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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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