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mmu_circFer_406
Basic information of circular RNA
PanCircBase ID:
mmu_circFer_406
mm39_Chr. Position ID:
chr17|64241284|64280152|+
Gene name:
Fer
Transcript:
ENSMUST00000232945.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,7001,38775
Genomic length:
38868
Exon/intron sizes in nt:
123,190,93
Flanking exon/introns:
chr17:64231173-64241284|chr17:64280152-64288477
Splice length:
406
Other database IDs:
circAtlas: mmu-Fer_0076
circAtlas: hsa-FER_0036, CIRCpedia: HSA_CIRCpedia_123604
Human Ortholog IDs:
Mature spliced Sequence:
GTTGAAGACTTTAGCGGAAGAGCTCACACAGACCCAGCAGATGCTTTTACACAAGGAGGCGGCCGTCCTGGAGCTAGAGAAGAGGATTGAAGAATCTTTTGAGACCTGTGAAAAGAAGTCTGACATTGTGCTTCTTCTGGGCCAAAAACAGGCACTTGAAGAGTTGAAACAGTCAGTCCAGCAGTTGCGATGCACTGAGGCAAAGTGTGCAGCACAGAAAGCTTTGCTGGAGCAAAAAGTACAGGAAAATGATGGGAAAGAACCACCTCCTGTGGTGAATTACGAAGAAGACGCGCGGTCAGTCACATCCATGGAAAGAAAGGAGAGGCTATCCAAATTTGAGTCTATTCGTCATTCAATTGCTGGGATAATTAAGTCTCCAAAGTCGGTACTCGGATCTTCAACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCATGGAAAGAAAGGAGAGGCT
60.03
CATCTGCTGGGTCTGTGTGA
59.68
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATGGAAAGAAAGGAGAGGC
60.03
CATCTGCTGGGTCTGTGTGA
59.68
142
PCR template sequence:
ATCCATGGAAAGAAAGGAGAGGCTATCCAAATTTGAGTCTATTCGTCATTCAATTGCTGGGATAATTAAGTCTCCAAAGTCGGTACTCGGATCTTCAACAGTTGAAGACTTTAGCGGAAGAGCTCACACAGACCCAGCAGATGCTTTTACACAAGGAGGCGGCCGTCCTGGAGCTAGAGAAGAGGATTGAAGAATCTTTT
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-152-3p(1), mmu-miR-148b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGGATCTTCAACAGTTGAAGACTTTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFER_406_ORF_1
0.9821
0.168990819
0.633168201
456
ORF sequence:
ATGCTTTTACACAAGGAGGCGGCCGTCCTGGAGCTAGAGAAGAGGATTGAAGAATCTTTTGAGACCTGTGAAAAGAAGTCTGACATTGTGCTTCTTCTGGGCCAAAAACAGGCACTTGAAGAGTTGAAACAGTCAGTCCAGCAGTTGCGATGCACTGAGGCAAAGTGTGCAGCACAGAAAGCTTTGCTGGAGCAAAAAGTACAGGAAAATGATGGGAAAGAACCACCTCCTGTGGTGAATTACGAAGAAGACGCGCGGTCAGTCACATCCATGGAAAGAAAGGAGAGGCTATCCAAATTTGAGTCTATTCGTCATTCAATTGCTGGGATAATTAAGTCTCCAAAGTCGGTACTCGGATCTTCAACAGTTGAAGACTTTAGCGGAAGAGCTCACACAGACCCAGCAGATGCTTTTACACAAGGAGGCGGCCGTCCTGGAGCTAGAGAAGAGGATTGA
Peptide sequence:
MLLHKEAAVLELEKRIEESFETCEKKSDIVLLLGQKQALEELKQSVQQLRCTEAKCAAQKALLEQKVQENDGKEPPPVVNYEEDARSVTSMERKERLSKFESIRHSIAGIIKSPKSVLGSSTVEDFSGRAHTDPADAFTQGGGRPGAREED
IRESfinder result
IRESfinder score
0.562644535
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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