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mmu_ciNup93_393

Basic information of circular RNA
PanCircBase ID:

mmu_ciNup93_393

mm39_Chr. Position ID:

chr8|95030393|95030786|+

Gene name:

Nup93

Transcript:

ENSMUST00000079961.14

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

11

Exon/intron offsets:

0

Genomic length:

393

Exon/intron sizes in nt:

393

Flanking exon/introns:

chr8:95030393-95030787

Splice length:

393

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTAGGCACAGTGTCCTTTGGCTGCTCAAGTCCGCCATGCTCAACGCTCGTAATGCATGAAGTTTGTGTAGTACTCAGGACAGGGACAGTGGATTTTGTATCAAATCCACTTTATTTTTTTTATTGTGTAATTCCCAACTAATAACTACACAGTCAGCTTTCTTTTTCTTCTTTCCTTCCCTCCTCTTCCCCCACTTCCCTTTCCCTTTGCTTTGCTAGGGACGGAATTTAGGGCATCAGTCATGCTCTACTAAAATACAGCCCAGCCCCAAGAACCACAGTGTGTCATGTAGCCCCAGCTCACAGCATCAAGCTTAGCTGCTGGGCAGCTACAGCTCTGCGTGTGGGTGACGGTGTAGTCTGTACCAATGTGCTTGTTTCCTTTGGGCATTTA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GTGGGTGACGGTGTAGTCTG

60.04

ATCCACTGTCCCTGTCCTGA

59.88

144

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GTGTGGGTGACGGTGTAGTC

60.32

ATCCACTGTCCCTGTCCTGA

59.88

146

PCR template sequence:

CCCAGCTCACAGCATCAAGCTTAGCTGCTGGGCAGCTACAGCTCTGCGTGTGGGTGACGGTGTAGTCTGTACCAATGTGCTTGTTTCCTTTGGGCATTTAGTAGGCACAGTGTCCTTTGGCTGCTCAAGTCCGCCATGCTCAACGCTCGTAATGCATGAAGTTTGTGTAGTACTCAGGACAGGGACAGTGGATTTTGTAT

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

5

Interacting miRNAs (#binding sites)

mmu-miR-221-3p(1), mmu-miR-222-3p(1), mmu-miR-339-5p(1), mmu-miR-22-3p(1), mmu-miR-188-3p(1)

siRNAs for circular RNA silencing
Junction sequence

CTTTGGGCATTTAGTAGGCACAGTGT

siRNA sets

CTGTGCCTACTAAATGCCC, CACTGTGCCTACTAAATGC, TGTGCCTACTAAATGCCCA

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

0.854715248

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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