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mmu_circLgals12_729
Basic information of circular RNA
PanCircBase ID:
mmu_circLgals12_729
mm39_Chr. Position ID:
chr19|7576124|7581757|-
Gene name:
Lgals12
Transcript:
ENSMUST00000159983.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,1888,2486,3283,4249,5209,5544
Genomic length:
5633
Exon/intron sizes in nt:
151,89,27,39,120,214,89
Flanking exon/introns:
chr19:7575536-7576124|chr19:7581757-7584026
Splice length:
729
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGATTCCTTATGGCACAACAATTTTTGGTGGCCTGTATGCAGGCAAGATGGTCACGCTGCAGGGTGTGGTCCCTCTGCATGCAAGGAGGTTTCAGGTGGACTTCCAGTGTGGGTGCTGCCTGCATCCTCAGCCAGATGTTGCCTTCCGCTTCAGCCCTCGATTCTACACTGTCAAGCCCCATGTCATCTGCAACACCCACCAAGGTGGACTCTGGCAAAAAGAGATCCGGTGGCCAGGGGTCGCCCTGCAGAGAGGGGATAGCTTCCTCATTCTCTTTCTCTTTGAGAACGAAGAGGTGAAGGTGAGTGTAAATGGCCAGCACTTTCTTCACTACCGCTACCGGCTCCCACTGTCACGGGTAGATACCCTTGACATATCTGGTGACATCTTGGTAAAGGCTGTTGGATTCCTGAACATCAATCCATTTGTGGAGGGTAGCAGAGAGTATCCAGTTGGATATCCCTTCCTGCTGTATAGCCCCAGGCTGGAGGTGCCCTGCTCACGTGCTCTTCCTCGGGGTCTCTGGCCTGGGCAAGTCATTGTAGTTCGAGGACTGGTCTTGAAAGAGCCGAAAGATTTTACCCTGAGCCTGAAGGATGGGACCACCCATGTTCCTGTGACACTCAGGGCTTCCTTCACAGACAGAACACTGGCCTGGGTCTCCTCCTGGGGACGAAAGAAGCTGATCTCCGCCCCCTTCCTCTTTCACCCCCAGCGATTCTTCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGAAGCTGATCTCCGCCC
60.11
CCACCTGAAACCTCCTTGCA
60.18
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCCTGGGGACGAAAGAA
60.18
CCACCTGAAACCTCCTTGCA
60.18
166
PCR template sequence:
GGCTTCCTTCACAGACAGAACACTGGCCTGGGTCTCCTCCTGGGGACGAAAGAAGCTGATCTCCGCCCCCTTCCTCTTTCACCCCCAGCGATTCTTCGAGGTGATTCCTTATGGCACAACAATTTTTGGTGGCCTGTATGCAGGCAAGATGGTCACGCTGCAGGGTGTGGTCCCTCTGCATGCAAGGAGGTTTCAGGTGG
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-93-5p(1), mmu-miR-199a-5p(1), mmu-miR-106b-5p(1), mmu-miR-214-3p(1), mmu-miR-705(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
GCGATTCTTCGAGGTGATTCCTTATG
siRNA sets
TAAGGAATCACCTCGAAGA, ATAAGGAATCACCTCGAAG, AAGGAATCACCTCGAAGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLGALS12_729_ORF_1
0.9821
0.243668915
0.999556532
