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mmu_ciEif1a_135
Basic information of circular RNA
PanCircBase ID:
mmu_ciEif1a_135
mm39_Chr. Position ID:
chr18|46740809|46740944|+
Gene name:
Eif1a
Transcript:
ENSMUST00000235849.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
135
Exon/intron sizes in nt:
135
Flanking exon/introns:
chr18:46740809-46748859
Splice length:
135
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAAATGAAAATGAATCTGAGAAAAGAGAGTTGGTGTTTAAAGAGGATGGGCAGGAGTATGCTCAGGTGATCAAAATGCTGGGAAATGGACGGTTGGAAGCAATGTGCTTTGACGGTGTGAGGAGGCTGTGCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGGAAATGGACGGTTGGA
59.96
GAGCATACTCCTGCCCATCC
59.96
121
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCTGGGAAATGGACGGTT
59.96
GCATACTCCTGCCCATCCTC
59.96
122
PCR template sequence:
GTGATCAAAATGCTGGGAAATGGACGGTTGGAAGCAATGTGCTTTGACGGTGTGAGGAGGCTGTGCCGTAAAAATGAAAATGAATCTGAGAAAAGAGAGTTGGTGTTTAAAGAGGATGGGCAGGAGTATGCTCA
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-342-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAGGCTGTGCCGTAAAAATGAAAA
siRNA sets
TTTTCATTTTTACGGCACA, TTTCATTTTTACGGCACAG, TTCATTTTTACGGCACAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIEIF1A_135_ORF_1
0.8093
0.197180354
0.174693229
192
ORF sequence:
ATGCTGGGAAATGGACGGTTGGAAGCAATGTGCTTTGACGGTGTGAGGAGGCTGTGCCGTAAAAATGAAAATGAATCTGAGAAAAGAGAGTTGGTGTTTAAAGAGGATGGGCAGGAGTATGCTCAGGTGATCAAAATGCTGGGAAATGGACGGTTGGAAGCAATGTGCTTTGACGGTGTGAGGAGGCTGTGC
Peptide sequence:
MLGNGRLEAMCFDGVRRLCRKNENESEKRELVFKEDGQEYAQVIKMLGNGRLEAMCFDGVRRLC
IRESfinder result
IRESfinder score
0.268083801
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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