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mmu_circWashc3_449
Basic information of circular RNA
PanCircBase ID:
mmu_circWashc3_449
mm39_Chr. Position ID:
chr10|88037673|88070320|+
Gene name:
Washc3
Transcript:
ENSMUST00000020248.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,11835,14155,17438,32582
Genomic length:
32647
Exon/intron sizes in nt:
99,66,108,111,65
Flanking exon/introns:
chr10:88037154-88037673|chr10:88070320-88081617
Splice length:
449
Other database IDs:
circBase: hsa_circ_0008428, circAtlas: hsa-CCDC53_0009, CIRCpedia: HSA_CIRCpedia_6308
Human Ortholog IDs:
Mature spliced Sequence:
GTGCCAGCTATTCAACAGAAAAGAACCGTGGCCTTTCTAAACCAGTTTGTGGTGCACACTGTGCAGTTTCTCAACCGGTTTTCCGCAGTTTGTGAGGAGAAACTGGCAGACCTTTCTCTCCGGATTCAGCAAATTGAAACAACTCTCAATATTTTAGATGCAAAGCTGTCATCTATCCCAGGCCTAGAGGACGTCACAGTTGAAGTGTCTCCTTTAAATGTCACTGCTGTCACAAACGGATCACATTCTGAAACCACTTCGGAGCAAACGCAGCAGAATAGCACGCAAGACTCTGGAGCACAGGAGAGTGAAGCGCCATCAGAAAATGTCCTGACCGTAGCCAAGGATCCACGGTATGCCAGATACCTCAAGATGGTTCAAGTGGGTGTTCCAGTGATGGCAATCAGAGACAAGATGATCTCAGAAGGACTGGACCCGGAGCTACTGGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTGTTCCAGTGATGGCAA
60.54
AAACTGCGGAAAACCGGTTG
59.9
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTGTTCCAGTGATGGCAA
60.54
CAAACTGCGGAAAACCGGTT
59.9
158
PCR template sequence:
CACGGTATGCCAGATACCTCAAGATGGTTCAAGTGGGTGTTCCAGTGATGGCAATCAGAGACAAGATGATCTCAGAAGGACTGGACCCGGAGCTACTGGAGTGCCAGCTATTCAACAGAAAAGAACCGTGGCCTTTCTAAACCAGTTTGTGGTGCACACTGTGCAGTTTCTCAACCGGTTTTCCGCAGTTTGTGAGGAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-185-5p(1), mmu-miR-434-3p(1), mmu-miR-431-5p(1), mmu-miR-363-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGGAGCTACTGGAGTGCCAGCTATTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWASHC3_449_ORF_1
1.0131
0.106246743
0.108961713
117
ORF sequence:
ATGGTTCAAGTGGGTGTTCCAGTGATGGCAATCAGAGACAAGATGATCTCAGAAGGACTGGACCCGGAGCTACTGGAGTGCCAGCTATTCAACAGAAAAGAACCGTGGCCTTTCTAA
Peptide sequence:
MVQVGVPVMAIRDKMISEGLDPELLECQLFNRKEPWPF
IRESfinder result
IRESfinder score
0.346469192
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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