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mmu_circLrrfip1_303
Basic information of circular RNA
PanCircBase ID:
mmu_circLrrfip1_303
mm39_Chr. Position ID:
chr1|91050143|91053467|+
Gene name:
Lrrfip1
Transcript:
ENSMUST00000068116.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,11,12
Exon/intron offsets:
0,656,3219
Genomic length:
3324
Exon/intron sizes in nt:
1,18,80,105
Flanking exon/introns:
chr1:91047912-91050143|chr1:91053467-91055807
Splice length:
303
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_117124
Human Ortholog IDs:
Mature spliced Sequence:
ATTAAGAAGCTCAAAGGGCAGCTGGAGGGAAGACAGAAGAACAACAAGCTGGACCTTCTTCGAGCCGAGGACGGTATCTTGGAGAATGGGACAGACGCGCATGTCATGGATCTGCAAAGAGATGCCAACAGACAGATCAGCGACCTCAAATTTAAACTTGCAAAATCTGAGCAAGAGATAACTGCCTTAGAACAAAATGTAATAAGGTTAGAGAGCCAAGTAACGCGCTATCGATCAGCCGCCGAAAATGCAGAAAAAATAGAAGATGAACTAAAGGCAGAAAAACGGAAGCTCCAGAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TATCGATCAGCCGCCGAAAA
59.9
GCGTCTGTCCCATTCTCCAA
60.04
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATCGATCAGCCGCCGAAAA
59.9
GCTCGAAGAAGGTCCAGCTT
60.04
140
PCR template sequence:
AAGGTTAGAGAGCCAAGTAACGCGCTATCGATCAGCCGCCGAAAATGCAGAAAAAATAGAAGATGAACTAAAGGCAGAAAAACGGAAGCTCCAGAGAGAGATTAAGAAGCTCAAAGGGCAGCTGGAGGGAAGACAGAAGAACAACAAGCTGGACCTTCTTCGAGCCGAGGACGGTATCTTGGAGAATGGGACAGACGCGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-22-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCCAGAGAGAGATTAAGAAGCTCA
siRNA sets
TTCTTAATCTCTCTCTGGA, TGAGCTTCTTAATCTCTCT, GAGCTTCTTAATCTCTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRRFIP1_303_ORF_1
1.067
0.308222121
0.832370376
501
ORF sequence:
ATGGATCTGCAAAGAGATGCCAACAGACAGATCAGCGACCTCAAATTTAAACTTGCAAAATCTGAGCAAGAGATAACTGCCTTAGAACAAAATGTAATAAGGTTAGAGAGCCAAGTAACGCGCTATCGATCAGCCGCCGAAAATGCAGAAAAAATAGAAGATGAACTAAAGGCAGAAAAACGGAAGCTCCAGAGAGAGATTAAGAAGCTCAAAGGGCAGCTGGAGGGAAGACAGAAGAACAACAAGCTGGACCTTCTTCGAGCCGAGGACGGTATCTTGGAGAATGGGACAGACGCGCATGTCATGGATCTGCAAAGAGATGCCAACAGACAGATCAGCGACCTCAAATTTAAACTTGCAAAATCTGAGCAAGAGATAACTGCCTTAGAACAAAATGTAATAAGGTTAGAGAGCCAAGTAACGCGCTATCGATCAGCCGCCGAAAATGCAGAAAAAATAGAAGATGAACTAAAGGCAGAAAAACGGAAGCTCCAGAGAGAG
Peptide sequence:
MDLQRDANRQISDLKFKLAKSEQEITALEQNVIRLESQVTRYRSAAENAEKIEDELKAEKRKLQREIKKLKGQLEGRQKNNKLDLLRAEDGILENGTDAHVMDLQRDANRQISDLKFKLAKSEQEITALEQNVIRLESQVTRYRSAAENAEKIEDELKAEKRKLQRE
IRESfinder result
IRESfinder score
0.216192077
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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