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mmu_circNin_456
Basic information of circular RNA
PanCircBase ID:
mmu_circNin_456
mm39_Chr. Position ID:
chr12|70124885|70149628|-
Gene name:
Nin
Transcript:
ENSMUST00000222237.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,12424,24539
Genomic length:
24743
Exon/intron sizes in nt:
1,70,82,204
Flanking exon/introns:
chr12:70109502-70124885|chr12:70149628-70160247
Splice length:
456
Other database IDs:
circBase: mmu_circ_0004150, CIRCpedia: MMU_CIRCpedia_27379, circAtlas: mmu-Nin_0001
circBase: hsa_circ_0031880, circAtlas: hsa-NIN_0001, CIRCpedia: HSA_CIRCpedia_12316
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGCGCTGTGGGCTATGGGATGGATGAGGTGGAGGAGGACCAGCATGAAGCCCGACTCAAGGAGCTGTTTGACAGTTTTGACACCCTGGGAACTGGGTCTCTGGGTCAAGAGGAGCTCACTGACCTCTGCCACGTGCTGTGCTTGGAGGATGTGGGCCCGGTGCTGCAACAGACGCTACTCCAGGACAACCTCTTGGGCAGGGTACATTTTGACCAATTTAAAGAAGCATTAATACTTATCTTGTCTAGAACTCTATCCAGTGAGGAGCACTTTGAGGAGTCAGACTGTTCCCCAGAAGCTCAGCCCAAATATGTTAGAGGTGGGAAGCGTTATGGACGAAGATCACTGCCCGAGTTTCAAGAGTCTGGGGAAGAGATCGAGGAGGTGACAGTGCTTGAGCCACTAGAGGAAGAAGCGAGGTCATCACCCATCCCAGCTGGGGACTGCGGCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGAAGAGATCGAGGAGGT
60.11
AAACAGCTCCTTGAGTCGGG
59.96
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGGAAGAGATCGAGGAGG
60.11
AAACAGCTCCTTGAGTCGGG
59.96
160
PCR template sequence:
GTTTCAAGAGTCTGGGGAAGAGATCGAGGAGGTGACAGTGCTTGAGCCACTAGAGGAAGAAGCGAGGTCATCACCCATCCCAGCTGGGGACTGCGGCGAGGTGAGCGCTGTGGGCTATGGGATGGATGAGGTGGAGGAGGACCAGCATGAAGCCCGACTCAAGGAGCTGTTTGACAGTTTTGACACCCTGGGAACTGGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-155-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-34a-5p(1), mmu-miR-298-5p(1), mmu-miR-132-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACTGCGGCGAGGTGAGCGCTGTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNIN_456_ORF_1
1.1221
0.319078189
0.989611329
891
ORF sequence:
ATGGATGAGGTGGAGGAGGACCAGCATGAAGCCCGACTCAAGGAGCTGTTTGACAGTTTTGACACCCTGGGAACTGGGTCTCTGGGTCAAGAGGAGCTCACTGACCTCTGCCACGTGCTGTGCTTGGAGGATGTGGGCCCGGTGCTGCAACAGACGCTACTCCAGGACAACCTCTTGGGCAGGGTACATTTTGACCAATTTAAAGAAGCATTAATACTTATCTTGTCTAGAACTCTATCCAGTGAGGAGCACTTTGAGGAGTCAGACTGTTCCCCAGAAGCTCAGCCCAAATATGTTAGAGGTGGGAAGCGTTATGGACGAAGATCACTGCCCGAGTTTCAAGAGTCTGGGGAAGAGATCGAGGAGGTGACAGTGCTTGAGCCACTAGAGGAAGAAGCGAGGTCATCACCCATCCCAGCTGGGGACTGCGGCGAGGTGAGCGCTGTGGGCTATGGGATGGATGAGGTGGAGGAGGACCAGCATGAAGCCCGACTCAAGGAGCTGTTTGACAGTTTTGACACCCTGGGAACTGGGTCTCTGGGTCAAGAGGAGCTCACTGACCTCTGCCACGTGCTGTGCTTGGAGGATGTGGGCCCGGTGCTGCAACAGACGCTACTCCAGGACAACCTCTTGGGCAGGGTACATTTTGACCAATTTAAAGAAGCATTAATACTTATCTTGTCTAGAACTCTATCCAGTGAGGAGCACTTTGAGGAGTCAGACTGTTCCCCAGAAGCTCAGCCCAAATATGTTAGAGGTGGGAAGCGTTATGGACGAAGATCACTGCCCGAGTTTCAAGAGTCTGGGGAAGAGATCGAGGAGGTGACAGTGCTTGAGCCACTAGAGGAAGAAGCGAGGTCATCACCCATCCCAGCTGGGGACTGCGGCGAG
Peptide sequence:
MDEVEEDQHEARLKELFDSFDTLGTGSLGQEELTDLCHVLCLEDVGPVLQQTLLQDNLLGRVHFDQFKEALILILSRTLSSEEHFEESDCSPEAQPKYVRGGKRYGRRSLPEFQESGEEIEEVTVLEPLEEEARSSPIPAGDCGEVSAVGYGMDEVEEDQHEARLKELFDSFDTLGTGSLGQEELTDLCHVLCLEDVGPVLQQTLLQDNLLGRVHFDQFKEALILILSRTLSSEEHFEESDCSPEAQPKYVRGGKRYGRRSLPEFQESGEEIEEVTVLEPLEEEARSSPIPAGDCGE
IRESfinder result
IRESfinder score
0.507489881
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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