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mmu_circEef2_397
Basic information of circular RNA
PanCircBase ID:
mmu_circEef2_397
mm39_Chr. Position ID:
chr10|81013498|81014068|+
Gene name:
Eef2
Transcript:
ENSMUST00000047864.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,388
Genomic length:
570
Exon/intron sizes in nt:
215,182
Flanking exon/introns:
chr10:81012563-81013498|chr10:81014068-81014514
Splice length:
397
Other database IDs:
circBase: hsa_circ_0048575
Human Ortholog IDs:
Mature spliced Sequence:
GTGAACTTCACAGTAGATCAGATCCGTGCCATCATGGACAAGAAAGCCAACATCCGGAACATGTCAGTCATCGCCCATGTGGACCACGGCAAGTCCACGCTGACCGACTCCCTTGTGTGCAAGGCTGGCATCATTGCCTCTGCCCGAGCTGGGGAGACGCGCTTCACTGACACTCGCAAGGATGAGCAGGAGCGCTGCATCACAATCAAATCCACCGCCATCTCCCTCTTCTACGAGCTCTCTGAGAACGACCTGAACTTCATTAAGCAGAGCAAGGATGGCTCGGGCTTCCTCATCAACCTCATCGACTCTCCAGGCCATGTGGACTTCTCTTCAGAGGTGACAGCTGCCTTGCGTGTCACCGATGGAGCTCTGGTGGTGGTGGACTGTGTGTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATCGACTCTCCAGGCCATG
60.25
ACATGTTCCGGATGTTGGCT
59.96
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCATCGACTCTCCAGGCCAT
60.4
ACATGTTCCGGATGTTGGCT
59.96
160
PCR template sequence:
AACCTCATCGACTCTCCAGGCCATGTGGACTTCTCTTCAGAGGTGACAGCTGCCTTGCGTGTCACCGATGGAGCTCTGGTGGTGGTGGACTGTGTGTCTGGTGAACTTCACAGTAGATCAGATCCGTGCCATCATGGACAAGAAAGCCAACATCCGGAACATGTCAGTCATCGCCCATGTGGACCACGGCAAGTCCACGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-183-5p(1), mmu-miR-362-5p(1), mmu-miR-190b-5p(1), mmu-miR-3105-3p(1), mmu-miR-376a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACTGTGTGTCTGGTGAACTTCACAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEEF2_397_ORF_1
1.0404
0.390950157
0.893312494
534
ORF sequence:
ATGGACAAGAAAGCCAACATCCGGAACATGTCAGTCATCGCCCATGTGGACCACGGCAAGTCCACGCTGACCGACTCCCTTGTGTGCAAGGCTGGCATCATTGCCTCTGCCCGAGCTGGGGAGACGCGCTTCACTGACACTCGCAAGGATGAGCAGGAGCGCTGCATCACAATCAAATCCACCGCCATCTCCCTCTTCTACGAGCTCTCTGAGAACGACCTGAACTTCATTAAGCAGAGCAAGGATGGCTCGGGCTTCCTCATCAACCTCATCGACTCTCCAGGCCATGTGGACTTCTCTTCAGAGGTGACAGCTGCCTTGCGTGTCACCGATGGAGCTCTGGTGGTGGTGGACTGTGTGTCTGGTGAACTTCACAGTAGATCAGATCCGTGCCATCATGGACAAGAAAGCCAACATCCGGAACATGTCAGTCATCGCCCATGTGGACCACGGCAAGTCCACGCTGACCGACTCCCTTGTGTGCAAGGCTGGCATCATTGCCTCTGCCCGAGCTGGGGAGACGCGCTTCACTGA
Peptide sequence:
MDKKANIRNMSVIAHVDHGKSTLTDSLVCKAGIIASARAGETRFTDTRKDEQERCITIKSTAISLFYELSENDLNFIKQSKDGSGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGELHSRSDPCHHGQESQHPEHVSHRPCGPRQVHADRLPCVQGWHHCLCPSWGDALH
IRESfinder result
IRESfinder score
0.332153151
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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