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mmu_ciPpp1r2_1213
Basic information of circular RNA
PanCircBase ID:
mmu_ciPpp1r2_1213
mm39_Chr. Position ID:
chr16|31082909|31084122|-
Gene name:
Ppp1r2
Transcript:
ENSMUST00000060188.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1213
Exon/intron sizes in nt:
1213
Flanking exon/introns:
chr16:31080125-31084122
Splice length:
1213
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACGTGACGCACAGTCTTTCTTTTGTGGCTTATTTCCATTTGCCTAGTGATAACATTTTCTAAGTAGCAGATACTTTAAATCTGTCTTACAGTTCTTACTAGAGTGCTAGTTGATGATCTACCTGAATACATGTTTGCTAATACTCTAACTTCCCATTATTGCTGTAGTGAATATTTATTACACCTAGATGGTTGTTAGCTGCTGATACACACTAATTCCCCCTCATTTTTTTCATTGCTCTTATGTGTATATGTATATTATCATGTGTGAAGGTGTCTGAGGAGGCTACAAGCCAAAGTCAGATCACGGGAGCTGGAGTAGAGGTGGTGTGAGCTGCTTGGTTGAGTACTGACCAGTCTCAGGCCCTGGTGAGCAGCAAACGCTTTTGACTGCTGAGCCATCTTTCCGGCTCCAAGTTCTTTTTGAAAGGAAGATGAGGTTTTTGGTTCCCTGAGTAGAAAGCAGAGGCTTTCTTTGTTTAAAGGTGTTGGCCGAGGGGGAAGCTATATAGAAACAGTTTTGTGTTTTTATTTTATATGATTCTGTAGTTCTGATTTGTGATTTTGGATATGTTAAGTCTCAGAATTTTTATTTATTTTGAGATACGAACACACATATTTTTGGCTGACCTGGAATTTACCATATAGTTCAAGCCGACCTTGAAACCCTCTGGCTTCCTCCTGCATGCTAAGGGCATGAGCCACAGTGTCAGATAGAATTTTAAAAATAATCGTGAAGTAATACTATCGAGCAGTAACCAAAACGAGACAAAAATAATAAACACTAAGAGACAGTACAGATTCTAAATAGGTAGAACACTTAATGGAGATTGTGACTACATCTGTAAATCATGTGCATGTTTTTGTTTTGTTATGTTTTGTTATGTTTTGTTTTATAATTTTGTTGGTAGAATTTCATGAAACCCAGGCTAGCCTTGAGTTTGCTCTGTAGCTGAGGATGGTTTTGCTTTTCTGCTCTTCCTTCCTACATCTGTAATCCTGGACCTACAGGACCATGCCCAGTTTATGTGTTACCGGGGGCTTTGTAAATGTCAGGTGTGAGTTACATCAACAAAACAAGGCTATCTTTTAAATTAATGGGATAATGTGATGCTAATAAAAAAAGTACAAATACAGATAAAAATGTTAAAGTCCTTGACAGGAAGAAAGAATGAAACAGAAGATGCAGATAATGAAACTGAATAGTAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAATGTTAAAGTCCTTGACAGG
55.33
GCTACTTAGAAAATGTTATCACTAGGC
58.23
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAAATGTTAAAGTCCTTGACAGG
56.04
GCTACTTAGAAAATGTTATCACTAGGC
58.23
142
PCR template sequence:
TGCTAATAAAAAAAGTACAAATACAGATAAAAATGTTAAAGTCCTTGACAGGAAGAAAGAATGAAACAGAAGATGCAGATAATGAAACTGAATAGTAATGGTAACGTGACGCACAGTCTTTCTTTTGTGGCTTATTTCCATTTGCCTAGTGATAACATTTTCTAAGTAGCAGATACTTTAAATCTGTCTTACAGTTCTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-335-5p(1), mmu-miR-23a-3p(1), mmu-miR-24-3p(1), mmu-miR-136-5p(1), mmu-miR-466d-3p(1), mmu-miR-690(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAATAGTAATGGTAACGTGACGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPPP1R2_1213_ORF_3
1.1313
-0.045566569
0.067574549
105
ORF sequence:
ATGAAACAGAAGATGCAGATAATGAAACTGAATAGTAATGGTAACGTGACGCACAGTCTTTCTTTTGTGGCTTATTTCCATTTGCCTAGTGATAACATTTTCTAA
Peptide sequence:
MKQKMQIMKLNSNGNVTHSLSFVAYFHLPSDNIF
IRESfinder result
IRESfinder score
0.84604289
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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