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mmu_circLmbr1_691
Basic information of circular RNA
PanCircBase ID:
mmu_circLmbr1_691
mm39_Chr. Position ID:
chr5|29492388|29568953|-
Gene name:
Lmbr1
Transcript:
ENSMUST00000055195.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,3882,4761,5432,36411,59376,73657,76492
Genomic length:
76565
Exon/intron sizes in nt:
73,65,69,127,104,140,40,73
Flanking exon/introns:
chr5:29468473-29492388|chr5:29568953-29583124
Splice length:
691
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15420
circBase: hsa_circ_0083121, CIRCpedia: HSA_CIRCpedia_57369
Human Ortholog IDs:
Mature spliced Sequence:
ATATGTTTTCTTCTCTTTGCCATTCTCTACATCGTTTCCTACTTCATCATTATAAGATACAAGAGAAAATCCGATGAACAAGAAGATGAGGATGCTGTAGTCAACAGGATATCGTTGTTTCTGAGCACCTTCACTCTAGCCGTGTCAGCTGGCGCGGTTTTGCTTTTACCCTTCTCAATCATCAGCAATGAGATCCTGCTTGCTTTTCCTCACAACTACTATATTCAGTGGCTGAATGGCTCCCTCATCCACGGTTTGTGGAATCTTGCTTCTTTATTTTCCAATCTTTGTTTATTTGTGTTGATGCCCTTTGCCTTTTTCTTTCTGGAATCAGAAGGTTTTGCAGGCCTGAAAAAGGGAATCCGAGCCCGCATTTTGGAAACTCTGGTTATGCTGCTGCTTCTTGCGTTGCTGATTCTTGGGATGGTGTGGGTGGCTTCCGCCCTGATTGACAGTGATGCTGCCAGTATGGAGTCTTTATATGATCTCTGGGAATTCTACTTGCCCTATTTGTATTCTTGCATTTCGCTGATGGGATGCTTGCTGCTTCTCTTGTGTACTCCAGTTGGCCTGTCCCGTATGTTCACAGTCATGGGTCAGTTGCTGGTGAAGCCAGCGATTCTTGAAGACCTGGATGAACAAATTTATATGATTACTCTAGAAGAAGAAGCACTCCAGAGAAGACTACATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGGTCAGTTGCTGGTGAA
59.52
AGGAAACGATGTAGAGAATGGCA
59.8
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGAAGCCAGCGATTCTT
59.96
TCCTCATCTTCTTGTTCATCGGA
59.23
179
PCR template sequence:
ATGGGTCAGTTGCTGGTGAAGCCAGCGATTCTTGAAGACCTGGATGAACAAATTTATATGATTACTCTAGAAGAAGAAGCACTCCAGAGAAGACTACATGATATGTTTTCTTCTCTTTGCCATTCTCTACATCGTTTCCTACTTCATCATTATAAGATACAAGAGAAAATCCGATGAACAAGAAGATGAGGATGCTGTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(2), mmu-miR-103-3p(2), mmu-miR-107-3p(2), mmu-miR-15a-5p(1), mmu-let-7e-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-324-5p(1), mmu-miR-215-5p(1), mmu-miR-340-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAGACTACATGATATGTTTTCTTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLMBR1_691_ORF_1
0.9058
0.058863004
0.838976028
693
ORF sequence:
ATGATATGTTTTCTTCTCTTTGCCATTCTCTACATCGTTTCCTACTTCATCATTATAAGATACAAGAGAAAATCCGATGAACAAGAAGATGAGGATGCTGTAGTCAACAGGATATCGTTGTTTCTGAGCACCTTCACTCTAGCCGTGTCAGCTGGCGCGGTTTTGCTTTTACCCTTCTCAATCATCAGCAATGAGATCCTGCTTGCTTTTCCTCACAACTACTATATTCAGTGGCTGAATGGCTCCCTCATCCACGGTTTGTGGAATCTTGCTTCTTTATTTTCCAATCTTTGTTTATTTGTGTTGATGCCCTTTGCCTTTTTCTTTCTGGAATCAGAAGGTTTTGCAGGCCTGAAAAAGGGAATCCGAGCCCGCATTTTGGAAACTCTGGTTATGCTGCTGCTTCTTGCGTTGCTGATTCTTGGGATGGTGTGGGTGGCTTCCGCCCTGATTGACAGTGATGCTGCCAGTATGGAGTCTTTATATGATCTCTGGGAATTCTACTTGCCCTATTTGTATTCTTGCATTTCGCTGATGGGATGCTTGCTGCTTCTCTTGTGTACTCCAGTTGGCCTGTCCCGTATGTTCACAGTCATGGGTCAGTTGCTGGTGAAGCCAGCGATTCTTGAAGACCTGGATGAACAAATTTATATGATTACTCTAGAAGAAGAAGCACTCCAGAGAAGACTACAT
Peptide sequence:
MICFLLFAILYIVSYFIIIRYKRKSDEQEDEDAVVNRISLFLSTFTLAVSAGAVLLLPFSIISNEILLAFPHNYYIQWLNGSLIHGLWNLASLFSNLCLFVLMPFAFFFLESEGFAGLKKGIRARILETLVMLLLLALLILGMVWVASALIDSDAASMESLYDLWEFYLPYLYSCISLMGCLLLLLCTPVGLSRMFTVMGQLLVKPAILEDLDEQIYMITLEEEALQRRLH
IRESfinder result
IRESfinder score
0.823498218
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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