1410
ORF sequence:
ATGGTCACGCTGCAGGGTGTGGTCCCTCTGCATGCAAGGAGGTTTCAGGTGGACTTCCAGTGTGGGTGCTGCCTGCATCCTCAGCCAGATGTTGCCTTCCGCTTCAGCCCTCGATTCTACACTGTCAAGCCCCATGTCATCTGCAACACCCACCAAGGTGGACTCTGGCAAAAAGAGATCCGGTGGCCAGGGGTCGCCCTGCAGAGAGGGGATAGCTTCCTCATTCTCTTTCTCTTTGAGAACGAAGAGGTGAAGGTGAGTGTAAATGGCCAGCACTTTCTTCACTACCGCTACCGGCTCCCACTGTCACGGGTAGATACCCTTGACATATCTGGTGACATCTTGGTAAAGGCTGTTGGATTCCTGAACATCAATCCATTTGTGGAGGGTAGCAGAGAGTATCCAGTTGGATATCCCTTCCTGCTGTATAGCCCCAGGCTGGAGGTGCCCTGCTCACGTGCTCTTCCTCGGGGTCTCTGGCCTGGGCAAGTCATTGTAGTTCGAGGACTGGTCTTGAAAGAGCCGAAAGATTTTACCCTGAGCCTGAAGGATGGGACCACCCATGTTCCTGTGACACTCAGGGCTTCCTTCACAGACAGAACACTGGCCTGGGTCTCCTCCTGGGGACGAAAGAAGCTGATCTCCGCCCCCTTCCTCTTTCACCCCCAGCGATTCTTCGAGGTGATTCCTTATGGCACAACAATTTTTGGTGGCCTGTATGCAGGCAAGATGGTCACGCTGCAGGGTGTGGTCCCTCTGCATGCAAGGAGGTTTCAGGTGGACTTCCAGTGTGGGTGCTGCCTGCATCCTCAGCCAGATGTTGCCTTCCGCTTCAGCCCTCGATTCTACACTGTCAAGCCCCATGTCATCTGCAACACCCACCAAGGTGGACTCTGGCAAAAAGAGATCCGGTGGCCAGGGGTCGCCCTGCAGAGAGGGGATAGCTTCCTCATTCTCTTTCTCTTTGAGAACGAAGAGGTGAAGGTGAGTGTAAATGGCCAGCACTTTCTTCACTACCGCTACCGGCTCCCACTGTCACGGGTAGATACCCTTGACATATCTGGTGACATCTTGGTAAAGGCTGTTGGATTCCTGAACATCAATCCATTTGTGGAGGGTAGCAGAGAGTATCCAGTTGGATATCCCTTCCTGCTGTATAGCCCCAGGCTGGAGGTGCCCTGCTCACGTGCTCTTCCTCGGGGTCTCTGGCCTGGGCAAGTCATTGTAGTTCGAGGACTGGTCTTGAAAGAGCCGAAAGATTTTACCCTGAGCCTGAAGGATGGGACCACCCATGTTCCTGTGACACTCAGGGCTTCCTTCACAGACAGAACACTGGCCTGGGTCTCCTCCTGGGGACGAAAGAAGCTGATCTCCGCCCCCTTCCTCTTTCACCCCCAGCGATTCTTCGAG
Peptide sequence:
MVTLQGVVPLHARRFQVDFQCGCCLHPQPDVAFRFSPRFYTVKPHVICNTHQGGLWQKEIRWPGVALQRGDSFLILFLFENEEVKVSVNGQHFLHYRYRLPLSRVDTLDISGDILVKAVGFLNINPFVEGSREYPVGYPFLLYSPRLEVPCSRALPRGLWPGQVIVVRGLVLKEPKDFTLSLKDGTTHVPVTLRASFTDRTLAWVSSWGRKKLISAPFLFHPQRFFEVIPYGTTIFGGLYAGKMVTLQGVVPLHARRFQVDFQCGCCLHPQPDVAFRFSPRFYTVKPHVICNTHQGGLWQKEIRWPGVALQRGDSFLILFLFENEEVKVSVNGQHFLHYRYRLPLSRVDTLDISGDILVKAVGFLNINPFVEGSREYPVGYPFLLYSPRLEVPCSRALPRGLWPGQVIVVRGLVLKEPKDFTLSLKDGTTHVPVTLRASFTDRTLAWVSSWGRKKLISAPFLFHPQRFFE
IRESfinder result
IRESfinder score
0.600903811
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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