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mmu_circLman1_336
Basic information of circular RNA
PanCircBase ID:
mmu_circLman1_336
mm39_Chr. Position ID:
chr18|66116895|66120976|-
Gene name:
Lman1
Transcript:
ENSMUST00000048260.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
13,12,11
Exon/intron offsets:
0,328,3930
Genomic length:
4081
Exon/intron sizes in nt:
6,31,22,151
Flanking exon/introns:
chr18:66115781-66116895|chr18:66120976-66124402
Splice length:
336
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAACTCCATGAGTGAAACTGTGCGGCTGGTGAGTGGCATCCAGCACCCGGGCTCAGCAGGCGTCTACGAGACAACTCAGCACTTCATGGACATCAAGGAACACCTGCACGTGGTGAAGAGAGATATCGACAGCCTCGCACAGCGCAGCATGCCATCTAATGAAAAACCAAAATGCCCAGACCTACCACCATTCCCGTCGTGTCTATCCACGATCCACTTTGTGATATTTGTAGTGGTGCAGACAGTGTTGTTCGTTGGCTATATCATGTACAGGACTCAGCAAGAAGCAGCTGCCAAAAAATTCTTTTGACCTTCATTTTCCTATATGTACATCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAGAAGCAGCTGCCAAAA
60.25
TGAAGTGCTGAGTTGTCTCGT
59.59
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACAGTGTTGTTCGTTGGCT
58.99
CTCGTAGACGCCTGCTGAG
59.94
166
PCR template sequence:
TGCAGACAGTGTTGTTCGTTGGCTATATCATGTACAGGACTCAGCAAGAAGCAGCTGCCAAAAAATTCTTTTGACCTTCATTTTCCTATATGTACATCATGAACTCCATGAGTGAAACTGTGCGGCTGGTGAGTGGCATCCAGCACCCGGGCTCAGCAGGCGTCTACGAGACAACTCAGCACTTCATGGACATCAAGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-370-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATATGTACATCATGAACTCCATGAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLMAN1_336_ORF_1
1.0931
0.288629706
0.567209326
321
ORF sequence:
ATGTACATCATGAACTCCATGAGTGAAACTGTGCGGCTGGTGAGTGGCATCCAGCACCCGGGCTCAGCAGGCGTCTACGAGACAACTCAGCACTTCATGGACATCAAGGAACACCTGCACGTGGTGAAGAGAGATATCGACAGCCTCGCACAGCGCAGCATGCCATCTAATGAAAAACCAAAATGCCCAGACCTACCACCATTCCCGTCGTGTCTATCCACGATCCACTTTGTGATATTTGTAGTGGTGCAGACAGTGTTGTTCGTTGGCTATATCATGTACAGGACTCAGCAAGAAGCAGCTGCCAAAAAATTCTTTTGA
Peptide sequence:
MYIMNSMSETVRLVSGIQHPGSAGVYETTQHFMDIKEHLHVVKRDIDSLAQRSMPSNEKPKCPDLPPFPSCLSTIHFVIFVVVQTVLFVGYIMYRTQQEAAAKKFF
IRESfinder result
IRESfinder score
0.471913219
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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