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mmu_circFarp2_457
Basic information of circular RNA
PanCircBase ID:
mmu_circFarp2_457
mm39_Chr. Position ID:
chr1|93495138|93502188|+
Gene name:
Farp2
Transcript:
ENSMUST00000120301.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,1664,2456,6954
Genomic length:
7050
Exon/intron sizes in nt:
98,115,148,96
Flanking exon/introns:
chr1:93491109-93495138|chr1:93502188-93504091
Splice length:
457
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34547, circAtlas: mmu-Farp2_0002
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTACCTGTTTGCCTTGCAACTCAAGAGAGACCTCCTGGAGGAACGCCTGACCTGCACGGCCAACACTGCAGCCCTTCTCATATCCCACCTTCTGCAGTCGGAAATCGGAGATTATGATGAAACCCTGGATCGAGAACACCTCAAAGCCAATGAATACTTGCCCAACCAGGAGAAATCTCTAGAAAAGATACTAGACTTCCATCAGAGGCACACGGGCCAGACTCCTGCAGAGTCAGATTTCCAGGTGCTTGAGATTGCAAGGAAGCTGGAAATGTATGGCATCAGGTTTCACATGGCTTCTGACAGAGAAGGGACCAAGATTAATCTAGCAGTTTCTCACATGGGTGTCCTGGTGTTCCAGGGTACCACCAAAATCAATACCTTCAACTGGTCCAAAGTCCGTAAACTAAGCTTCAAGAGAAAAAGGTTTCTTATCAAACTCCACCCTGAGGTCCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAACTGGTCCAAAGTCCGT
59.17
ATGAGAAGGGCTGCAGTGTT
59.6
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAACTGGTCCAAAGTCCGT
59.17
TGAGAAGGGCTGCAGTGTTG
60.54
154
PCR template sequence:
CCAGGGTACCACCAAAATCAATACCTTCAACTGGTCCAAAGTCCGTAAACTAAGCTTCAAGAGAAAAAGGTTTCTTATCAAACTCCACCCTGAGGTCCATGTACCTGTTTGCCTTGCAACTCAAGAGAGACCTCCTGGAGGAACGCCTGACCTGCACGGCCAACACTGCAGCCCTTCTCATATCCCACCTTCTGCAGTCG
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-216a-5p(1), mmu-miR-127-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTGAGGTCCATGTACCTGTTTGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFARP2_457_ORF_1
1.2224
0.293441089
0.820657509
459
ORF sequence:
ATGTACCTGTTTGCCTTGCAACTCAAGAGAGACCTCCTGGAGGAACGCCTGACCTGCACGGCCAACACTGCAGCCCTTCTCATATCCCACCTTCTGCAGTCGGAAATCGGAGATTATGATGAAACCCTGGATCGAGAACACCTCAAAGCCAATGAATACTTGCCCAACCAGGAGAAATCTCTAGAAAAGATACTAGACTTCCATCAGAGGCACACGGGCCAGACTCCTGCAGAGTCAGATTTCCAGGTGCTTGAGATTGCAAGGAAGCTGGAAATGTATGGCATCAGGTTTCACATGGCTTCTGACAGAGAAGGGACCAAGATTAATCTAGCAGTTTCTCACATGGGTGTCCTGGTGTTCCAGGGTACCACCAAAATCAATACCTTCAACTGGTCCAAAGTCCGTAAACTAAGCTTCAAGAGAAAAAGGTTTCTTATCAAACTCCACCCTGAGGTCCAT
Peptide sequence:
MYLFALQLKRDLLEERLTCTANTAALLISHLLQSEIGDYDETLDREHLKANEYLPNQEKSLEKILDFHQRHTGQTPAESDFQVLEIARKLEMYGIRFHMASDREGTKINLAVSHMGVLVFQGTTKINTFNWSKVRKLSFKRKRFLIKLHPEVH
IRESfinder result
IRESfinder score
0.584285832
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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