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mmu_ciNlrc5_326
Basic information of circular RNA
PanCircBase ID:
mmu_ciNlrc5_326
mm39_Chr. Position ID:
chr8|95210784|95211110|+
Gene name:
Nlrc5
Transcript:
ENSMUST00000183132.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
326
Exon/intron sizes in nt:
326
Flanking exon/introns:
chr8:95210784-95211165
Splice length:
326
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGGTCCTTTCCCAAAAGAGGAAGAACATCCAGGAAGGAATACAGGGGAAGCAAATGGAGGGACAGGGAAAGGGCATACATAAGCAACTGTATCAACAATAACTCCAGCTGAACGGACCCATGCTATATATGTGGGGTACTGTATTCAAAGGTCTGTGTCTGGTACCTCATAGGAACCCTTGTAGGAGCCCCACTAATAACACATGTTTCTCTACTTTGGTAGAAGAAGATAGTGAGTCATAGACAGATTAAGTGCCTTGAATAGGTTCACCCCACTACTTAGAGGTATGCAGATTCCAGAGCTGTTCCCTCAGGATACACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTTGAATAGGTTCACCCCA
59.99
TTCCCTGTCCCTCCATTTGC
59.96
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTGAATAGGTTCACCCC
59.99
TTCCCTGTCCCTCCATTTGC
59.96
143
PCR template sequence:
AGAAGATAGTGAGTCATAGACAGATTAAGTGCCTTGAATAGGTTCACCCCACTACTTAGAGGTATGCAGATTCCAGAGCTGTTCCCTCAGGATACACCTGGTAGGGTCCTTTCCCAAAAGAGGAAGAACATCCAGGAAGGAATACAGGGGAAGCAAATGGAGGGACAGGGAAAGGGCATACATAAGCAACTGTATCAACA
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-101b-3p(1), mmu-miR-339-5p(1), mmu-miR-136-5p(1), mmu-miR-1198-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CAGGATACACCTGGTAGGGTCCTTTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CINLRC5_326_ORF_1
1.1449
0.027104289
0.119107094
141
ORF sequence:
ATGCAGATTCCAGAGCTGTTCCCTCAGGATACACCTGGTAGGGTCCTTTCCCAAAAGAGGAAGAACATCCAGGAAGGAATACAGGGGAAGCAAATGGAGGGACAGGGAAAGGGCATACATAAGCAACTGTATCAACAATAA
Peptide sequence:
MQIPELFPQDTPGRVLSQKRKNIQEGIQGKQMEGQGKGIHKQLYQQ
IRESfinder result
IRESfinder score
0.684026925
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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