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mmu_circEfna5_293
Basic information of circular RNA
PanCircBase ID:
mmu_circEfna5_293
mm39_Chr. Position ID:
chr17|62957836|62958129|-
Gene name:
Efna5
Transcript:
ENSMUST00000076840.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
293
Exon/intron sizes in nt:
293
Flanking exon/introns:
chr17:62920897-62957836|chr17:62958129-63188000
Splice length:
293
Other database IDs:
CIRCpedia: MMU_CIRCpedia_36665, circAtlas: mmu-Efna5_0001
CIRCpedia: HSA_CIRCpedia_49757
Human Ortholog IDs:
Mature spliced Sequence:
ATTCCAGAGGGGTGACTACCACATTGATGTCTGTATCAATGACTACCTGGATGTTTTCTGCCCTCACTATGAGGACTCTGTCCCAGAAGACAAGACTGAGCGCTACGTCCTGTACATGGTGAATTTTGATGGGTACAGTGCCTGCGACCACACGTCCAAAGGGTTCAAGAGATGGGAATGTAACCGGCCTCACTCCCCAAACGGACCGCTGAAGTTCTCGGAAAAATTCCAGCTCTTCACTCCCTTTTCTTTAGGATTTGAATTCAGGCCAGGCCGAGAGTATTTCTACATCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACCGCTGAAGTTCTCGGAA
60.04
AGGGCAGAAAACATCCAGGT
59.22
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAACGGACCGCTGAAGTTCT
59.89
AGGGCAGAAAACATCCAGGT
59.22
159
PCR template sequence:
TCCCCAAACGGACCGCTGAAGTTCTCGGAAAAATTCCAGCTCTTCACTCCCTTTTCTTTAGGATTTGAATTCAGGCCAGGCCGAGAGTATTTCTACATCTATTCCAGAGGGGTGACTACCACATTGATGTCTGTATCAATGACTACCTGGATGTTTTCTGCCCTCACTATGAGGACTCTGTCCCAGAAGACAAGACTGAG
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
TATTTCTACATCTATTCCAGAGGGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEFNA5_293_ORF_1
0.9943
0.049740376
0.261246029
300
ORF sequence:
ATGGTGAATTTTGATGGGTACAGTGCCTGCGACCACACGTCCAAAGGGTTCAAGAGATGGGAATGTAACCGGCCTCACTCCCCAAACGGACCGCTGAAGTTCTCGGAAAAATTCCAGCTCTTCACTCCCTTTTCTTTAGGATTTGAATTCAGGCCAGGCCGAGAGTATTTCTACATCTATTCCAGAGGGGTGACTACCACATTGATGTCTGTATCAATGACTACCTGGATGTTTTCTGCCCTCACTATGAGGACTCTGTCCCAGAAGACAAGACTGAGCGCTACGTCCTGTACATGGTGA
Peptide sequence:
MVNFDGYSACDHTSKGFKRWECNRPHSPNGPLKFSEKFQLFTPFSLGFEFRPGREYFYIYSRGVTTTLMSVSMTTWMFSALTMRTLSQKTRLSATSCTW
IRESfinder result
IRESfinder score
0.489089279
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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