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mmu_circRpp30_441
Basic information of circular RNA
PanCircBase ID:
mmu_circRpp30_441
mm39_Chr. Position ID:
chr19|36064358|36078238|+
Gene name:
Rpp30
Transcript:
ENSMUST00000025714.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,365,2180,7417,13213,13850
Genomic length:
13880
Exon/intron sizes in nt:
57,75,72,90,117,30
Flanking exon/introns:
chr19:36062521-36064358|chr19:36078238-36078633
Splice length:
441
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAATTGAAAAGCCAATAGCAGTTTCTGAACTCTTCACAACTTTACCCATCGTACAGGGAAAATCAAGACCAATTAAAATTTTAACTAGATTGACAATTATAGTTACAGATCCAGCTCACTGTAATGTTTTGAGAGCAACTTCGTCAAGGGTCCGGCTGTATGATATTGTTGCAGTCTTTCCAAAGACAGAAAAGCTTTTCCATGTTGCTTGTACACATTTAGATGTGGATTTAGTCTGTATAACTGTAACAGAGAAATTACCATTTTACTTCAAAAGACCCCCTGTTAATGTGGCAATTGAGCGAGGCCTGGGCTTTGAACTTGTCTATGGTCCTGCTATCAGAGATGCAACGATGAGAAGGTACACAATCTCCAATGCCCTCAATTTGATGCAGATCTGCAAAGGAAAGAATGTAATTCTGTCCAGTGCTGCAGAAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACAATCTCCAATGCCCTCA
59.64
TGATTTTCCCTGTACGATGGGT
59.43
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACACAATCTCCAATGCCCTCA
59.64
TTGATTTTCCCTGTACGATGGGT
59.99
144
PCR template sequence:
CAGAGATGCAACGATGAGAAGGTACACAATCTCCAATGCCCTCAATTTGATGCAGATCTGCAAAGGAAAGAATGTAATTCTGTCCAGTGCTGCAGAAAGGGAAATTGAAAAGCCAATAGCAGTTTCTGAACTCTTCACAACTTTACCCATCGTACAGGGAAAATCAAGACCAATTAAAATTTTAACTAGATTGACAATTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-511-3p(1), mmu-miR-107-3p(1), mmu-miR-335-3p(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTGCAGAAAGGGAAATTGAAAAGC
siRNA sets
TTTCAATTTCCCTTTCTGC, TTCAATTTCCCTTTCTGCA, TTTTCAATTTCCCTTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRPP30_441_ORF_1
1.0765
-0.025647493
0.609104875
528
ORF sequence:
ATGAGAAGGTACACAATCTCCAATGCCCTCAATTTGATGCAGATCTGCAAAGGAAAGAATGTAATTCTGTCCAGTGCTGCAGAAAGGGAAATTGAAAAGCCAATAGCAGTTTCTGAACTCTTCACAACTTTACCCATCGTACAGGGAAAATCAAGACCAATTAAAATTTTAACTAGATTGACAATTATAGTTACAGATCCAGCTCACTGTAATGTTTTGAGAGCAACTTCGTCAAGGGTCCGGCTGTATGATATTGTTGCAGTCTTTCCAAAGACAGAAAAGCTTTTCCATGTTGCTTGTACACATTTAGATGTGGATTTAGTCTGTATAACTGTAACAGAGAAATTACCATTTTACTTCAAAAGACCCCCTGTTAATGTGGCAATTGAGCGAGGCCTGGGCTTTGAACTTGTCTATGGTCCTGCTATCAGAGATGCAACGATGAGAAGGTACACAATCTCCAATGCCCTCAATTTGATGCAGATCTGCAAAGGAAAGAATGTAATTCTGTCCAGTGCTGCAGAAAGG
Peptide sequence:
MRRYTISNALNLMQICKGKNVILSSAAEREIEKPIAVSELFTTLPIVQGKSRPIKILTRLTIIVTDPAHCNVLRATSSRVRLYDIVAVFPKTEKLFHVACTHLDVDLVCITVTEKLPFYFKRPPVNVAIERGLGFELVYGPAIRDATMRRYTISNALNLMQICKGKNVILSSAAER
IRESfinder result
IRESfinder score
0.782464452
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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