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mmu_ciLtn1_926
Basic information of circular RNA
PanCircBase ID:
mmu_ciLtn1_926
mm39_Chr. Position ID:
chr16|87178576|87179502|-
Gene name:
Ltn1
Transcript:
ENSMUST00000039449.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
26
Exon/intron offsets:
0
Genomic length:
926
Exon/intron sizes in nt:
926
Flanking exon/introns:
chr16:87178570-87179502
Splice length:
926
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCAGTGGGCTACACGTGTGTGGGCTGCACATGTGTGGGCTACACGTCTGTGGGCTACATGTGCGTAACGTCTTAGAGACTTTGTTCGACCCAGTTGTACTAAACTTCCTGCAGGTATGGAGGAGAATTGCAGATGGAAGTCTCAGCTCTGAGGGCACAAGAAATGCAAGAATTTCCACATTTATCTAATAGAACAAATAGCTGGATCTTAGAGATAAGAATTTCATTAATTTTTGAAGCTTAGTATTGTATATGGATCCATTCTTTTCTTTTTTAATTTTTGTTTTTTAAGACAGGGTCTTACTCTCTGGCCCTTGCTGGCTTGGGACTTTATGTAGACCAGTATGGCCTCAGACTCCTAAATATCTGTTTGCTTCTTCTGGGGTTAAGGGAATGTGCCACCACACCCAGCTACCTATATTCAGTTGATGAAACAAAATTCAAGTGAAGTTTACGTTCTTCACCTGGAAGCTCAGGTTTTAGTTGAGACAGAAGTGCAGCCCATCTGTGTATAAGCTATCTGTGAAGAACTAAAACCCCTTGACCGGAGGATGTTGTGTGTGCCGTGAAGTTTGGAGTATGAGGGTTTGCCCAAGTGTATCTGCACTGTGTTGCTTCCCAGAGAGGCCCGAAGAGGGTGTCTGCTCCCTAGAACTGTGAGTGGCCGTGTGGGTGCTGGGAATCTAGGTTCTTTGCAAGAGCAACAAATGTTCCTAACCACTGGGCTATTTCTCCAGGTTCTGGATTTTTAGTTCTTCTCAGATAGCTTTGTGGGTGGATGCTAACCCTCTTGGAGGTGGGGGCCTTTCTCTGTTTTCTGAGGTAGCACGCTACTGTTGAGTAGTCCAGTGGCTTTCTAAGGCGCATCAGCTAGTCTACTGTTCTAGGTGAGTGCACATGTATCACTAACCTGGGATTTGTTTCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTCTAAGGCGCATCAGC
59.97
TACGCACATGTAGCCCACAG
60.11
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTCTAAGGCGCATCAGC
59.97
TTACGCACATGTAGCCCACA
59.68
143
PCR template sequence:
CACGCTACTGTTGAGTAGTCCAGTGGCTTTCTAAGGCGCATCAGCTAGTCTACTGTTCTAGGTGAGTGCACATGTATCACTAACCTGGGATTTGTTTCTTGTCAGTGGGCTACACGTGTGTGGGCTGCACATGTGTGGGCTACACGTCTGTGGGCTACATGTGCGTAACGTCTTAGAGACTTTGTTCGACCCAGTTGTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-let-7b-5p(1), mmu-miR-152-3p(1), mmu-miR-10b-5p(1), mmu-miR-22-3p(1), mmu-miR-539-5p(1), mmu-miR-697(1), mmu-miR-490-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGATTTGTTTCTTGTCAGTGGGCTAC
siRNA sets
TAGCCCACTGACAAGAAAC, ACTGACAAGAAACAAATCC
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
0.808491543
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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