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mmu_ciDek_268

Basic information of circular RNA
PanCircBase ID:

mmu_ciDek_268

mm39_Chr. Position ID:

chr13|47241684|47241952|-

Gene name:

Dek

Transcript:

ENSMUST00000138401.2

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

2

Exon/intron offsets:

0

Genomic length:

268

Exon/intron sizes in nt:

268

Flanking exon/introns:

chr13:47241649-47241952

Splice length:

268

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTACATTAGAAATGATGACAGCAACTGTCAGCGTGCAGCATATGCATGCATGTGCATGCTTCAAGTGGATGTATGAGATAATAAACTTCAGAGAACATTGGGGGATAGTAGCATGCTGGTTTTCAAAGCTAAAAAAAATTTCAGTGCATGCTTTCTTTGCAATCTTAAGGTCAAAAAATTTTAAAACTAAACATGATTTATAGTTGGCCTTATGCTCTTTTGAAAACTTAAAAACTCTTCCATCTTACACCTTGTTATTCATAAAAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TAGTTGGCCTTATGCTCTTTTGA

58.08

ACATCCACTTGAAGCATGCAC

59.46

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AGTTGGCCTTATGCTCTTTTGA

58.23

TACATCCACTTGAAGCATGCAC

59.25

140

PCR template sequence:

GGTCAAAAAATTTTAAAACTAAACATGATTTATAGTTGGCCTTATGCTCTTTTGAAAACTTAAAAACTCTTCCATCTTACACCTTGTTATTCATAAAAAGGTACATTAGAAATGATGACAGCAACTGTCAGCGTGCAGCATATGCATGCATGTGCATGCTTCAAGTGGATGTATGAGATAATAAACTTCAGAGAACATTG

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

NA

Interacting miRNAs (#binding sites)

NA

siRNAs for circular RNA silencing
Junction sequence

TATTCATAAAAAGGTACATTAGAAAT

siRNA sets

TAATGTACCTTTTTATGAA, AATGTACCTTTTTATGAAT, TTTCTAATGTACCTTTTTA

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

0.850547836

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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