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mmu_circCwc25_262
Basic information of circular RNA
PanCircBase ID:
mmu_circCwc25_262
mm39_Chr. Position ID:
chr11|97644041|97647046|-
Gene name:
Cwc25
Transcript:
ENSMUST00000018685.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,689,2935
Genomic length:
3005
Exon/intron sizes in nt:
64,128,70
Flanking exon/introns:
chr11:97643589-97644041|chr11:97647046-97648398
Splice length:
262
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAAGAGGAGGAGAAAAAAAGAGAAGTGCTGAACAATCCTGTGAAAATGAAGAAAATCAAAGAGCTGTTGCAAATGAGCCTTGAGAAAAAGGAGAAGAAGAAGAAGAAGGAGAAGAAGAAGAAGCACAGGAAGCACAAACACAGAAGCTCCAGCAGCGGTGGCTCCAGCAGCGAGGATGAGCAGAGCCAGGCCCGGTCTCAAAAGAAGATGGCAAATTCCTTTCCTGTTTTGTCCAAAGTCCCTGGATATGGCTTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCCGGTCTCAAAAGAAGA
59.96
GGCTCATTTGCAACAGCTCT
59.11
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCCGGTCTCAAAAGAAGA
59.96
AGGCTCATTTGCAACAGCTC
59.11
154
PCR template sequence:
TGGCTCCAGCAGCGAGGATGAGCAGAGCCAGGCCCGGTCTCAAAAGAAGATGGCAAATTCCTTTCCTGTTTTGTCCAAAGTCCCTGGATATGGCTTACAGGAAGAAAGAGGAGGAGAAAAAAAGAGAAGTGCTGAACAATCCTGTGAAAATGAAGAAAATCAAAGAGCTGTTGCAAATGAGCCTTGAGAAAAAGGAGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATATGGCTTACAGGAAGAAAGAGGAG
siRNA sets
CTCTTTCTTCCTGTAAGCC, TTTCTTCCTGTAAGCCATA, TCTTTCTTCCTGTAAGCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCWC25_262_ORF_1
1.0652
0.28375649
0.592742257
345
ORF sequence:
ATGAGCAGAGCCAGGCCCGGTCTCAAAAGAAGATGGCAAATTCCTTTCCTGTTTTGTCCAAAGTCCCTGGATATGGCTTACAGGAAGAAAGAGGAGGAGAAAAAAAGAGAAGTGCTGAACAATCCTGTGAAAATGAAGAAAATCAAAGAGCTGTTGCAAATGAGCCTTGAGAAAAAGGAGAAGAAGAAGAAGAAGGAGAAGAAGAAGAAGCACAGGAAGCACAAACACAGAAGCTCCAGCAGCGGTGGCTCCAGCAGCGAGGATGAGCAGAGCCAGGCCCGGTCTCAAAAGAAGATGGCAAATTCCTTTCCTGTTTTGTCCAAAGTCCCTGGATATGGCTTACAG
Peptide sequence:
MSRARPGLKRRWQIPFLFCPKSLDMAYRKKEEEKKREVLNNPVKMKKIKELLQMSLEKKEKKKKKEKKKKHRKHKHRSSSSGGSSSEDEQSQARSQKKMANSFPVLSKVPGYGLQ
IRESfinder result
IRESfinder score
0.225963586
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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