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mmu_ciNav2_750

Basic information of circular RNA
PanCircBase ID:

mmu_ciNav2_750

mm39_Chr. Position ID:

chr7|49201797|49202547|+

Gene name:

Nav2

Transcript:

ENSMUST00000183659.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

16

Exon/intron offsets:

0

Genomic length:

750

Exon/intron sizes in nt:

750

Flanking exon/introns:

chr7:49201797-49202587

Splice length:

750

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTTGGTGCCACGCCCTCAGGAAGATTTCCTTCCCTAGATACAGACATGAGGTTAGGGATCTAAAAACTACTTCGCTGTTACCTGGCAGGTTCTCCCCCCCACTTTTCTGTCTTGGAACTCTTTCTATAGACCAGGCTGGTCTTGAACTCAGAGATCCACCTGTTCTGCCTCCCAAATACTGATAGCCAGGCATGCCAGTGAGTACCTGCTCCATTGTCTGCTAAAGTCCAAGGGAAGGTGGCAAGTGGGAGGCCATCCCAGACCCCAGTGCTCGCCCAGGTGCTTATTAAAGGTGTGCACCACCATGCCCAGCTTGGTTTTGATCTTTCTGATAAGTCTTCCTTTCCACTGGAAGTCAGTTTAGGAGAGAGCTCATCTGGACTGCTTCCTGCTGTCTCTTTCCCTTGGTGCTTGGAGCCACCAGATGGGACAGATTTATGCTACTGTCTGAAATGACACTCAGCATCGGAAAGCCCTCCCGTTGCCGAGGGCTTGCCAACTTCAGCTTCTTCTTTCTTCTTTTGGTGTAACTGAGTGAGCAGGACAGGTGACCTGGGAACAGCTGGGGATGCTTGGTGTCACCATGATAAGCGATGGAGAACCTGCAAGAGTCCTCAGAACTCAGTCTGCTACAGTCTTGGGGTGTGTCTGGTTTCTGGACCAGCCACGGGGAAGCAAAGTTGGGGTCAGCATTGGGAGTGAGAAGAGTGTTCTGATGGTTGTGTATAACAGTTCTTTTTCCTTCTGTCT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AGCAAAGTTGGGGTCAGCAT

60.18

CTGCCAGGTAACAGCGAAGT

60.32

165

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GAAGCAAAGTTGGGGTCAGC

59.68

CTGCCAGGTAACAGCGAAGT

60.32

167

PCR template sequence:

GGTTTCTGGACCAGCCACGGGGAAGCAAAGTTGGGGTCAGCATTGGGAGTGAGAAGAGTGTTCTGATGGTTGTGTATAACAGTTCTTTTTCCTTCTGTCTGTTGGTGCCACGCCCTCAGGAAGATTTCCTTCCCTAGATACAGACATGAGGTTAGGGATCTAAAAACTACTTCGCTGTTACCTGGCAGGTTCTCCCCCCC

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

9

Interacting miRNAs (#binding sites)

mmu-miR-7b-5p(1), mmu-miR-150-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-7a-5p(1), mmu-miR-709(1), mmu-miR-214-3p(1), mmu-miR-3087-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TTTCCTTCTGTCTGTTGGTGCCACGC

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CINAV2_750_ORF_1

0.8541

-0.039798313

0.093452099

219

ORF sequence:

ATGCTTGGTGTCACCATGATAAGCGATGGAGAACCTGCAAGAGTCCTCAGAACTCAGTCTGCTACAGTCTTGGGGTGTGTCTGGTTTCTGGACCAGCCACGGGGAAGCAAAGTTGGGGTCAGCATTGGGAGTGAGAAGAGTGTTCTGATGGTTGTGTATAACAGTTCTTTTTCCTTCTGTCTGTTGGTGCCACGCCCTCAGGAAGATTTCCTTCCCTAG

Peptide sequence:

MLGVTMISDGEPARVLRTQSATVLGCVWFLDQPRGSKVGVSIGSEKSVLMVVYNSSFSFCLLVPRPQEDFLP

IRESfinder result

IRESfinder score

0.710153854

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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