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mmu_ciEef1b2_555
Basic information of circular RNA
PanCircBase ID:
mmu_ciEef1b2_555
mm39_Chr. Position ID:
chr1|63217035|63217590|+
Gene name:
Eef1b2
Transcript:
ENSMUST00000129339.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
555
Exon/intron sizes in nt:
555
Flanking exon/introns:
chr1:63217035-63217597
Splice length:
555
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGGTATCTTTGTGCTACCTGGATTTTCACATGCAAAGTAGGGACCGGGTTAAAGTTGGCTTTAGCATTGCTGACCTAGTGTGAGCTGAATTTCTTTGTGACCTTACAAGGCCAAGAGACTGAAGTCCTCCATTTTCTCACAGAACAGGTAGAACATGGACAACCGCAGTTCACCTTTCCCACACCTCTCTGATCATGTGCTTTGGACCTGGGGGGGCCACCGCTGGGGTGTGAGGGTAGCTCGCTCATTCGGTCCCTGGCCATTCTTCTGAAACTACCAGCAAGGGTGGAAGTTTGGGGAAGTGGATTCCAGTTCACTAAGAATGGAAGTGAGCATACTTAATGAAATCTCAAACAGATGTTCATTCTGAAAGAGTAAGCCGTAGTGAGTACTGAATACAATGTCTCCCATGGGTGAAGAGTAAAGTTATTTGCCTGGGATTGTGCTAAAGGTTAAATAACCAGAAGAGAGTGGGAGTTCCTGGGAAAGGAAGATTGTGTGTTTTGCCTAGAAAGGGCTTTGACACTGACCTAATGTGGCAGAATGTTTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGTGGGAGTTCCTGGGAA
59.81
AGCCAACTTTAACCCGGTCC
60.25
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGTGGGAGTTCCTGGGA
60.25
AGCCAACTTTAACCCGGTCC
60.25
149
PCR template sequence:
GTTAAATAACCAGAAGAGAGTGGGAGTTCCTGGGAAAGGAAGATTGTGTGTTTTGCCTAGAAAGGGCTTTGACACTGACCTAATGTGGCAGAATGTTTGTGTAAAGGTATCTTTGTGCTACCTGGATTTTCACATGCAAAGTAGGGACCGGGTTAAAGTTGGCTTTAGCATTGCTGACCTAGTGTGAGCTGAATTTCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-383-5p(1), mmu-miR-207(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGAATGTTTGTGTAAAGGTATCTT
siRNA sets
AAGATACCTTTACACAAAC,TACCTTTACACAAACATTC,AGATACCTTTACACAAACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIEEF1B2_555_ORF_3
0.7267
-0.145421066
0.022876251
105
ORF sequence:
ATGTGGCAGAATGTTTGTGTAAAGGTATCTTTGTGCTACCTGGATTTTCACATGCAAAGTAGGGACCGGGTTAAAGTTGGCTTTAGCATTGCTGACCTAGTGTGA
Peptide sequence:
MWQNVCVKVSLCYLDFHMQSRDRVKVGFSIADLV
IRESfinder result
IRESfinder score
0.700322052
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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