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mmu_circLrrfip1_471
Basic information of circular RNA
PanCircBase ID:
mmu_circLrrfip1_471
mm39_Chr. Position ID:
chr1|91012667|91033019|+
Gene name:
Lrrfip1
Transcript:
ENSMUST00000189505.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,8,9,10,11
Exon/intron offsets:
0,8614,15631,16239,20181
Genomic length:
20352
Exon/intron sizes in nt:
6,07,83,61,26,171
Flanking exon/introns:
chr1:91006803-91012667|chr1:91033019-91035019
Splice length:
471
Other database IDs:
circBase: mmu_circ_0009067, CIRCpedia: MMU_CIRCpedia_33978, circAtlas: mmu-Lrrfip1_0018
circAtlas: hsa-LRRFIP1_0023
Human Ortholog IDs:
Mature spliced Sequence:
ACTAACGGTTATGACGGAGACTATTGTGGATCCCAGTCCCTAAGTAGAAGATCTGGCAGGCCCTCAGAATATGGCAGCCACCTCAACTCCAGCTCCCGGGCCTCTTCTAGGGCCAGCTCTGCAAGGGCCAGTCCTGTGGTAGAAGAAAGACCAGACAAAGACTTTGCTGAGAAGGGCTCCCGTAACATGCCTAGCCTGTCTGCAGCCACACTGGCATCTCTGGGTGGGACTTCCTCCCGGAGAGGGAGTGGAGATACCTCCATCTCCATGGACACCGAAGCATCCATCAGGGAAATCAAGGACTCGCTGGCCGAAGTTGAGGAGAAGTACAAGAAAGCTATGGTCTCCAACGCCCAGCTAGACAATGAGAAGACCAACTTCATGTACCAGGTGGACACACTGAAGGACATGCTGCTGGAGCTGGAAGAGCAGCTGGCCGAGTCTCAGCGGCAATACGAGGAGAAGAACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGTGGACACACTGAAGG
60.25
AGGGCCTGCCAGATCTTCTA
60.03
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGGACATGCTGCTGGAG
60.04
CCATATTCTGAGGGCCTGCC
60.25
145
PCR template sequence:
GACCAACTTCATGTACCAGGTGGACACACTGAAGGACATGCTGCTGGAGCTGGAAGAGCAGCTGGCCGAGTCTCAGCGGCAATACGAGGAGAAGAACAAGACTAACGGTTATGACGGAGACTATTGTGGATCCCAGTCCCTAAGTAGAAGATCTGGCAGGCCCTCAGAATATGGCAGCCACCTCAACTCCAGCTCCCGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-207(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGAAGAACAAGACTAACGGTTATG
siRNA sets
GTTAGTCTTGTTCTTCTCC,TAACCGTTAGTCTTGTTCT,ATAACCGTTAGTCTTGTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRRFIP1_471_ORF_1
1.0393
0.515728685
0.985680533
756
ORF sequence:
ATGCCTAGCCTGTCTGCAGCCACACTGGCATCTCTGGGTGGGACTTCCTCCCGGAGAGGGAGTGGAGATACCTCCATCTCCATGGACACCGAAGCATCCATCAGGGAAATCAAGGACTCGCTGGCCGAAGTTGAGGAGAAGTACAAGAAAGCTATGGTCTCCAACGCCCAGCTAGACAATGAGAAGACCAACTTCATGTACCAGGTGGACACACTGAAGGACATGCTGCTGGAGCTGGAAGAGCAGCTGGCCGAGTCTCAGCGGCAATACGAGGAGAAGAACAAGACTAACGGTTATGACGGAGACTATTGTGGATCCCAGTCCCTAAGTAGAAGATCTGGCAGGCCCTCAGAATATGGCAGCCACCTCAACTCCAGCTCCCGGGCCTCTTCTAGGGCCAGCTCTGCAAGGGCCAGTCCTGTGGTAGAAGAAAGACCAGACAAAGACTTTGCTGAGAAGGGCTCCCGTAACATGCCTAGCCTGTCTGCAGCCACACTGGCATCTCTGGGTGGGACTTCCTCCCGGAGAGGGAGTGGAGATACCTCCATCTCCATGGACACCGAAGCATCCATCAGGGAAATCAAGGACTCGCTGGCCGAAGTTGAGGAGAAGTACAAGAAAGCTATGGTCTCCAACGCCCAGCTAGACAATGAGAAGACCAACTTCATGTACCAGGTGGACACACTGAAGGACATGCTGCTGGAGCTGGAAGAGCAGCTGGCCGAGTCTCAGCGGCAATACGAGGAGAAGAACAAG
Peptide sequence:
MPSLSAATLASLGGTSSRRGSGDTSISMDTEASIREIKDSLAEVEEKYKKAMVSNAQLDNEKTNFMYQVDTLKDMLLELEEQLAESQRQYEEKNKTNGYDGDYCGSQSLSRRSGRPSEYGSHLNSSSRASSRASSARASPVVEERPDKDFAEKGSRNMPSLSAATLASLGGTSSRRGSGDTSISMDTEASIREIKDSLAEVEEKYKKAMVSNAQLDNEKTNFMYQVDTLKDMLLELEEQLAESQRQYEEKNK
IRESfinder result
IRESfinder score
0.284869462
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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