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mmu_ciDdx5_364

Basic information of circular RNA
PanCircBase ID:

mmu_ciDdx5_364

mm39_Chr. Position ID:

chr11|106677370|106677734|-

Gene name:

Ddx5

Transcript:

ENSMUST00000127481.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

2

Exon/intron offsets:

0

Genomic length:

364

Exon/intron sizes in nt:

364

Flanking exon/introns:

chr11:106673510-106677734

Splice length:

364

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTGAGTTTATAAATGTGGCTTCTTCATGCTGTAACTCAGTAACTGCTTCTAGTCAATTAGATGGAAATGTAATAGGTGCCTTGCAAATGGAGAGTTGCTTGTGGTGCACTTCCATTGAATTTTTCTTGTGATATATGGTGCCCTATTTTAATCCTGTCACTGGGGAAACAGGTTTAGCAGTCTATTGGGCTTCATAGAGACTCAATTTTCATTTAAATAAGTATTATAAATTAATTATTAATTTTTGTTGCCAAGTAGAGTTCTTATTTATGGGTCCAGATTTTTAGAAATAAGTATGTTTAAAAGTTTATTGAGCTATAGGGAGCATGGCAGAAGTCTGAGGCTGAGATAATTTGTTTTTCAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GCTATAGGGAGCATGGCAGA

59.02

TCTCCATTTGCAAGGCACCT

59.89

143

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GAGCTATAGGGAGCATGGCA

59.02

TCTCCATTTGCAAGGCACCT

59.89

145

PCR template sequence:

TATTTATGGGTCCAGATTTTTAGAAATAAGTATGTTTAAAAGTTTATTGAGCTATAGGGAGCATGGCAGAAGTCTGAGGCTGAGATAATTTGTTTTTCAGGTGAGTTTATAAATGTGGCTTCTTCATGCTGTAACTCAGTAACTGCTTCTAGTCAATTAGATGGAAATGTAATAGGTGCCTTGCAAATGGAGAGTTGCTT

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

8

Interacting miRNAs (#binding sites)

mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-369-3p(1), mmu-miR-3065-5p(1), mmu-miR-7a-1-3p(1)

siRNAs for circular RNA silencing
Junction sequence

ATTTGTTTTTCAGGTGAGTTTATAAA

siRNA sets

ATAAACTCACCTGAAAAAC,TAAACTCACCTGAAAAACA,TTTATAAACTCACCTGAAA

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

0.924225443

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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Institute of Life sciences, Bhubaneswar, India

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