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mmu_circLmln_321
Basic information of circular RNA
PanCircBase ID:
mmu_circLmln_321
mm39_Chr. Position ID:
chr16|32903388|32909742|+
Gene name:
Lmln
Transcript:
ENSMUST00000023497.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,5083,6246
Genomic length:
6354
Exon/intron sizes in nt:
9,51,18,108
Flanking exon/introns:
chr16:32901406-32903388|chr16:32909742-32911655
Splice length:
321
Other database IDs:
circBase: hsa_circ_0068774, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_45163
Human Ortholog IDs:
Mature spliced Sequence:
GGCTTCTCTGCTGGTCTTTTTGCATTCTACCATGATCAAGATGGAAACCCCCTGACTTCAAGGTCTGCAGATGGCCTCCCGCCCTTCAACTATAGTCTTGGCTTGTATCAGTGGAGTGATAAAGTGGTTCGGAAAGTGGAGAGATTGTGGAATGTTCGAGATAACAAGATAGTTCGCCACACTGTGTATCTCCTAGTAACACCGCGTGTTGTTGAAGAAGCTCGGAAGCATTTTAACTGTCCGGTCCTCGAGGGCATGGAGCTTGAAAACCAAGGCGGGATGGGCACGGAGCTGAACCACTGGGAGAAGCGCTTGCTCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGCATGGAGCTTGAAAACC
59.75
GGCCATCTGCAGACCTTGAA
60.32
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAACTGTCCGGTCCTCGAGG
60.68
AGACCTTGAAGTCAGGGGGT
60.1
154
PCR template sequence:
TCGGAAGCATTTTAACTGTCCGGTCCTCGAGGGCATGGAGCTTGAAAACCAAGGCGGGATGGGCACGGAGCTGAACCACTGGGAGAAGCGCTTGCTCGAGGGCTTCTCTGCTGGTCTTTTTGCATTCTACCATGATCAAGATGGAAACCCCCTGACTTCAAGGTCTGCAGATGGCCTCCCGCCCTTCAACTATAGTCTTG
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-9-5p(1), mmu-miR-140-5p(1), mmu-miR-381-3p(1), mmu-miR-128-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCGCTTGCTCGAGGGCTTCTCTGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLMLN_321_ORF_1
1.0401
0.245225726
0.615722055
387
ORF sequence:
ATGGAGCTTGAAAACCAAGGCGGGATGGGCACGGAGCTGAACCACTGGGAGAAGCGCTTGCTCGAGGGCTTCTCTGCTGGTCTTTTTGCATTCTACCATGATCAAGATGGAAACCCCCTGACTTCAAGGTCTGCAGATGGCCTCCCGCCCTTCAACTATAGTCTTGGCTTGTATCAGTGGAGTGATAAAGTGGTTCGGAAAGTGGAGAGATTGTGGAATGTTCGAGATAACAAGATAGTTCGCCACACTGTGTATCTCCTAGTAACACCGCGTGTTGTTGAAGAAGCTCGGAAGCATTTTAACTGTCCGGTCCTCGAGGGCATGGAGCTTGAAAACCAAGGCGGGATGGGCACGGAGCTGAACCACTGGGAGAAGCGCTTGCTCGAG
Peptide sequence:
MELENQGGMGTELNHWEKRLLEGFSAGLFAFYHDQDGNPLTSRSADGLPPFNYSLGLYQWSDKVVRKVERLWNVRDNKIVRHTVYLLVTPRVVEEARKHFNCPVLEGMELENQGGMGTELNHWEKRLLE
IRESfinder result
IRESfinder score
0.499809313
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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