top of page
mmu_ciCommd3_339
Basic information of circular RNA
PanCircBase ID:
mmu_ciCommd3_339
mm39_Chr. Position ID:
chr2|18679126|18679465|+
Gene name:
Commd3
Transcript:
ENSMUST00000171845.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
339
Exon/intron sizes in nt:
339
Flanking exon/introns:
chr2:18679126-18679466
Splice length:
339
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTACTGTGTTAGGTGTCAAGCTGCGGAGCTTTTCCCTTGTGGGTAAGGAATGGAGTGTGCTGATGGGAAACAAAACTGAGCCAAAAAAATTGGGATCCTGACCCAAAATAAAGGGCCAAAGGGCAAGTGGAATAATTGAAGTTAAGCTAATGTTTTTTTCAAGATAGAGCCTGACATAATCTTAGTAGGTGTGCTTTCACTCTTTTGAACTTGAAGATGAGGTTCAACAGTCTTTAAGTTCAGAGTGGAATGAAACGAGTTAAGAAGAGAAAGACACCATTGAGAAAATCCTGAAAGTTTTTCTGTAGATACTACAAAATTATCATTGTCTTTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAGTGGAATGAAACGAGT
56.97
TTTCCCATCAGCACACTCCA
59.23
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCAGAGTGGAATGAAACGAGT
58.94
TTTCCCATCAGCACACTCCA
59.23
172
PCR template sequence:
AAGTTCAGAGTGGAATGAAACGAGTTAAGAAGAGAAAGACACCATTGAGAAAATCCTGAAAGTTTTTCTGTAGATACTACAAAATTATCATTGTCTTTCAGTAGGTACTGTGTTAGGTGTCAAGCTGCGGAGCTTTTCCCTTGTGGGTAAGGAATGGAGTGTGCTGATGGGAAACAAAACTGAGCCAAAAAAATTGGGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-24-3p(1), mmu-miR-136-5p(1), mmu-miR-434-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCATTGTCTTTCAGTAGGTACTGTGT
siRNA sets
TACCTACTGAAAGACAATG
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
0.821986346
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page