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mmu_circLmo7_995
Basic information of circular RNA
PanCircBase ID:
mmu_circLmo7_995
mm39_Chr. Position ID:
chr14|102137506|102148316|+
Gene name:
Lmo7
Transcript:
ENSMUST00000100337.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,15,16
Exon/intron offsets:
0,1993,10695
Genomic length:
10810
Exon/intron sizes in nt:
57,43,06,115
Flanking exon/introns:
chr14:102136135-102137506|chr14:102148316-102149434
Splice length:
995
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGAATCTCGAGGTTCTACAGTTACGTCTTGGAGGAGGACCTATTCCTCTGATGACATCCTCGATGATGGAGTGCTCCCTCCTACAGTGACTCTGTCAGAAACTAGTTACCAGAGCGAGAGACTAGAAGATGAGGCAAGAGCGCATCCTGCTGAGATGCCCAAAGAAGATTCCACAACATTTGCAAATAGAGAGGACAGTGTAGTAGCTGAGACTCAGCTTGCTTCTCACAGTCCTGAAGAGCAACGTCTGGCCCCTTCTCCTTCTGAGGAACCGCGCCAGGCCTCTGGATCTTCTGCAGAACCGCACCAGGCCCCGTTGCTGTCCACAGAACCACGCCGGACCCCTTTGCCTTCCGAGGAACCACACCAGGCCTCTCTATCTTCTACACTACAGCGTCCATCCTCACTCTCTTCTCAGCAGTCATGGAGTACAAGAGCAGAGTCCACTCGGATTTCAGCTTCTCTCCCTAGAAGTTACCAGAGAACCGATACAGCCAGGTTAACATCTGTGGTCACAGCGAGACCTTTTGGCACATCTTCAAGGGGAATCTCCTCACTGCCCAGATCCTACACGATGGATGATGGCTGGAAATACAACGGAGATGTTGAAGTTGTCAAGAGAGAGCAACTCGATTTGGGCAGAGCCACTGGCCCGAAGCCTGACTCCAGCCACTTTATTTCGGGCTCAGCCAGTGAGAAGGAGGTCATAGCCACAGAAGATGTGGCAAGCTTGTCCTCTCCCACACTCCCTTCCTCATCTCTCTCCCACGACCGGGCAGTCTCTTCCAAAGCCACGTTCTCATCAATGTCTGGTTTGGATTCAGTGTCTGACTCTGGAGAAGGAAGAGGCTCACCATTGAGGGAAGTTTCCAGGTCCCTGGATCAGTTCAGCGATATGAGAGTCAGCATAAACCAGACGCCCGGGAACAAACCTGTCTTTGGGTTTACGATAAAATGGGATATTTCTGGGATCTTCGTAGCATCAGTCGAACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCGGGAACAAACCTGTCTT
60.18
TCACTGTAGGAGGGAGCACT
59.59
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCGGGAACAAACCTGTCTT
60.18
AGTCACTGTAGGAGGGAGCA
59.59
167
PCR template sequence:
ATGAGAGTCAGCATAAACCAGACGCCCGGGAACAAACCTGTCTTTGGGTTTACGATAAAATGGGATATTTCTGGGATCTTCGTAGCATCAGTCGAACAAGGGAATCTCGAGGTTCTACAGTTACGTCTTGGAGGAGGACCTATTCCTCTGATGACATCCTCGATGATGGAGTGCTCCCTCCTACAGTGACTCTGTCAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1), mmu-miR-185-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGTCGAACAAGGGAATCTCGAGGT
siRNA sets
AGATTCCCTTGTTCGACTG, CTCGAGATTCCCTTGTTCG, TCGAGATTCCCTTGTTCGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLMO7_995_ORF_1
0.9193
0.121160488
0.987681019
1035
ORF sequence:
ATGGGATATTTCTGGGATCTTCGTAGCATCAGTCGAACAAGGGAATCTCGAGGTTCTACAGTTACGTCTTGGAGGAGGACCTATTCCTCTGATGACATCCTCGATGATGGAGTGCTCCCTCCTACAGTGACTCTGTCAGAAACTAGTTACCAGAGCGAGAGACTAGAAGATGAGGCAAGAGCGCATCCTGCTGAGATGCCCAAAGAAGATTCCACAACATTTGCAAATAGAGAGGACAGTGTAGTAGCTGAGACTCAGCTTGCTTCTCACAGTCCTGAAGAGCAACGTCTGGCCCCTTCTCCTTCTGAGGAACCGCGCCAGGCCTCTGGATCTTCTGCAGAACCGCACCAGGCCCCGTTGCTGTCCACAGAACCACGCCGGACCCCTTTGCCTTCCGAGGAACCACACCAGGCCTCTCTATCTTCTACACTACAGCGTCCATCCTCACTCTCTTCTCAGCAGTCATGGAGTACAAGAGCAGAGTCCACTCGGATTTCAGCTTCTCTCCCTAGAAGTTACCAGAGAACCGATACAGCCAGGTTAACATCTGTGGTCACAGCGAGACCTTTTGGCACATCTTCAAGGGGAATCTCCTCACTGCCCAGATCCTACACGATGGATGATGGCTGGAAATACAACGGAGATGTTGAAGTTGTCAAGAGAGAGCAACTCGATTTGGGCAGAGCCACTGGCCCGAAGCCTGACTCCAGCCACTTTATTTCGGGCTCAGCCAGTGAGAAGGAGGTCATAGCCACAGAAGATGTGGCAAGCTTGTCCTCTCCCACACTCCCTTCCTCATCTCTCTCCCACGACCGGGCAGTCTCTTCCAAAGCCACGTTCTCATCAATGTCTGGTTTGGATTCAGTGTCTGACTCTGGAGAAGGAAGAGGCTCACCATTGAGGGAAGTTTCCAGGTCCCTGGATCAGTTCAGCGATATGAGAGTCAGCATAAACCAGACGCCCGGGAACAAACCTGTCTTTGGGTTTACGATAAAATGGGATATTTCTGGGATCTTCGTAGCATCAGTCGAACAA
Peptide sequence:
MGYFWDLRSISRTRESRGSTVTSWRRTYSSDDILDDGVLPPTVTLSETSYQSERLEDEARAHPAEMPKEDSTTFANREDSVVAETQLASHSPEEQRLAPSPSEEPRQASGSSAEPHQAPLLSTEPRRTPLPSEEPHQASLSSTLQRPSSLSSQQSWSTRAESTRISASLPRSYQRTDTARLTSVVTARPFGTSSRGISSLPRSYTMDDGWKYNGDVEVVKREQLDLGRATGPKPDSSHFISGSASEKEVIATEDVASLSSPTLPSSSLSHDRAVSSKATFSSMSGLDSVSDSGEGRGSPLREVSRSLDQFSDMRVSINQTPGNKPVFGFTIKWDISGIFVASVEQ
IRESfinder result
IRESfinder score
0.556655597
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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