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mmu_ciMrps18b_858
Basic information of circular RNA
PanCircBase ID:
mmu_ciMrps18b_858
mm39_Chr. Position ID:
chr17|36222371|36223229|-
Gene name:
Mrps18b
Transcript:
ENSMUST00000174807.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
858
Exon/intron sizes in nt:
858
Flanking exon/introns:
chr17:36221743-36223229
Splice length:
858
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTAGCTTGGCCCTCCTGTTATGACTTCTATAGTTTTTCCGTGGAGCTCCTTATTATGGGGTTGGGAGGTAGACATTCCTTTGATAGCTCCTATAAATAATAGCACACAGAAGTTTTTGTTTAATGAGAACCATCATTACGATAAAACAGTTAAATGTAGACAAAAGACTAAAGTTTTAGAGCCTCCCTGTAGGAGTGAGGGCTGTCTAAATGTACTTTAAAAGGTAAAGCGTGCCTTAAACTGTGAGTTTGGGGTCAGCCTGGTCTACATAGTGAGTTCCAAGACAGCCAGGGCTACATAGACTCCGGCTCAACCTTTTTTTTTTTTTTTAAAGGTGAACAGCTTGCTTCCTTGTAAAGTTTTCCACCTATCAGTCTATAAATTTGTGTGTATGTGTGTGTGACAGGGTTTCTCTGTACAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCTGAGTGCTGGGATTAAAGGCGTGTGCCACCATGCCCGGCGATATGTCCCTTTTGTCAGAGTTTTTTTGTTGTCAGCCTACAGAGTGGAGCTGGGAATAATTGCTACTCTGTCACATTCCCTAATTTGAAATCACTTCTTATAAGATCTTTTTCTGTGGATTTTCCAAGTCAGCCTTAACCACATTTGTCATTGAGTCATCTTCTGGCCCATCTGTAGGCTCTGTCATTCCATGACATCTCTGTAGTGGCTGGACATCCAGGCAGATACAGGTCAGGGCCCTGGGGCATTAAATGGTCAGCTGTCTCTGTGTAGAAGACTTGCTGCTGTGTGGGACGCTGTCCAGGTTGACGTTTCTCTCCGTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGGCATTAAATGGTCAGCT
59.99
TGTCTACCTCCCAACCCCAT
59.88
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGGCATTAAATGGTCAGCT
59.99
ATGTCTACCTCCCAACCCCA
59.88
159
PCR template sequence:
GATACAGGTCAGGGCCCTGGGGCATTAAATGGTCAGCTGTCTCTGTGTAGAAGACTTGCTGCTGTGTGGGACGCTGTCCAGGTTGACGTTTCTCTCCGTAGTTAGCTTGGCCCTCCTGTTATGACTTCTATAGTTTTTCCGTGGAGCTCCTTATTATGGGGTTGGGAGGTAGACATTCCTTTGATAGCTCCTATAAATAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-3470b(2), mmu-miR-124-3p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-150-5p(1), mmu-miR-322-5p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-185-5p(1), mmu-miR-466d-3p(1), mmu-miR-377-3p(1), mmu-miR-3087-3p(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1), mmu-miR-466b-3p(1), mmu-miR-490-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTCTCTCCGTAGTTAGCTTGGCCC
siRNA sets
CAAGCTAACTACGGAGAGA, AAGCTAACTACGGAGAGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIMRPS18B_858_ORF_3
1.0444
-0.12364504
0.040943723
96
ORF sequence:
ATGGTCAGCTGTCTCTGTGTAGAAGACTTGCTGCTGTGTGGGACGCTGTCCAGGTTGACGTTTCTCTCCGTAGTTAGCTTGGCCCTCCTGTTATGA
Peptide sequence:
MVSCLCVEDLLLCGTLSRLTFLSVVSLALLL
IRESfinder result
IRESfinder score
0.836446751
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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