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mmu_ciJmy_489

Basic information of circular RNA
PanCircBase ID:

mmu_ciJmy_489

mm39_Chr. Position ID:

chr13|93589406|93589895|-

Gene name:

Jmy

Transcript:

ENSMUST00000065537.9

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

6

Exon/intron offsets:

0

Genomic length:

489

Exon/intron sizes in nt:

489

Flanking exon/introns:

chr13:93589401-93589895

Splice length:

489

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTATTGAAATCTTGTTTTTGTTCATTACTTTATCCTTGATCCATGTCTAATAATTCAAATTATGATTAGTACTATGATTTGGCCATTTTTACTTCCATTCTTAAAAGGAAATCTCTATTACCTATTCTCAGCCCCTTACATTAAATATATTTCTCTTAGAGGTGCCGTCTTACATACATCTGAATGGCTGCACTCTAGCTATTCAGAGGGTTACTTGCTAATGGACATGGTTTCTGCATCCCTGCAGGAGAGGTTTCCCTGATGGAGAGATGTCAGTAGCATAGCCTTACATAATGAGGTTGGGGTGTTACAGAGTGAACTGACACACAGCTGTCAGGGTTAGACAGATCTCACGTGGTCAGTCCTGACCGTCGCTCTAGTCTGGTAAAGGAGAGAGGAGCAAGTCCTCATTAGCTCCCGTGCTTCTAAGTAAAACAAGTCTCATAGACTTTGCTGTGGTCCTCCTAAGTTTTATATATTTTATATTTT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GACTTTGCTGTGGTCCTCCT

59.6

TGGAAGTAAAAATGGCCAAATCA

57.18

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AGACTTTGCTGTGGTCCTCC

59.6

TGGAAGTAAAAATGGCCAAATCA

57.18

141

PCR template sequence:

GGAGAGAGGAGCAAGTCCTCATTAGCTCCCGTGCTTCTAAGTAAAACAAGTCTCATAGACTTTGCTGTGGTCCTCCTAAGTTTTATATATTTTATATTTTGTATTGAAATCTTGTTTTTGTTCATTACTTTATCCTTGATCCATGTCTAATAATTCAAATTATGATTAGTACTATGATTTGGCCATTTTTACTTCCATTC

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

6

Interacting miRNAs (#binding sites)

mmu-miR-223-3p(1), mmu-miR-340-5p(1), mmu-miR-297a-5p(1), mmu-miR-690(1), mmu-miR-539-5p(1), mmu-miR-3470b(1)

siRNAs for circular RNA silencing
Junction sequence

TATTTTATATTTTGTATTGAAATCTT

siRNA sets

ATTTCAATACAAAATATAA, TTTCAATACAAAATATAAA

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

0.836330176

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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