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mmu_circLrpprc_412
Basic information of circular RNA
PanCircBase ID:
mmu_circLrpprc_412
mm39_Chr. Position ID:
chr17|85033730|85039245|-
Gene name:
Lrpprc
Transcript:
ENSMUST00000112308.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
29,28,27,26
Exon/intron offsets:
0,227,4842,5446
Genomic length:
5515
Exon/intron sizes in nt:
109,143,91,69
Flanking exon/introns:
chr17:85030251-85033730|chr17:85039245-85047497
Splice length:
412
Other database IDs:
circAtlas: mmu-Lrpprc_0030
circBase: hsa_circ_0054348, circAtlas: hsa-LRPPRC_0013, CIRCpedia: HSA_CIRCpedia_41404
Human Ortholog IDs:
Mature spliced Sequence:
ACTCCAGGCATTAGAGCTCGGCCTACAAGACTCCAGTGGTTTTGTGATCGATGCATTGCCAGTAATCAGGTTGAAGCTCTTGAGAAGTTGGTAGAGCTGACTGAGAAGCTGTTTGAGTGTGACAGAGACCAGATGTACTACAACTTACTGAAGCTATACAAAATAAGCAGTGACTGGCAAAGAGCGGATGCTGCGTGGACCAAAATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGATCTTGAAAACCAGCAACCAGGAAGTTCCTTTCGACGTTCCGGAGTTGTGGTTTGGAGATGACAGACCTTCCCTGAGTCCATCCTCACGCTCAGCAGGAGAGGACGTTACTGAGAAGACGTTGTTGTCTAACTGCAAACTAAAGAAGAGTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGTCCATCCTCACGCTCAG
59.9
CTGGCAATGCATCGATCACA
58.98
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGTCCATCCTCACGCTC
59.9
CTGGCAATGCATCGATCACA
58.98
144
PCR template sequence:
GGAGATGACAGACCTTCCCTGAGTCCATCCTCACGCTCAGCAGGAGAGGACGTTACTGAGAAGACGTTGTTGTCTAACTGCAAACTAAAGAAGAGTAAAGACTCCAGGCATTAGAGCTCGGCCTACAAGACTCCAGTGGTTTTGTGATCGATGCATTGCCAGTAATCAGGTTGAAGCTCTTGAGAAGTTGGTAGAGCTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1), mmu-miR-370-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAAGAGTAAAGACTCCAGGCATTA
siRNA sets
AATGCCTGGAGTCTTTACT, TAATGCCTGGAGTCTTTAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRPPRC_412_ORF_1
0.8129
0.218272014
0.323731982
294
ORF sequence:
ATGTACTACAACTTACTGAAGCTATACAAAATAAGCAGTGACTGGCAAAGAGCGGATGCTGCGTGGACCAAAATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGATCTTGAAAACCAGCAACCAGGAAGTTCCTTTCGACGTTCCGGAGTTGTGGTTTGGAGATGACAGACCTTCCCTGAGTCCATCCTCACGCTCAGCAGGAGAGGACGTTACTGAGAAGACGTTGTTGTCTAACTGCAAACTAAAGAAGAGTAAAGACTCCAGGCATTAG
Peptide sequence:
MYYNLLKLYKISSDWQRADAAWTKMQEENIIPRERTLRLLAEILKTSNQEVPFDVPELWFGDDRPSLSPSSRSAGEDVTEKTLLSNCKLKKSKDSRH
IRESfinder result
IRESfinder score
0.373489581
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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