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mmu_circWdr59_337
Basic information of circular RNA
PanCircBase ID:
mmu_circWdr59_337
mm39_Chr. Position ID:
chr8|112187214|112188900|-
Gene name:
Wdr59
Transcript:
ENSMUST00000038193.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
23,22,21
Exon/intron offsets:
0,179,1573
Genomic length:
1686
Exon/intron sizes in nt:
73,151,113
Flanking exon/introns:
chr8:112185681-112187214|chr8:112188900-112192420
Splice length:
337
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3171
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGGTCGCTGGCTACGGTAGCTACAGATCTTTGCCTTGGGCCGAAGTCTGACCCAGATTTGGAAACACCTTGGGCTCGACATCCATTTGGGCGACAACTGCTGGAGTCCCTACTGGCTCACTATTGCCAACTCCGAGATGTTCAGACCTTGGCTATGCTCTGTAGCGTGTTTGAAGCCCAGTCCCGGCCTCAGGGCTTACCAAACCCTTTTGGGCCTTTCCCTAATCGTTCTTCTAATCTTGTGGTGTCCCACAGCCGCTATCCCAGCTTCACCTCCTCGGGGTCCTGCTCCAGCATGTCAGATCCAGGGTTCAACACCGGTGGCTGGAACATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCAGCATGTCAGATCCA
59.82
CCAAATGGATGTCGAGCCCA
60.39
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCATGTCAGATCCAGGG
60.18
TCGCCCAAATGGATGTCGAG
60.46
141
PCR template sequence:
AATCTTGTGGTGTCCCACAGCCGCTATCCCAGCTTCACCTCCTCGGGGTCCTGCTCCAGCATGTCAGATCCAGGGTTCAACACCGGTGGCTGGAACATAGGTTTGGTCGCTGGCTACGGTAGCTACAGATCTTTGCCTTGGGCCGAAGTCTGACCCAGATTTGGAAACACCTTGGGCTCGACATCCATTTGGGCGACAAC
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-125b-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTGGAACATAGGTTTGGTCGCTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWDR59_337_ORF_1
0.932
0.109205286
0.199316011
234
ORF sequence:
ATGCTCTGTAGCGTGTTTGAAGCCCAGTCCCGGCCTCAGGGCTTACCAAACCCTTTTGGGCCTTTCCCTAATCGTTCTTCTAATCTTGTGGTGTCCCACAGCCGCTATCCCAGCTTCACCTCCTCGGGGTCCTGCTCCAGCATGTCAGATCCAGGGTTCAACACCGGTGGCTGGAACATAGGTTTGGTCGCTGGCTACGGTAGCTACAGATCTTTGCCTTGGGCCGAAGTCTGA
Peptide sequence:
MLCSVFEAQSRPQGLPNPFGPFPNRSSNLVVSHSRYPSFTSSGSCSSMSDPGFNTGGWNIGLVAGYGSYRSLPWAEV
IRESfinder result
IRESfinder score
0.663984178
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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