top of page
mmu_ciKlf3_216
Basic information of circular RNA
PanCircBase ID:
mmu_ciKlf3_216
mm39_Chr. Position ID:
chr5|64984225|64984441|+
Gene name:
Klf3
Transcript:
ENSMUST00000200384.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
216
Exon/intron sizes in nt:
216
Flanking exon/introns:
chr5:64984225-64984452
Splice length:
216
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGCTCGCTACATGTTTGTTGAATGAATATAAATGCAGCGCTTCTTGGGTTGAACAGCTCATTCTTTTTTCTTTTTCTTTTTTTTTTTTATTGTTTTTTTTTTTTTCCGTTGGGGGTTTTGTTTGTTTTTGCCCGATGTTGTAAATGCTTTTTATTTTTAGTAGACTTGAGGGAAGGGAAGCACCTTTTCTCAATGCTTTGCACTTAATCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCCGATGTTGTAAATGCT
58.17
GTTCAACCCAAGAAGCGCTG
60.04
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCCGATGTTGTAAATGCT
58.17
CTGTTCAACCCAAGAAGCGC
60.04
144
PCR template sequence:
GGGGTTTTGTTTGTTTTTGCCCGATGTTGTAAATGCTTTTTATTTTTAGTAGACTTGAGGGAAGGGAAGCACCTTTTCTCAATGCTTTGCACTTAATCTTGTAGGTGCTCGCTACATGTTTGTTGAATGAATATAAATGCAGCGCTTCTTGGGTTGAACAGCTCATTCTTTTTTCTTTTTCTTTTTTTTTTTTATTGTTT
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-19b-3p(1), mmu-miR-130a-3p(1), mmu-miR-19a-3p(1), mmu-miR-495-3p(1), mmu-miR-191-5p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCACTTAATCTTGTAGGTGCTCGCT
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
0.98524034
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page