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mmu_circEftud2_174
Basic information of circular RNA
PanCircBase ID:
mmu_circEftud2_174
mm39_Chr. Position ID:
chr11|102755533|102756486|-
Gene name:
Eftud2
Transcript:
ENSMUST00000021306.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,8
Exon/intron offsets:
0,862
Genomic length:
953
Exon/intron sizes in nt:
83,91
Flanking exon/introns:
chr11:102753603-102755533|chr11:102756486-102758671
Splice length:
174
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213665, circAtlas: mmu-Eftud2_0008
circBase: hsa_circ_0044117, CIRCpedia: HSA_CIRCpedia_21023
Human Ortholog IDs:
Mature spliced Sequence:
AGAGGCGTCGGCATCAAGAGCACTCCGGTGACGGTGGTGCTGCCGGACACCAAAGGGAAGTCTTACCTCTTCAACATCATGGACACGCCAGGTCATGTGAATTTTTCTGATGAGGTCACAGCTGGCTTGCGCATCTCAGATGGAGTGGTCCTTTTCATTGATGCTGCTGAGGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATGAGGTCACAGCTGGCTT
60.04
AGACTTCCCTTTGGTGTCCG
59.6
129
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGAGGTCACAGCTGGCTT
60.04
GACTTCCCTTTGGTGTCCGG
60.61
128
PCR template sequence:
CCAGGTCATGTGAATTTTTCTGATGAGGTCACAGCTGGCTTGCGCATCTCAGATGGAGTGGTCCTTTTCATTGATGCTGCTGAGGGGAGAGGCGTCGGCATCAAGAGCACTCCGGTGACGGTGGTGCTGCCGGACACCAAAGGGAAGTCTTACCTCTTCAACATCATGGACACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-107-3p(1), mmu-miR-499-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTGCTGAGGGGAGAGGCGTCGGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEFTUD2_174_ORF_1
1.2581
0.401870315
0.663705857
270
ORF sequence:
ATGGACACGCCAGGTCATGTGAATTTTTCTGATGAGGTCACAGCTGGCTTGCGCATCTCAGATGGAGTGGTCCTTTTCATTGATGCTGCTGAGGGGAGAGGCGTCGGCATCAAGAGCACTCCGGTGACGGTGGTGCTGCCGGACACCAAAGGGAAGTCTTACCTCTTCAACATCATGGACACGCCAGGTCATGTGAATTTTTCTGATGAGGTCACAGCTGGCTTGCGCATCTCAGATGGAGTGGTCCTTTTCATTGATGCTGCTGAGGGG
Peptide sequence:
MDTPGHVNFSDEVTAGLRISDGVVLFIDAAEGRGVGIKSTPVTVVLPDTKGKSYLFNIMDTPGHVNFSDEVTAGLRISDGVVLFIDAAEG
IRESfinder result
IRESfinder score
0.278532396
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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