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mmu_circDdx25_625

Basic information of circular RNA
PanCircBase ID:

mmu_circDdx25_625

mm39_Chr. Position ID:

chr9|35462580|35468197|-

Gene name:

Ddx25

Transcript:

ENSMUST00000034612.7

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

5

Exon/intron indexes:

8,7,6,5,4

Exon/intron offsets:

0,1552,3022,3232,5481

Genomic length:

5617

Exon/intron sizes in nt:

1,78,11,51,03,93,136

Flanking exon/introns:

chr9:35458314-35462580|chr9:35468197-35468677

Splice length:

625

Other database IDs:

circAtlas: mmu-Ddx25_0001

circAtlas: hsa-DDX25_0001

Human Ortholog IDs:
Mature spliced Sequence:

TGGATTTGGCAGCCAATTCACTCTTAAACAAGCTAATCCGTCAGTCCTTAATAGAATCCAGCCACCGAGTGGAAGTCTTACAGAAGGATCCCAGCTCTCCACTCTACTCGGTGAAAACCTTTGAAGAGCTACGGCTAAAAGAAGAATTACTAAAAGGGATTTATGCAATGGGATTTAACCGACCATCCAAAATCCAAGAGATGGCCCTCCCCATGATGCTAGCACACCCTCCCCAGAACCTCATAGCACAGAGCCAGTCCGGCACAGGAAAAACTGCTGCCTTTGTCTTAGCAATGCTAAGCCGAGTGAATGCCTTGGAACTGTTTCCACAGTGCCTCTGCCTGGCTCCTACCTATGAACTGGCTCTGCAGACCGGTCGTGTGGTTGAAAGGATGGGCAAGTTCTGCGTGGATGTTGAAGTGATGTATGCCATTCGAGGAAACCGAATTCCAAGGGGCACCGAAGTCACCAAACAGATTATTATTGGTACTCCTGGGACTGTCCTAGATTGGTGTTTCAAGCGAAAACTGATTGATTTGACAAAGATCCGTGTGTTTGTCCTGGATGAAGCAGATGTGATGATTGACACCCAAGGATTCTCCGATCAGAGCATCCGTATCCAAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGACACCCAAGGATTCTCCG

59.39

GGAGAGCTGGGATCCTTCTG

59.24

142

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TCCGTGTGTTTGTCCTGGAT

59.24

GGAGAGCTGGGATCCTTCTG

59.24

179

PCR template sequence:

AACTGATTGATTTGACAAAGATCCGTGTGTTTGTCCTGGATGAAGCAGATGTGATGATTGACACCCAAGGATTCTCCGATCAGAGCATCCGTATCCAAAGTGGATTTGGCAGCCAATTCACTCTTAAACAAGCTAATCCGTCAGTCCTTAATAGAATCCAGCCACCGAGTGGAAGTCTTACAGAAGGATCCCAGCTCTCC

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

4

Interacting miRNAs (#binding sites)

mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-149-5p(1), mmu-miR-499-5p(1)

siRNAs for circular RNA silencing
Junction sequence

TCCGTATCCAAAGTGGATTTGGCAGC

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCDDX25_625_ORF_1

0.9702

0.208297476

0.829689944

582

ORF sequence:

ATGGGATTTAACCGACCATCCAAAATCCAAGAGATGGCCCTCCCCATGATGCTAGCACACCCTCCCCAGAACCTCATAGCACAGAGCCAGTCCGGCACAGGAAAAACTGCTGCCTTTGTCTTAGCAATGCTAAGCCGAGTGAATGCCTTGGAACTGTTTCCACAGTGCCTCTGCCTGGCTCCTACCTATGAACTGGCTCTGCAGACCGGTCGTGTGGTTGAAAGGATGGGCAAGTTCTGCGTGGATGTTGAAGTGATGTATGCCATTCGAGGAAACCGAATTCCAAGGGGCACCGAAGTCACCAAACAGATTATTATTGGTACTCCTGGGACTGTCCTAGATTGGTGTTTCAAGCGAAAACTGATTGATTTGACAAAGATCCGTGTGTTTGTCCTGGATGAAGCAGATGTGATGATTGACACCCAAGGATTCTCCGATCAGAGCATCCGTATCCAAAGTGGATTTGGCAGCCAATTCACTCTTAAACAAGCTAATCCGTCAGTCCTTAATAGAATCCAGCCACCGAGTGGAAGTCTTACAGAAGGATCCCAGCTCTCCACTCTACTCGGTGAAAACCTTTGA

Peptide sequence:

MGFNRPSKIQEMALPMMLAHPPQNLIAQSQSGTGKTAAFVLAMLSRVNALELFPQCLCLAPTYELALQTGRVVERMGKFCVDVEVMYAIRGNRIPRGTEVTKQIIIGTPGTVLDWCFKRKLIDLTKIRVFVLDEADVMIDTQGFSDQSIRIQSGFGSQFTLKQANPSVLNRIQPPSGSLTEGSQLSTLLGENL

IRESfinder result

IRESfinder score

0.506943754

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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