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mmu_circLman1_780
Basic information of circular RNA
PanCircBase ID:
mmu_circLman1_780
mm39_Chr. Position ID:
chr18|66124564|66131553|-
Gene name:
Lman1
Transcript:
ENSMUST00000048260.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,1581,2085,3291,5188,6106,6881
Genomic length:
6989
Exon/intron sizes in nt:
19,41,33,59,12,41,00,60,000
Flanking exon/introns:
chr18:66124473-66124564|chr18:66131553-66131636
Splice length:
780
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAATTTGGTATACAGAAAATCAAGGCTTGGACGGCCCTGTGTTTGGATCAGCTGATACGTGGAATGGTGTTGGAATATTTTTTGATTCTTTTGACAATGATGGAAAGAAAAATAATCCTGCTATAGTAGTTATAGGCAACAATGGACAAATCAATTATGACCATCAAAATGATGGTGCCACTCAAGCTTTAGCGAGTTGTCAGAGGGACTTTCGTAATAAACCCTATCCTGTCCGGGCAAAGATTACGTATTACCAGAAGACACTGACAGTCATGATCAATAATGGCTTTACACCAGATAAAAATGATTATGAATTCTGTGCCAAAGTGGAAAACATGGTTATCCCCACACAAGGTCATTTTGGGATATCAGCGGCAACAGGGGGACTTGCAGATGACCACGACGTTCTTTCTTTCCTGACTTTCCAACTGACCGAGCCTGGAAAAGAGCCACCTACAGCAGAAAAAGACATTTCAGAAAAAGAAAAGGAAAAGTATCAAGAGGAGTTTGAGCACTTCCAGCAAGAATTAGACAAGAAGAAGGAGGAATTCCAGAAGGGCCACCCTGACCTCCAGGGGCAGCCAGCGGATGACATCTTCGAGAGCATAGGCGATCGGGAGCTGAGACAGGTGTTTGAAGGACAGAATCGTATTCATCTGGAGATCAAGCAGCTGAACCGGCAGCTGGATATGATTCTTGATGAACAGAGGAGGTACGTCTCGTCCCTGACAGAGGAGATCTCCAGGAGAGGAGCAGGAACCCCGGGACAGCCTGGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGGAGGTACGTCTCGTCC
60.11
ACACCATTCCACGTATCAGCT
59.44
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGGAGGTACGTCTCGT
59.68
ACACCATTCCACGTATCAGCT
59.44
147
PCR template sequence:
GCAGCTGGATATGATTCTTGATGAACAGAGGAGGTACGTCTCGTCCCTGACAGAGGAGATCTCCAGGAGAGGAGCAGGAACCCCGGGACAGCCTGGGCAGGCAATTTGGTATACAGAAAATCAAGGCTTGGACGGCCCTGTGTTTGGATCAGCTGATACGTGGAATGGTGTTGGAATATTTTTTGATTCTTTTGACAATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-203-3p(1), mmu-miR-22-3p(1), mmu-miR-207(1), mmu-miR-669d-5p(1), mmu-miR-484(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGCCTGGGCAGGCAATTTGGTATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLMAN1_780_ORF_1
1.1814
0.302202967
0.9994133
1287
ORF sequence:
ATGATCAATAATGGCTTTACACCAGATAAAAATGATTATGAATTCTGTGCCAAAGTGGAAAACATGGTTATCCCCACACAAGGTCATTTTGGGATATCAGCGGCAACAGGGGGACTTGCAGATGACCACGACGTTCTTTCTTTCCTGACTTTCCAACTGACCGAGCCTGGAAAAGAGCCACCTACAGCAGAAAAAGACATTTCAGAAAAAGAAAAGGAAAAGTATCAAGAGGAGTTTGAGCACTTCCAGCAAGAATTAGACAAGAAGAAGGAGGAATTCCAGAAGGGCCACCCTGACCTCCAGGGGCAGCCAGCGGATGACATCTTCGAGAGCATAGGCGATCGGGAGCTGAGACAGGTGTTTGAAGGACAGAATCGTATTCATCTGGAGATCAAGCAGCTGAACCGGCAGCTGGATATGATTCTTGATGAACAGAGGAGGTACGTCTCGTCCCTGACAGAGGAGATCTCCAGGAGAGGAGCAGGAACCCCGGGACAGCCTGGGCAGGCAATTTGGTATACAGAAAATCAAGGCTTGGACGGCCCTGTGTTTGGATCAGCTGATACGTGGAATGGTGTTGGAATATTTTTTGATTCTTTTGACAATGATGGAAAGAAAAATAATCCTGCTATAGTAGTTATAGGCAACAATGGACAAATCAATTATGACCATCAAAATGATGGTGCCACTCAAGCTTTAGCGAGTTGTCAGAGGGACTTTCGTAATAAACCCTATCCTGTCCGGGCAAAGATTACGTATTACCAGAAGACACTGACAGTCATGATCAATAATGGCTTTACACCAGATAAAAATGATTATGAATTCTGTGCCAAAGTGGAAAACATGGTTATCCCCACACAAGGTCATTTTGGGATATCAGCGGCAACAGGGGGACTTGCAGATGACCACGACGTTCTTTCTTTCCTGACTTTCCAACTGACCGAGCCTGGAAAAGAGCCACCTACAGCAGAAAAAGACATTTCAGAAAAAGAAAAGGAAAAGTATCAAGAGGAGTTTGAGCACTTCCAGCAAGAATTAGACAAGAAGAAGGAGGAATTCCAGAAGGGCCACCCTGACCTCCAGGGGCAGCCAGCGGATGACATCTTCGAGAGCATAGGCGATCGGGAGCTGAGACAGGTGTTTGAAGGACAGAATCGTATTCATCTGGAGATCAAGCAGCTGAACCGGCAGCTGGATATGATTCTTGATGAACAGAGGAGGTACGTCTCGTCCCTGACAGAGGAGATCTCCAGGAGAGGAGCAGGAACCCCGGGACAGCCTGGGCAG
Peptide sequence:
MINNGFTPDKNDYEFCAKVENMVIPTQGHFGISAATGGLADDHDVLSFLTFQLTEPGKEPPTAEKDISEKEKEKYQEEFEHFQQELDKKKEEFQKGHPDLQGQPADDIFESIGDRELRQVFEGQNRIHLEIKQLNRQLDMILDEQRRYVSSLTEEISRRGAGTPGQPGQAIWYTENQGLDGPVFGSADTWNGVGIFFDSFDNDGKKNNPAIVVIGNNGQINYDHQNDGATQALASCQRDFRNKPYPVRAKITYYQKTLTVMINNGFTPDKNDYEFCAKVENMVIPTQGHFGISAATGGLADDHDVLSFLTFQLTEPGKEPPTAEKDISEKEKEKYQEEFEHFQQELDKKKEEFQKGHPDLQGQPADDIFESIGDRELRQVFEGQNRIHLEIKQLNRQLDMILDEQRRYVSSLTEEISRRGAGTPGQPGQ
IRESfinder result
IRESfinder score
0.522473819
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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