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mmu_circPpfia1_444
Basic information of circular RNA
PanCircBase ID:
mmu_circPpfia1_444
mm39_Chr. Position ID:
chr7|144073281|144074798|-
Gene name:
Ppfia1
Transcript:
ENSMUST00000168134.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,431,1080,1415
Genomic length:
1517
Exon/intron sizes in nt:
10,27,51,65,102
Flanking exon/introns:
chr7:144073104-144073281|chr7:144074798-144106006
Splice length:
444
Other database IDs:
circAtlas: mmu-Ppfia1_0050
circAtlas: hsa-PPFIA1_0036, CIRCpedia: HSA_CIRCpedia_367086
Human Ortholog IDs:
Mature spliced Sequence:
GAGTTTGCTGCGCTCACGAAGGAACTCAATGTGTGCAGGGAGCAGCTTCTAGAGAGAGAGGAAGAAATCGCCGAGCTGAAGGCAGAGAGGAACAACACTAGGCTGCTGTTGGAGCACCTAGAGTGCCTTGTCTCCAGGCATGAGCGCTCTCTCCGGATGACAGTGGTAAAGAGGCAGGCACAGTCACCTGCAGGCGTGTCCAGTGAGGTGGAAGTGCTGAAAGCCCTGAAGTCACTGTTTGAACACCACAAAGCCTTGGATGAGAAGGTACGAGAGCGACTACGAGTGGCTCTGGAGAGGTGCAGCTTGTTAGAAGAGGAGCTGGGTGCCACCCACAAAGAGCTAATGATTCTTAAAGAACAGAATAATCAGAAGAAAACACTAACAGATGGACTGCTTGACGGAAACCATGAACAGGAAAGTGCACCAAGCACCAACGGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGATGGACTGCTTGACGGA
59.75
TGTTCCTCTCTGCCTTCAGC
59.68
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGATGGACTGCTTGACGGA
59.75
CCTTCAGCTCGGCGATTTCT
60.46
141
PCR template sequence:
AATGATTCTTAAAGAACAGAATAATCAGAAGAAAACACTAACAGATGGACTGCTTGACGGAAACCATGAACAGGAAAGTGCACCAAGCACCAACGGCAAGGAGTTTGCTGCGCTCACGAAGGAACTCAATGTGTGCAGGGAGCAGCTTCTAGAGAGAGAGGAAGAAATCGCCGAGCTGAAGGCAGAGAGGAACAACACTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
CACCAACGGCAAGGAGTTTGCTGCGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPFIA1_444_ORF_1
1.1421
0.36584902
0.974373763
732
ORF sequence:
ATGACAGTGGTAAAGAGGCAGGCACAGTCACCTGCAGGCGTGTCCAGTGAGGTGGAAGTGCTGAAAGCCCTGAAGTCACTGTTTGAACACCACAAAGCCTTGGATGAGAAGGTACGAGAGCGACTACGAGTGGCTCTGGAGAGGTGCAGCTTGTTAGAAGAGGAGCTGGGTGCCACCCACAAAGAGCTAATGATTCTTAAAGAACAGAATAATCAGAAGAAAACACTAACAGATGGACTGCTTGACGGAAACCATGAACAGGAAAGTGCACCAAGCACCAACGGCAAGGAGTTTGCTGCGCTCACGAAGGAACTCAATGTGTGCAGGGAGCAGCTTCTAGAGAGAGAGGAAGAAATCGCCGAGCTGAAGGCAGAGAGGAACAACACTAGGCTGCTGTTGGAGCACCTAGAGTGCCTTGTCTCCAGGCATGAGCGCTCTCTCCGGATGACAGTGGTAAAGAGGCAGGCACAGTCACCTGCAGGCGTGTCCAGTGAGGTGGAAGTGCTGAAAGCCCTGAAGTCACTGTTTGAACACCACAAAGCCTTGGATGAGAAGGTACGAGAGCGACTACGAGTGGCTCTGGAGAGGTGCAGCTTGTTAGAAGAGGAGCTGGGTGCCACCCACAAAGAGCTAATGATTCTTAAAGAACAGAATAATCAGAAGAAAACACTAACAGATGGACTGCTTGACGGAAACCATGAACAGGAAAGTGCACCAAGCACCAACGGCAAG
Peptide sequence:
MTVVKRQAQSPAGVSSEVEVLKALKSLFEHHKALDEKVRERLRVALERCSLLEEELGATHKELMILKEQNNQKKTLTDGLLDGNHEQESAPSTNGKEFAALTKELNVCREQLLEREEEIAELKAERNNTRLLLEHLECLVSRHERSLRMTVVKRQAQSPAGVSSEVEVLKALKSLFEHHKALDEKVRERLRVALERCSLLEEELGATHKELMILKEQNNQKKTLTDGLLDGNHEQESAPSTNGK
IRESfinder result
IRESfinder score
0.287612336
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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