top of page
mmu_ciNoc3l_734
Basic information of circular RNA
PanCircBase ID:
mmu_ciNoc3l_734
mm39_Chr. Position ID:
chr19|38782681|38783415|-
Gene name:
Noc3l
Transcript:
ENSMUST00000025963.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
17
Exon/intron offsets:
0
Genomic length:
734
Exon/intron sizes in nt:
734
Flanking exon/introns:
chr19:38782677-38783415
Splice length:
734
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAAGAGCATAAAGAGGCAGAGCTTAGGTCTCACGGTGTCCTGGTACTGTGCTTGTTTGTATGCATCTCTTTCCCTTGAATGTTTCCTTTTTATTATAAAGTAATTCCTAGCCAGATGCAGTGGATCATGCCTGTAGTTACATAGGATACTGATGCTGAAAGACTGCTCAAGCCCACAAGTTTCAGGCCACCCTGAGCAGCAGATACATGTGAGTTTGAGACAAGGCTGGTCTGCGTAGTTCATTCCTGGCCAGCCAGTGCTACACAGTGACACCCTGACTCAAAAGACACTGCTGGTAGACTGTAAAAACAGAGCAGCAGGTGTGCTCTCGTTACTGCCCTGCCTGCTTCCCTTATGCAGGGTGCTCTTTAAACTACAGTGGATTTAAGAAATGGGTAGCACTAGGATTTGCACTCACACAGCTTGACATAGACATTGCTGTTATAAATGATGTTCTGACCAATGTTGGTACATTCAGTGTTTATCTGTAAGAGAGGTCCCGTAAAGTGAGATTGGAAGATGTGACAAATATGCCACCTTTGCAGATGGAGTAAATCTCTATAAACCAAGACATTCTGTCATGATACACATGTAAACTGTTTCTTGTTAAAGCTAGGTTTAAAGATGTTAAAATTGTAGCTCTTACTGTAACTGCAAATTTAAATACAACTATAGGACAGTCACATTCCTTAAGATACCTTAGTTAATTCTTTTTTATGTGATGTTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTAGCTCTTACTGTAACTGCA
56.87
GGACACCGTGAGACCTAAGC
60.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTAGCTCTTACTGTAACTGCA
56.87
AGTACCAGGACACCGTGAGA
59.89
147
PCR template sequence:
AAAATTGTAGCTCTTACTGTAACTGCAAATTTAAATACAACTATAGGACAGTCACATTCCTTAAGATACCTTAGTTAATTCTTTTTTATGTGATGTTTTTGTAAGTAAGAGCATAAAGAGGCAGAGCTTAGGTCTCACGGTGTCCTGGTACTGTGCTTGTTTGTATGCATCTCTTTCCCTTGAATGTTTCCTTTTTATTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-19b-3p(1), mmu-miR-101a-3p(1), mmu-miR-19a-3p(1), mmu-miR-217-5p(1), mmu-miR-494-3p(1), mmu-miR-301b-3p(1), mmu-miR-194-5p(1), mmu-miR-511-3p(1), mmu-miR-301a-3p(1), mmu-miR-802-5p(1), mmu-miR-3087-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGTGATGTTTTTGTAAGTAAGAGCA
siRNA sets
TACTTACAAAAACATCACA
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
0.8313924
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page