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mmu_circCwc27_464
Basic information of circular RNA
PanCircBase ID:
mmu_circCwc27_464
mm39_Chr. Position ID:
chr13|104794536|104929158|-
Gene name:
Cwc27
Transcript:
ENSMUST00000022228.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,12,11,10
Exon/intron offsets:
0,3278,62393,134470
Genomic length:
134622
Exon/intron sizes in nt:
10,41,10,98,152
Flanking exon/introns:
chr13:104768246-104794536|chr13:104929158-104932917
Splice length:
464
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATGGTGAGGATGACAGTGCAGAGCGTGACGAATACATGGAAGATGATGAGAAGAACTTGATGAGAGAAAGAATTGCAAAACGGTTAAAGAAAGATGCAAGTGCCAGTGTGAAGTCAGCCGGAGACGGGGAGAAGAAGCCGGCAAGCCGAAGTGAAGAGCTCAGGAAAGAAGCAAGGCAGTTAAAACGAGAACTCTTAGCAGCGAAACAGAAGAAAGAAACTGCCATAAAAGTGGAGGAAGGAAGGGAAGAGGAAGAAGCTGCCCCAGATGGCGCTGTTGCAGAGTACAGGCGAGAAAAGCAGAAGTATGAAGCTTTGCGGAAGCAACAGCCAAAGAAGGGAACTTCCCGCGAGGACCAGACCCTGGCACTACTGAGCCAGTTTAAATCTAAGCTCACTCAAGCAATTACTGAAACACCTGAAAACAGTGTTCCTGAAGCAGAAGTGGAGGACGATGAAGGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCACTACTGAGCCAGTTTA
57.24
TCCATGTATTCGTCACGCTCT
59.25
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCACTACTGAGCCAGTTTAA
57.95
TCCATGTATTCGTCACGCTCT
59.25
140
PCR template sequence:
TGGCACTACTGAGCCAGTTTAAATCTAAGCTCACTCAAGCAATTACTGAAACACCTGAAAACAGTGTTCCTGAAGCAGAAGTGGAGGACGATGAAGGCTGGATGGTGAGGATGACAGTGCAGAGCGTGACGAATACATGGAAGATGATGAGAAGAACTTGATGAGAGAAAGAATTGCAAAACGGTTAAAGAAAGATGCAA
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-1904(2), mmu-miR-205-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-96-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
ACGATGAAGGCTGGATGGTGAGGATG
siRNA sets
CATCCTCACCATCCAGCCT, CACCATCCAGCCTTCATCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCWC27_464_ORF_1
0.9999
0.319418301
0.806806059
489
ORF sequence:
ATGGAAGATGATGAGAAGAACTTGATGAGAGAAAGAATTGCAAAACGGTTAAAGAAAGATGCAAGTGCCAGTGTGAAGTCAGCCGGAGACGGGGAGAAGAAGCCGGCAAGCCGAAGTGAAGAGCTCAGGAAAGAAGCAAGGCAGTTAAAACGAGAACTCTTAGCAGCGAAACAGAAGAAAGAAACTGCCATAAAAGTGGAGGAAGGAAGGGAAGAGGAAGAAGCTGCCCCAGATGGCGCTGTTGCAGAGTACAGGCGAGAAAAGCAGAAGTATGAAGCTTTGCGGAAGCAACAGCCAAAGAAGGGAACTTCCCGCGAGGACCAGACCCTGGCACTACTGAGCCAGTTTAAATCTAAGCTCACTCAAGCAATTACTGAAACACCTGAAAACAGTGTTCCTGAAGCAGAAGTGGAGGACGATGAAGGCTGGATGGTGAGGATGACAGTGCAGAGCGTGACGAATACATGGAAGATGATGAGAAGAACTTGA
Peptide sequence:
MEDDEKNLMRERIAKRLKKDASASVKSAGDGEKKPASRSEELRKEARQLKRELLAAKQKKETAIKVEEGREEEEAAPDGAVAEYRREKQKYEALRKQQPKKGTSREDQTLALLSQFKSKLTQAITETPENSVPEAEVEDDEGWMVRMTVQSVTNTWKMMRRT
IRESfinder result
IRESfinder score
0.166414085
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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