAAAAAATAAA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CACTTTACCTCCTAACAAAGCACTG

60.05

AGGCCAGAAATGAACCCCTG

59.96

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CACTTTACCTCCTAACAAAGCACTG

60.05

CAGGCCAGAAATGAACCCCT

59.96

141

PCR template sequence:

CAGCTTTAGAAACACTGGAATCTTAGTTTTCACTTTACCTCCTAACAAAGCACTGAAAATTTTAATAACTGCTGTTTCTTTCTCTTTAAAAAAAAATAAAGTAAAGAACCTGTCTGTGCGCACATCCCTGAGTGAGCCATCCATGGAGTGCAGGGGTTCATTTCTGGCCTGTCTGTAATAACATGCAGTCAAAGCAGAGA

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

10

Interacting miRNAs (#binding sites)

mmu-miR-324-3p(2), mmu-miR-146a-5p(1), mmu-miR-298-5p(1), mmu-miR-320-3p(1), mmu-miR-495-3p(1), mmu-miR-127-5p(1), mmu-miR-297a-5p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-146b-5p(1)

siRNAs for circular RNA silencing
Junction sequence

AAAAAAAAATAAAGTAAAGAACCTGT

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

NA

NA

NA

NA

NA

ORF sequence:

NA

Peptide sequence:

NA

IRESfinder result

IRESfinder score

0.769266047

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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