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mmu_circFarp2_592
Basic information of circular RNA
PanCircBase ID:
mmu_circFarp2_592
mm39_Chr. Position ID:
chr1|93496802|93504613|+
Gene name:
Farp2
Transcript:
ENSMUST00000120301.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,8,9,10,11
Exon/intron offsets:
0,792,5290,7289,7742
Genomic length:
7811
Exon/intron sizes in nt:
115,148,96,164,69
Flanking exon/introns:
chr1:93495236-93496802|chr1:93504613-93505369
Splice length:
592
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_135463
Human Ortholog IDs:
Mature spliced Sequence:
CGGAAATCGGAGATTATGATGAAACCCTGGATCGAGAACACCTCAAAGCCAATGAATACTTGCCCAACCAGGAGAAATCTCTAGAAAAGATACTAGACTTCCATCAGAGGCACACGGGCCAGACTCCTGCAGAGTCAGATTTCCAGGTGCTTGAGATTGCAAGGAAGCTGGAAATGTATGGCATCAGGTTTCACATGGCTTCTGACAGAGAAGGGACCAAGATTAATCTAGCAGTTTCTCACATGGGTGTCCTGGTGTTCCAGGGTACCACCAAAATCAATACCTTCAACTGGTCCAAAGTCCGTAAACTAAGCTTCAAGAGAAAAAGGTTTCTTATCAAACTCCACCCTGAGGTCCATGGGCCCTACCAGGACACGTTAGAGTTCTTGTTGGGTAGCAGAGATGAATGTAAGAACTTCTGGAAGATATGTGTGGAGTACCATACCTTTTTTAGACTCTCTGACCAGCCTAAGCCAAAGGCAAAGGCTGTCTTCTTCAGCCGAGGCTCCTCCTTCAGATACAGTGGAAGAACTCAGAAACAACTAGTAGATTATGTCAAAGACGGTGGAATGAAGAGAATTCCATACGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCTCCTCCTTCAGATACAGT
60.02
TTTCTCCTGGTTGGGCAAGT
59.44
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCTCCTTCAGATACAGTGG
59.9
TTTCTCCTGGTTGGGCAAGT
59.44
165
PCR template sequence:
TCTTCAGCCGAGGCTCCTCCTTCAGATACAGTGGAAGAACTCAGAAACAACTAGTAGATTATGTCAAAGACGGTGGAATGAAGAGAATTCCATACGAAAGCGGAAATCGGAGATTATGATGAAACCCTGGATCGAGAACACCTCAAAGCCAATGAATACTTGCCCAACCAGGAGAAATCTCTAGAAAAGATACTAGACTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-205-5p(1), mmu-miR-216a-5p(1), mmu-miR-181b-5p(1), mmu-miR-127-5p(1), mmu-miR-540-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCATACGAAAGCGGAAATCGGAGA
siRNA sets
GATTTCCGCTTTCGTATGG, TCTCCGATTTCCGCTTTCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFARP2_592_ORF_1
0.7261
0.102471234
0.415612574
438
ORF sequence:
ATGTATGGCATCAGGTTTCACATGGCTTCTGACAGAGAAGGGACCAAGATTAATCTAGCAGTTTCTCACATGGGTGTCCTGGTGTTCCAGGGTACCACCAAAATCAATACCTTCAACTGGTCCAAAGTCCGTAAACTAAGCTTCAAGAGAAAAAGGTTTCTTATCAAACTCCACCCTGAGGTCCATGGGCCCTACCAGGACACGTTAGAGTTCTTGTTGGGTAGCAGAGATGAATGTAAGAACTTCTGGAAGATATGTGTGGAGTACCATACCTTTTTTAGACTCTCTGACCAGCCTAAGCCAAAGGCAAAGGCTGTCTTCTTCAGCCGAGGCTCCTCCTTCAGATACAGTGGAAGAACTCAGAAACAACTAGTAGATTATGTCAAAGACGGTGGAATGAAGAGAATTCCATACGAAAGCGGAAATCGGAGATTATGA
Peptide sequence:
MYGIRFHMASDREGTKINLAVSHMGVLVFQGTTKINTFNWSKVRKLSFKRKRFLIKLHPEVHGPYQDTLEFLLGSRDECKNFWKICVEYHTFFRLSDQPKPKAKAVFFSRGSSFRYSGRTQKQLVDYVKDGGMKRIPYESGNRRL
IRESfinder result
IRESfinder score
0.574565355
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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