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mmu_circRheb_338
Basic information of circular RNA
PanCircBase ID:
mmu_circRheb_338
mm39_Chr. Position ID:
chr5|25011996|25018863|-
Gene name:
Rheb
Transcript:
ENSMUST00000030787.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,606,749,1354,6799
Genomic length:
6867
Exon/intron sizes in nt:
82,48,57,83,68
Flanking exon/introns:
chr5:25008754-25011996|chr5:25018863-25022757
Splice length:
338
Other database IDs:
circAtlas: mmu-Rheb_0002
Human Ortholog IDs:
Mature spliced Sequence:
CGTTCACCAAGTTGATCACGGTAAATGGTCAAGAGTATCATCTTCAGCTTGTAGACACAGCGGGGCAGGATGAATATTCCATTTTTCCTCAGACATACTCCATAGATATTAATGGTTATATTCTTGTGTATTCTGTTACATCAATCAAAAGTTTTGAAGTAATTAAAGTTATCCATGGCAAGTTGTTGGATATGGTGGGGAAAGTGCAGATACCTATTATGTTGGTTGGAAATAAGAAGGACCTGCATATGGAAAGGGTGATCAGCTATGAAGAAGGAAAGGCTTTGGCAGAATCTTGGAATGCAGCTTTTTTGGAATCTTCTGCTAAAGAAAATCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGGAAAGGCTTTGGCAGA
59.85
ATATTCATCCTGCCCCGCTG
59.96
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACCTGCATATGGAAAGGGT
59.78
ATATTCATCCTGCCCCGCTG
59.96
177
PCR template sequence:
GGACCTGCATATGGAAAGGGTGATCAGCTATGAAGAAGGAAAGGCTTTGGCAGAATCTTGGAATGCAGCTTTTTTGGAATCTTCTGCTAAAGAAAATCAACGTTCACCAAGTTGATCACGGTAAATGGTCAAGAGTATCATCTTCAGCTTGTAGACACAGCGGGGCAGGATGAATATTCCATTTTTCCTCAGACATACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(1), mmu-miR-411-3p(1), mmu-miR-344d-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAAAGAAAATCAACGTTCACCAAGTT
siRNA sets
TTGGTGAACGTTGATTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRHEB_338_ORF_1
0.8991
0.05744146
0.101285744
162
ORF sequence:
ATGGTGGGGAAAGTGCAGATACCTATTATGTTGGTTGGAAATAAGAAGGACCTGCATATGGAAAGGGTGATCAGCTATGAAGAAGGAAAGGCTTTGGCAGAATCTTGGAATGCAGCTTTTTTGGAATCTTCTGCTAAAGAAAATCAACGTTCACCAAGTTGA
Peptide sequence:
MVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQRSPS
IRESfinder result
IRESfinder score
0.61208899
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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