top of page
mmu_ciNav1_1512
Basic information of circular RNA
PanCircBase ID:
mmu_ciNav1_1512
mm39_Chr. Position ID:
chr1|135386569|135388081|-
Gene name:
Nav1
Transcript:
ENSMUST00000040599.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
1512
Exon/intron sizes in nt:
1512
Flanking exon/introns:
chr1:135386515-135388081
Splice length:
1512
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGATAGCAGTCAGAGTGAATGGAACTGAAAAAGGACAGAAGTGGAGGGAAGGAAGGTCGTTGTTGGGCCCACAGCACACCAACTCTCATATCTACTTTCTAGAAGGCGAGGGTCCTTAGGTACTCTTCAGTGTGATGTCTGGGTATCCAGTGAGGGGTGTTCTGAACATGACCTCATAAACCCTGAGGATGAGGGCAAGGAGAGGAAATTTGTAATCGCCACAGGCCTGCTACACTCTCCTCAGCCTTTAGACCAAAGCCAGAGACCAGTCAGAGATGTCTCAACAGGGCCTCATCATTTAACCCCGATTAGCCTGACACCCAACCACCCTGCTGTCATCAGTGCTGGGGTCATGGGTGCATGCCACCAGGCCCAGCTCAAGACTGTTCCTTTTTGTTTATTTTTAAATTTTTACTTTTTTTTTTTCCTTAAGGTTTTGAACAAGTACATATCCTATGTTGACTATTTTATCCCTCTGCCTCTCCTTTTCCCTTCTCAGCCCTCTCCCTTCCTGTCACCCTTCCCCCTCCCCTAGAGAGGCTTAGTTCTGCCTTCCTGACACATACAAGCCACATACTGTATGACATACTGTAAGACATATAAGCCACATACTGTAAGACATATATGACATACTGTAAGACAGCCAATTCTTGCTGGAGTATCATCAAAATATATTAGGTCATGGACCAAGAGCACAAGTTCAGAGCCAGCCTGGGTCACAGAGGCAGTTATAGATCAACCTGTGCTATGGAATGAGACCCTGTTTCAAGAAAAGGAAAAAAGAAAAGATGAACAACAAAAACTGATATGGTGCCTCATACATACAATCCTAGCACTTGGGAGGCAAGGCAGGAGCACTGTCACAAGTTCAAGACCAACCTGGTGTACATAGTGGCACTCTGCTAAAACACCGGCAGGCAGGCAGGCAGGCAGGCAGGCACAGGTAGAGGATGTCCGCATAAAAATGTTCAGGACCAGCTTTTTTACAACTAGCCAATCTGAGTTTATTACTAAATCCTTCTATTTCTTATCTACATTGGTGCTTCTTTTTGTTGTGGTTTTGTTTTTGTTTTATTTTTGCTTTGGAGAGGGTCTTGTTATATGACCCGGGCTAGCCCAGAACTCAAAATCCTGTGGCCTTCCAAGTGTTGGGCACTATCATGCCCAACTTGGACTGGGAGCTTTTTTTAGACAGGGTTTCTCTGTGTAGCCCTGGCTGCCCTGGGGCTCTCTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCTGCCTGCCTCTGCCTCCTGAGTGTTGGGATTAAAGGCGTGTACCACCACGCCCAGCTCAGGACTGGGAGCTTCTTGAGAATAGGAATTGTTCTTTTTTCACAGTTGCATCCTCTTCCGTGTTGAGGCATAACTGTAACTCTATAAATGTCCATTGGATGAATAATCCACCAAATTAGTGTGTACCTAGGAGTTGCTGGGCCCCCCCCCACTCTTATCTGCTGTAGCTAGCCTCTCCCTAAGCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTACCTAGGAGTTGCTGGGC
59.82
TGAGAGTTGGTGTGCTGTGG
60.18
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTACCTAGGAGTTGCTGGGC
59.82
GAGAGTTGGTGTGCTGTGGG
60.89
153
PCR template sequence:
AAATGTCCATTGGATGAATAATCCACCAAATTAGTGTGTACCTAGGAGTTGCTGGGCCCCCCCCCACTCTTATCTGCTGTAGCTAGCCTCTCCCTAAGCCGTAGGATAGCAGTCAGAGTGAATGGAACTGAAAAAGGACAGAAGTGGAGGGAAGGAAGGTCGTTGTTGGGCCCACAGCACACCAACTCTCATATCTACTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
Interacting miRNAs (#binding sites)
mmu-miR-101b-3p(4), mmu-miR-709(2), mmu-miR-431-5p(2), mmu-miR-297a-5p(2), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-298-5p(1), mmu-miR-132-3p(1), mmu-miR-320-3p(1), mmu-miR-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-214-3p(1), mmu-miR-411-3p(1), mmu-miR-501-3p(1), mmu-miR-212-3p(1), mmu-miR-758-3p(1), mmu-miR-215-5p(1), mmu-miR-410-3p(1), mmu-miR-207(1), mmu-miR-3065-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTCCCTAAGCCGTAGGATAGCAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.716191073
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page