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mmu_circLars_300
Basic information of circular RNA
PanCircBase ID:
mmu_circLars_300
mm39_Chr. Position ID:
chr18|42377813|42379142|-
Gene name:
Lars
Transcript:
ENSMUST00000097590.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,1191
Genomic length:
1329
Exon/intron sizes in nt:
1,62,138
Flanking exon/introns:
chr18:42376954-42377813|chr18:42379142-42383893
Splice length:
300
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_101942
Human Ortholog IDs:
Mature spliced Sequence:
GCATGCGCTGACAAGCTGAAAAGAGAAATAGAGCTGTATGGCTGCCCTCCTGATTTTCCCGAGGAAGAAGAGGAAGAGGAAGAAAGCAGTGCTAAACCTGGAGATATAGTAGTGAGGGATAAAGCCAAAGGGAAAAAGAGCAAAGCTGCCGCCAAAGCAGGATCTTCTAAGTACCAGTGGGACATTATGAAATCCCTTGGGCTCTCTGATGACGACATAGTGAAGTTTTCTGAAGCAGAGCACTGGCTTGATTATTTCCCACCACTGGCCGTTCAGGATCTGAAGACTATAGGTTTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCTGAAGCAGAGCACTGGC
60.6
TCTTCCTCTTCTTCCTCGGGA
59.64
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTATTTCCCACCACTGGCCG
60.32
GCACTGCTTTCTTCCTCTTCC
59.19
141
PCR template sequence:
GCTCTCTGATGACGACATAGTGAAGTTTTCTGAAGCAGAGCACTGGCTTGATTATTTCCCACCACTGGCCGTTCAGGATCTGAAGACTATAGGTTTGAAGGCATGCGCTGACAAGCTGAAAAGAGAAATAGAGCTGTATGGCTGCCCTCCTGATTTTCCCGAGGAAGAAGAGGAAGAGGAAGAAAGCAGTGCTAAACCTG
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TATAGGTTTGAAGGCATGCGCTGACA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLARS_300_ORF_1
1.1047
0.241994274
0.684424146
414
ORF sequence:
ATGAAATCCCTTGGGCTCTCTGATGACGACATAGTGAAGTTTTCTGAAGCAGAGCACTGGCTTGATTATTTCCCACCACTGGCCGTTCAGGATCTGAAGACTATAGGTTTGAAGGCATGCGCTGACAAGCTGAAAAGAGAAATAGAGCTGTATGGCTGCCCTCCTGATTTTCCCGAGGAAGAAGAGGAAGAGGAAGAAAGCAGTGCTAAACCTGGAGATATAGTAGTGAGGGATAAAGCCAAAGGGAAAAAGAGCAAAGCTGCCGCCAAAGCAGGATCTTCTAAGTACCAGTGGGACATTATGAAATCCCTTGGGCTCTCTGATGACGACATAGTGAAGTTTTCTGAAGCAGAGCACTGGCTTGATTATTTCCCACCACTGGCCGTTCAGGATCTGAAGACTATAGGTTTGAAG
Peptide sequence:
MKSLGLSDDDIVKFSEAEHWLDYFPPLAVQDLKTIGLKACADKLKREIELYGCPPDFPEEEEEEEESSAKPGDIVVRDKAKGKKSKAAAKAGSSKYQWDIMKSLGLSDDDIVKFSEAEHWLDYFPPLAVQDLKTIGLK
IRESfinder result
IRESfinder score
0.439813615
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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