top of page
mmu_circNsun3_373
Basic information of circular RNA
PanCircBase ID:
mmu_circNsun3_373
mm39_Chr. Position ID:
chr16|62589969|62596746|-
Gene name:
Nsun3
Transcript:
ENSMUST00000143314.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,1051,6681
Genomic length:
6777
Exon/intron sizes in nt:
122,155,96
Flanking exon/introns:
chr16:62555781-62589969|chr16:62596746-62606150
Splice length:
373
Other database IDs:
circAtlas: mmu-Nsun3_0003
Human Ortholog IDs:
Mature spliced Sequence:
TACTGGCTCTGGAACTGAGAGACGGGGAGGCAGTCCTGGACTTGTGTGCTGCTCCTGGAGGCAAATCCGTAGCTCTGCTGCAATGTGCTTATCCAGGTTATCTTCTCTGTAACGAGTATGATCGCCCGAGAGGAAGATGGCTGAGACAGACGTTGGAATCTTTCATCCCACAGCCTTTGATAAATGTAATTAAAGTGTCTGAATTGGATGGCAGAGAAATGGGAGATGCCCAGCCTGCAACATTTGACAAGGTGTTAGTTGACGCTCCATGTTCAAATGATCGAAGCTGGCTGTTCTCGTCGGACTCTCAGAAAGCTGCCTATAGGATCCATCAAAGGAAGAATTTGCCTGTCCTACAGGTAGAACTCGTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGTTCTCGTCGGACTCTC
60.18
GCACATTGCAGCAGAGCTAC
59.9
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGGACTCTCAGAAAGCTGC
59.76
GCACATTGCAGCAGAGCTAC
59.9
162
PCR template sequence:
CAAATGATCGAAGCTGGCTGTTCTCGTCGGACTCTCAGAAAGCTGCCTATAGGATCCATCAAAGGAAGAATTTGCCTGTCCTACAGGTAGAACTCGTAAGTACTGGCTCTGGAACTGAGAGACGGGGAGGCAGTCCTGGACTTGTGTGCTGCTCCTGGAGGCAAATCCGTAGCTCTGCTGCAATGTGCTTATCCAGGTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-541-5p(1), mmu-miR-490-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGAACTCGTAAGTACTGGCTCTGGA
siRNA sets
CAGAGCCAGTACTTACGAG, AGAGCCAGTACTTACGAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNSUN3_373_ORF_1
0.4496
-0.01299069
0.072369206
267
ORF sequence:
ATGGGAGATGCCCAGCCTGCAACATTTGACAAGGTGTTAGTTGACGCTCCATGTTCAAATGATCGAAGCTGGCTGTTCTCGTCGGACTCTCAGAAAGCTGCCTATAGGATCCATCAAAGGAAGAATTTGCCTGTCCTACAGGTAGAACTCGTAAGTACTGGCTCTGGAACTGAGAGACGGGGAGGCAGTCCTGGACTTGTGTGCTGCTCCTGGAGGCAAATCCGTAGCTCTGCTGCAATGTGCTTATCCAGGTTATCTTCTCTGTAA
Peptide sequence:
MGDAQPATFDKVLVDAPCSNDRSWLFSSDSQKAAYRIHQRKNLPVLQVELVSTGSGTERRGGSPGLVCCSWRQIRSSAAMCLSRLSSL
IRESfinder result
IRESfinder score
0.428526931
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page