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mmu_circRgs3_284
Basic information of circular RNA
PanCircBase ID:
mmu_circRgs3_284
mm39_Chr. Position ID:
chr4|62523724|62533598|+
Gene name:
Rgs3
Transcript:
ENSMUST00000065870.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,1019,2121,9813
Genomic length:
9874
Exon/intron sizes in nt:
59,95,69,61
Flanking exon/introns:
chr4:62521208-62523724|chr4:62533598-62534710
Splice length:
284
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TCATAGAAGGCAAAGGCCTGATGAGCAGGGAGCCTGGCATCTGCGATCCCTATGTGAAGGTTTCTTTGATCCCAGAAGACAGCCAGCTCCCCTGCCAGACCACACAGATCATTCCAGACTGCCGAGACCCAGCTTTCCACGAGCACTTCTTCTTTCCTGTCCCAGAGGAGGGTGATCAGAAGCGTCTTCTGGTGACAGTGTGGAACCGGGCCAGTGAGACCAGGCAGCATACGCTTATTGGCTGCATGAGCTTTGGGGTGAGGTCTCTCTTGACTCCGGACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTGAGACCAGGCAGCATA
59.46
GCTGGCTGTCTTCTGGGATC
60.46
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGAGACCAGGCAGCATAC
59.46
GCTGGCTGTCTTCTGGGATC
60.46
159
PCR template sequence:
TCTTCTGGTGACAGTGTGGAACCGGGCCAGTGAGACCAGGCAGCATACGCTTATTGGCTGCATGAGCTTTGGGGTGAGGTCTCTCTTGACTCCGGACAAGTCATAGAAGGCAAAGGCCTGATGAGCAGGGAGCCTGGCATCTGCGATCCCTATGTGAAGGTTTCTTTGATCCCAGAAGACAGCCAGCTCCCCTGCCAGAC
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-320-3p(1), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACTCCGGACAAGTCATAGAAGGCAA
siRNA sets
TTGCCTTCTATGACTTGTC, CCTTCTATGACTTGTCCGG, TGCCTTCTATGACTTGTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRGS3_284_ORF_1
0.9982
0.260848498
0.404873062
270
ORF sequence:
ATGAGCAGGGAGCCTGGCATCTGCGATCCCTATGTGAAGGTTTCTTTGATCCCAGAAGACAGCCAGCTCCCCTGCCAGACCACACAGATCATTCCAGACTGCCGAGACCCAGCTTTCCACGAGCACTTCTTCTTTCCTGTCCCAGAGGAGGGTGATCAGAAGCGTCTTCTGGTGACAGTGTGGAACCGGGCCAGTGAGACCAGGCAGCATACGCTTATTGGCTGCATGAGCTTTGGGGTGAGGTCTCTCTTGACTCCGGACAAGTCATAG
Peptide sequence:
MSREPGICDPYVKVSLIPEDSQLPCQTTQIIPDCRDPAFHEHFFFPVPEEGDQKRLLVTVWNRASETRQHTLIGCMSFGVRSLLTPDKS
IRESfinder result
IRESfinder score
0.67912925
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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