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mmu_ciLpcat3_656
Basic information of circular RNA
PanCircBase ID:
mmu_ciLpcat3_656
mm39_Chr. Position ID:
chr6|124678540|124679196|+
Gene name:
Lpcat3
Transcript:
ENSMUST00000135516.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
656
Exon/intron sizes in nt:
656
Flanking exon/introns:
chr6:124678540-124679198
Splice length:
656
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTGTCTGTCAGCACAGGAATGTGACTACTGCCTCACACAAAGGGATAAGCAGAGAGCCCTGTAGATGGCAGACAAGCGCCATCTCAGATGTGTGTGGGGTTTTGCTAGTCTGTGAGAGTTGGTGCCACCCAGGCTAAAACCTGCATGGACAAACCTTGGGCATGGGGGGGGGGGAGCTCCAGGTGTACTTTTGCACGCCTTGCCCTCCCTCTCCCCCCCCCCCCCAAATAAGCTCAAGAAGCTCTCCCTTAGTGTTGTGACTTGGAGTGCTGCATCAGGTGGCTTTTTTCTTAAATTGACAGACTTAGGGGCTTGTCCAGAGGTGGTGCTTCGAGAGGAAAGCTGGCTTTTGCCACTTCCCCTGAAAAGCTCACAGGAGCTCCCCGTCATTCTGGGTAGATTTCTCTGCATTCCAGACTGTGCGGCTGGCTCTGCAAGGCCCCTCTGCTGACAACAAACGCCTAGGCCGTGCAGAGGAGGTGGATGCATATTGGCACCTCTTGGCTGGTTACAGGCAGGTGGGGGCTAGGCTGCCGTGGCACACGTGACATCAGAACTGATAGGAGTGGAGGAGCCATCCGCCAGTTTGAAGATATCTAGGGGACTGTGCCATGCCCGTACCTTCCCTAATGTTCCTGTGTTCTCTTCTTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATAGGAGTGGAGGAGCCA
59.36
AGGGCTCTCTGCTTATCCCT
59.73
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATAGGAGTGGAGGAGCCA
59.36
CCATCTACAGGGCTCTCTGC
59.61
167
PCR template sequence:
AGAACTGATAGGAGTGGAGGAGCCATCCGCCAGTTTGAAGATATCTAGGGGACTGTGCCATGCCCGTACCTTCCCTAATGTTCCTGTGTTCTCTTCTTCAGTGAGTGTCTGTCAGCACAGGAATGTGACTACTGCCTCACACAAAGGGATAAGCAGAGAGCCCTGTAGATGGCAGACAAGCGCCATCTCAGATGTGTGTG
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-135a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-29a-3p(1), mmu-miR-19a-3p(1), mmu-let-7d-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-98-5p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTCTCTTCTTCAGTGAGTGTCTGTC
siRNA sets
GACACTCACTGAAGAAGAG, AGACACTCACTGAAGAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.542658292
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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