top of page
mmu_circ5430416N02Rik_211
Basic information of circular RNA
PanCircBase ID:
mmu_circ5430416N02Rik_211
mm39_Chr. Position ID:
chr5|100574594|100577097|-
Gene name:
5430416N02Rik
Transcript:
ENSMUST00000181873.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,2361
Genomic length:
2503
Exon/intron sizes in nt:
69,142
Flanking exon/introns:
chr5:100569900-100574594|chr5:100577097-100577184
Splice length:
211
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCACGGATGGCGAGGGGGCACAGGAGCTCTCGATGTGACCTGGCGCTGTGGATGTGATGCACAGCAGCTTGAGTGGGACTGCTCCGCTGTCCTCATGAGAGAACGCTTTTTCTGAAGATGGGAGGTGGCTAATGAAAGAAGGAATTGTGTTCTCGGTGATGCCTGGAAGAGATGCGTGACGTTGGAAGATGATTACGAAATACAGGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGAAGATGGGAGGTGGCT
60.25
AGGTCACATCGAGAGCTCCT
60.03
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGAAGATGGGAGGTGGCT
60.25
GGTCACATCGAGAGCTCCTG
59.9
141
PCR template sequence:
TCTGAAGATGGGAGGTGGCTAATGAAAGAAGGAATTGTGTTCTCGGTGATGCCTGGAAGAGATGCGTGACGTTGGAAGATGATTACGAAATACAGGAAAGGTCACGGATGGCGAGGGGGCACAGGAGCTCTCGATGTGACCTGGCGCTGTGGATGTGATGCACAGCAGCTTGAGTGGGACTGCTCCGCTGTCCTCATGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AAATACAGGAAAGGTCACGGATGGCG
siRNA sets
ATCCGTGACCTTTCCTGTA,CATCCGTGACCTTTCCTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC5430416N02RIK_211_ORF_1
0.5603
0.088793705
0.054569231
138
ORF sequence:
ATGATTACGAAATACAGGAAAGGTCACGGATGGCGAGGGGGCACAGGAGCTCTCGATGTGACCTGGCGCTGTGGATGTGATGCACAGCAGCTTGAGTGGGACTGCTCCGCTGTCCTCATGAGAGAACGCTTTTTCTGA
Peptide sequence:
MITKYRKGHGWRGGTGALDVTWRCGCDAQQLEWDCSAVLMRERFF
IRESfinder result
IRESfinder score
0.098775524
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page