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mmu_circEdem2_272
Basic information of circular RNA
PanCircBase ID:
mmu_circEdem2_272
mm39_Chr. Position ID:
chr2|155560183|155568594|-
Gene name:
Edem2
Transcript:
ENSMUST00000040833.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,4168,8371
Genomic length:
8411
Exon/intron sizes in nt:
126,106,40
Flanking exon/introns:
chr2:155558141-155560183|chr2:155568594-155570810
Splice length:
272
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTTTTCTCTGACGCTAATTGATGCCCTGGACACCTTGCTGATTTTGGGGAATACCTCTGAATTCCAAAGAGTAGTGGAGGTTCTTCAGGACAATGTGGACTTTGATATCGACGTGAACGCCTCTGTGTTCGAAACCAACATCCGAGTGGTAGGAGGACTCCTTTCTGCTCATCTCTTGTCAAAGAAGGCCGGTGTGGAGGTGGAAGCCGGGTGGCCTTGTTCTGGGCCTCTCCTCAGGATGGCGGAGGAAGCAGCCCGGAAACTCCTCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCAAAGAAGGCCGGTGT
60.11
AATCAGCAAGGTGTCCAGGG
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGTCAAAGAAGGCCGGT
59.53
AATCAGCAAGGTGTCCAGGG
59.96
142
PCR template sequence:
CTCTTGTCAAAGAAGGCCGGTGTGGAGGTGGAAGCCGGGTGGCCTTGTTCTGGGCCTCTCCTCAGGATGGCGGAGGAAGCAGCCCGGAAACTCCTCCCAGTTTTTCTCTGACGCTAATTGATGCCCTGGACACCTTGCTGATTTTGGGGAATACCTCTGAATTCCAAAGAGTAGTGGAGGTTCTTCAGGACAATGTGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAACTCCTCCCAGTTTTTCTCTGACG
siRNA sets
AGAGAAAAACTGGGAGGAG, CAGAGAAAAACTGGGAGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.485782826
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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