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mmu_circLrba_499
Basic information of circular RNA
PanCircBase ID:
mmu_circLrba_499
mm39_Chr. Position ID:
chr3|86622819|86653170|+
Gene name:
Lrba
Transcript:
ENSMUST00000194759.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
48,49,50,51
Exon/intron offsets:
0,21569,25892,30288
Genomic length:
30351
Exon/intron sizes in nt:
168,90,178,63
Flanking exon/introns:
chr3:86571897-86622819|chr3:86653170-86658833
Splice length:
499
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCCCTGGAGAGTGAATTTGTTTCCTGCCAGCTTCACCAATGGATTGATCTTATTTTTGGCTATAAACAACAAGGACCAGAGGCAGTGCGAGCCCTCAATGTGTTCTATTACCTAACCTATGAAGGAGCTGTCAACCTGAACTCAATAACTGATCCTGTGCTGAGAGAGGCTGTGGAAGCTCAGATCCGAAGTTTTGGACAGACGCCTTCGCAACTGCTCATAGAGCCCCACCCTCCCCGAGGTTCGGCCATGCAGGCGAGTCCATTGATGTTCACAGACCAAGCCCAGCAAGATGTCATCATGGTCCTAAAGTTCCCTTCGAATTCTCCAGTCACCCACGTTGCGGCCAACACCCAGCCAGGCCTGGCAATGCCTGCTGTCATCACTGTCACTGCTAACAGGCTCTTTGCCGTGAACAAGTGGCACAACCTTCCTGCTCACCAAGGTGCTGTACAAGACCAGCCATACCAGCTGCCAGTGGAAATCGATCCTCTCATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTCACCAAGGTGCTGTA
59.96
CTGCCTCTGGTCCTTGTTGT
59.89
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTCACCAAGGTGCTGTA
59.96
ACTGCCTCTGGTCCTTGTTG
59.89
152
PCR template sequence:
AGGCTCTTTGCCGTGAACAAGTGGCACAACCTTCCTGCTCACCAAGGTGCTGTACAAGACCAGCCATACCAGCTGCCAGTGGAAATCGATCCTCTCATAGGCCCTGGAGAGTGAATTTGTTTCCTGCCAGCTTCACCAATGGATTGATCTTATTTTTGGCTATAAACAACAAGGACCAGAGGCAGTGCGAGCCCTCAATG
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-134-5p(1), mmu-miR-214-3p(1), mmu-miR-324-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATCCTCTCATAGGCCCTGGAGAGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRBA_499_ORF_1
1.0879
0.275498913
0.447239765
264
ORF sequence:
ATGCAGGCGAGTCCATTGATGTTCACAGACCAAGCCCAGCAAGATGTCATCATGGTCCTAAAGTTCCCTTCGAATTCTCCAGTCACCCACGTTGCGGCCAACACCCAGCCAGGCCTGGCAATGCCTGCTGTCATCACTGTCACTGCTAACAGGCTCTTTGCCGTGAACAAGTGGCACAACCTTCCTGCTCACCAAGGTGCTGTACAAGACCAGCCATACCAGCTGCCAGTGGAAATCGATCCTCTCATAGGCCCTGGAGAGTGA
Peptide sequence:
MQASPLMFTDQAQQDVIMVLKFPSNSPVTHVAANTQPGLAMPAVITVTANRLFAVNKWHNLPAHQGAVQDQPYQLPVEIDPLIGPGE
IRESfinder result
IRESfinder score
0.497530301
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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