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mmu_circLrp8_460
Basic information of circular RNA
PanCircBase ID:
mmu_circLrp8_460
mm39_Chr. Position ID:
chr4|107707300|107711620|+
Gene name:
Lrp8
Transcript:
ENSMUST00000106732.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,1204,1396,4145
Genomic length:
4320
Exon/intron sizes in nt:
39,12,01,26,175
Flanking exon/introns:
chr4:107704763-107707300|chr4:107711620-107712774
Splice length:
460
Other database IDs:
circAtlas: mmu-Lrp8_0003
Human Ortholog IDs:
Mature spliced Sequence:
TTGCACCATCATTCCCGGGAAACAGGAGGCATCCCAGGGGGCTAAATGAGTGTCTGCACAATAACGGCGGCTGTTCCCACATCTGCACTGACCTCAAGATCGGCTTTGAGTGCACGTGCCCAGCAGGCTTCCAGCTCTTGGACCAGAAGACCTGTGGTGACATTGATGAATGCCAGGACCCGGATGCCTGCAGCCAAATCTGCGTGAATTACAAGGGCTACTTTAAGTGTGAATGCCACCCTGGCTATGAGATGGATACACTGACCAAGAACTGCAAAGCTGTAGCCGGCAAGAGCCCATCTCTGATCTTCACGAACCGACACGAGGTGCGGAGGATAGACCTGGTGAAGCGGGACTACTCGCGCCTCATCCCCATGCTCAAGAATGTCGTGGCGCTGGACGTGGAAGTAGCCACCAATCGCATATACTGGTGCGACCTCTCCTACCGCAAGATCTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAGTAGCCACCAATCGCA
60.39
GGTCAGTGCAGATGTGGGAA
59.96
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAAGTAGCCACCAATCGC
60.39
GGTCAGTGCAGATGTGGGAA
59.96
151
PCR template sequence:
CGCGCCTCATCCCCATGCTCAAGAATGTCGTGGCGCTGGACGTGGAAGTAGCCACCAATCGCATATACTGGTGCGACCTCTCCTACCGCAAGATCTACAGTTGCACCATCATTCCCGGGAAACAGGAGGCATCCCAGGGGGCTAAATGAGTGTCTGCACAATAACGGCGGCTGTTCCCACATCTGCACTGACCTCAAGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAAGATCTACAGTTGCACCATCATT
siRNA sets
ATGATGGTGCAACTGTAGA, AATGATGGTGCAACTGTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRP8_460_ORF_1
1.2104
0.532566831
0.736049732
258
ORF sequence:
ATGGATACACTGACCAAGAACTGCAAAGCTGTAGCCGGCAAGAGCCCATCTCTGATCTTCACGAACCGACACGAGGTGCGGAGGATAGACCTGGTGAAGCGGGACTACTCGCGCCTCATCCCCATGCTCAAGAATGTCGTGGCGCTGGACGTGGAAGTAGCCACCAATCGCATATACTGGTGCGACCTCTCCTACCGCAAGATCTACAGTTGCACCATCATTCCCGGGAAACAGGAGGCATCCCAGGGGGCTAAATGA
Peptide sequence:
MDTLTKNCKAVAGKSPSLIFTNRHEVRRIDLVKRDYSRLIPMLKNVVALDVEVATNRIYWCDLSYRKIYSCTIIPGKQEASQGAK
IRESfinder result
IRESfinder score
0.239600437
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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