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mmu_ciPpp1r12a_598
Basic information of circular RNA
PanCircBase ID:
mmu_ciPpp1r12a_598
mm39_Chr. Position ID:
chr10|108076040|108076638|+
Gene name:
Ppp1r12a
Transcript:
ENSMUST00000219263.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
598
Exon/intron sizes in nt:
598
Flanking exon/introns:
chr10:108076040-108076639
Splice length:
598
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTTTAACTGCTAAAAATACTTATATTAATGAGTTCTCTATAGCTTTGAATTTCAAGCGTTTTCGGTGTTCTGGTAATGTTTCTTACTTCTTACCTTCGTAATCAAACACAATGACAGTGGGCTTGAATGCGGGCTGCTGCTGCTGGGCGCTCATAATATTGGTTGCCTATTTCTCTGTCTTGCTTTCTAAAAAACTGAGTATTTATAGCATGCTTTTCTAATTTCCTAAGACAACATGCTTAGTGGTGTTATAGTAAACTGAGTTTATAATAGCAGGCCCAAACAAATAAGGAACTTCATAACTAGGAAACGGATTCTACATAAGTTCCTGTCAACACCCACCTTACGTAGTCAGTGGGCGCTGACTTCTTTGTGAACTGAAGTTAGACGGGTTAAGCTTTTCTTTTTATTATTGGTTAGAATTACTGGGTTGTGGTGTTGTTTACAAATTGCCAAGTGTTTTTCAAGCTTTTCCTTTGCAGCTAAAATTTAGATCTTTTTATAATGCCACTTTTTAAAACTCTGTTCTCCTTGTACTTTGTACTTTGCTACTTCATGCCACCCTTCCTGTTTCTTCACATAATTGTGAATAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCTGTTCTCCTTGTACTTTGT
57.38
ACCAGAACACCGAAAACGCT
60.46
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCTGTTCTCCTTGTACTTTGT
57.38
CCAGAACACCGAAAACGCTT
59.34
152
PCR template sequence:
TCTTTTTATAATGCCACTTTTTAAAACTCTGTTCTCCTTGTACTTTGTACTTTGCTACTTCATGCCACCCTTCCTGTTTCTTCACATAATTGTGAATAAAGTATGTTTAACTGCTAAAAATACTTATATTAATGAGTTCTCTATAGCTTTGAATTTCAAGCGTTTTCGGTGTTCTGGTAATGTTTCTTACTTCTTACCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-146a-5p(1), mmu-miR-30c-5p(1), mmu-miR-30d-5p(1), mmu-let-7d-5p(1), mmu-miR-30b-5p(1), mmu-miR-494-3p(1), mmu-miR-182-5p(1), mmu-miR-5101(1), mmu-miR-146b-5p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATTGTGAATAAAGTATGTTTAACTG
siRNA sets
TTAAACATACTTTATTCAC, TAAACATACTTTATTCACA, GTTAAACATACTTTATTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPPP1R12A_598_ORF_1
0.5478
-0.299257706
0.016811751
195
ORF sequence:
ATGCCACTTTTTAAAACTCTGTTCTCCTTGTACTTTGTACTTTGCTACTTCATGCCACCCTTCCTGTTTCTTCACATAATTGTGAATAAAGTATGTTTAACTGCTAAAAATACTTATATTAATGAGTTCTCTATAGCTTTGAATTTCAAGCGTTTTCGGTGTTCTGGTAATGTTTCTTACTTCTTACCTTCGTAA
Peptide sequence:
MPLFKTLFSLYFVLCYFMPPFLFLHIIVNKVCLTAKNTYINEFSIALNFKRFRCSGNVSYFLPS
IRESfinder result
IRESfinder score
0.898561444
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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