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mmu_circPpp4r1_243
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp4r1_243
mm39_Chr. Position ID:
chr17|66110154|66110961|+
Gene name:
Ppp4r1
Transcript:
ENSMUST00000073104.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,700
Genomic length:
807
Exon/intron sizes in nt:
1,36,107
Flanking exon/introns:
chr17:66090663-66110154|chr17:66110961-66117532
Splice length:
243
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216019, circAtlas: mmu-Ppp4r1_0005
circBase: hsa_circ_0006707, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_24504
Human Ortholog IDs:
Mature spliced Sequence:
TTGATGTGGATGACTACAGCTCAGAGTCTGATGTGATTATTATACCTTCAGCCCTGGACTTCGTCTCACAAGATGAAATGTTGACACCCTTGGGGAGGCTGGACAAGTATGCTGCAAGTGAGAACGTATTTAACAGACAAATGGTGGCCCGGAGTTTGCTGGATACTCTGAGGGAAGTCTGCGATGATGAGAGAGACTGCATTGCTGTCTTGGAAAGAATTAGCCGATTAGCTGATGACTCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCTGAGGGAAGTCTGCGA
60.25
CTCCCCAAGGGTGTCAACAT
59.59
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCTGAGGGAAGTCTGCGA
60.25
TCCCCAAGGGTGTCAACATT
59.14
175
PCR template sequence:
GTGGCCCGGAGTTTGCTGGATACTCTGAGGGAAGTCTGCGATGATGAGAGAGACTGCATTGCTGTCTTGGAAAGAATTAGCCGATTAGCTGATGACTCCGTTGATGTGGATGACTACAGCTCAGAGTCTGATGTGATTATTATACCTTCAGCCCTGGACTTCGTCTCACAAGATGAAATGTTGACACCCTTGGGGAGGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGATGACTCCGTTGATGTGGATGA
siRNA sets
ACATCAACGGAGTCATCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP4R1_243_ORF_1
1.078
0.265407026
0.68559664
408
ORF sequence:
ATGTTGACACCCTTGGGGAGGCTGGACAAGTATGCTGCAAGTGAGAACGTATTTAACAGACAAATGGTGGCCCGGAGTTTGCTGGATACTCTGAGGGAAGTCTGCGATGATGAGAGAGACTGCATTGCTGTCTTGGAAAGAATTAGCCGATTAGCTGATGACTCCGTTGATGTGGATGACTACAGCTCAGAGTCTGATGTGATTATTATACCTTCAGCCCTGGACTTCGTCTCACAAGATGAAATGTTGACACCCTTGGGGAGGCTGGACAAGTATGCTGCAAGTGAGAACGTATTTAACAGACAAATGGTGGCCCGGAGTTTGCTGGATACTCTGAGGGAAGTCTGCGATGATGAGAGAGACTGCATTGCTGTCTTGGAAAGAATTAGCCGATTAGCTGATGACTCC
Peptide sequence:
MLTPLGRLDKYAASENVFNRQMVARSLLDTLREVCDDERDCIAVLERISRLADDSVDVDDYSSESDVIIIPSALDFVSQDEMLTPLGRLDKYAASENVFNRQMVARSLLDTLREVCDDERDCIAVLERISRLADDS
IRESfinder result
IRESfinder score
0.368689839
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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