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mmu_circEhmt1_854
Basic information of circular RNA
PanCircBase ID:
mmu_circEhmt1_854
mm39_Chr. Position ID:
chr2|24729541|24748262|-
Gene name:
Ehmt1
Transcript:
ENSMUST00000147147.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,11,10,9,8,7
Exon/intron offsets:
0,1106,8414,13135,17076,18643
Genomic length:
18721
Exon/intron sizes in nt:
227,144,146,138,121,78
Flanking exon/introns:
chr2:24728880-24729541|chr2:24748262-24753234
Splice length:
854
Other database IDs:
circAtlas: mmu-Ehmt1_0095
Human Ortholog IDs:
Mature spliced Sequence:
ATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGGTTCCGAGGCTTGTAAGTCATCTCCAGGAAGCATGGAGCAGGCAGCTCTGGGAGACAGCGCTGGCTATATGGAAGTTTCCCTGGATTCCCTGGATCTCCGTGTCAGAGGAATTCTGTCTTCCCAGACAGAAAATGAAGGGCTGGCCAGTGGTCCGGATGTGCTGGGGACGGATGGCCTCCAGGAAGTGCCTCTCTGCAGCTGCCGAATGGAAACCCCCAAGAGCCGCGAGATCAGCACCCTGGCCAACAACCAGTGCATGGCCACTGAGAGCGTGGATCACGAATTGGGCCGGTGTACAAACAGCGTGGTCAAGTATGAGCTGATGCGCCCATCCAACAAAGCACCGCTCTTGGTGTTATGTGAAGACCATCGGGGTCGCATGGTGAAGCACCAGTGCTGTCCTGGCTGCGGCTACTTCTGCACGGCGGGTAACTTCATGGAATGCCAGCCTGAGAGCAGCATCTCTCATCGTTTCCATAAGGACTGTGCCTCTCGAGTCAACAATGCCAGCTACTGTCCCCATTGTGGGGAAGAAGCTTCCAAGGCCAAAGAGGTGACCATAGCAAAAGCAGACACAACTTCCACAGTGACCCTAGCCCCTGGACAGGAGAAGAGCCTGGCTGCTGAAGGCAGGGCTGACACGACCACGGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCCACAGTGACCCTAGCC
59.75
TCAGGTCAGACTCGTCTCCA
59.6
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCCACAGTGACCCTAGCC
59.75
CAGGTCAGACTCGTCTCCAC
59.48
154
PCR template sequence:
TGACCATAGCAAAAGCAGACACAACTTCCACAGTGACCCTAGCCCCTGGACAGGAGAAGAGCCTGGCTGCTGAAGGCAGGGCTGACACGACCACGGGCAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGA
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-207(2), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-539-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
CGACCACGGGCAGATGGATGGAGATT
siRNA sets
ATCTCCATCCATCTGCCCG, AATCTCCATCCATCTGCCC, TCTCCATCCATCTGCCCGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEHMT1_854_ORF_1
0.8422
0.330641635
0.987479914
933
ORF sequence:
ATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGGTTCCGAGGCTTGTAAGTCATCTCCAGGAAGCATGGAGCAGGCAGCTCTGGGAGACAGCGCTGGCTATATGGAAGTTTCCCTGGATTCCCTGGATCTCCGTGTCAGAGGAATTCTGTCTTCCCAGACAGAAAATGAAGGGCTGGCCAGTGGTCCGGATGTGCTGGGGACGGATGGCCTCCAGGAAGTGCCTCTCTGCAGCTGCCGAATGGAAACCCCCAAGAGCCGCGAGATCAGCACCCTGGCCAACAACCAGTGCATGGCCACTGAGAGCGTGGATCACGAATTGGGCCGGTGTACAAACAGCGTGGTCAAGTATGAGCTGATGCGCCCATCCAACAAAGCACCGCTCTTGGTGTTATGTGAAGACCATCGGGGTCGCATGGTGAAGCACCAGTGCTGTCCTGGCTGCGGCTACTTCTGCACGGCGGGTAACTTCATGGAATGCCAGCCTGAGAGCAGCATCTCTCATCGTTTCCATAAGGACTGTGCCTCTCGAGTCAACAATGCCAGCTACTGTCCCCATTGTGGGGAAGAAGCTTCCAAGGCCAAAGAGGTGACCATAGCAAAAGCAGACACAACTTCCACAGTGACCCTAGCCCCTGGACAGGAGAAGAGCCTGGCTGCTGAAGGCAGGGCTGACACGACCACGGGCAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGA
Peptide sequence:
MDGDSEEEQESPDTGEDEDGGDESDLSSESSIKKKFLKRRGKTDSPWIKPARKRRRRSRKKPSSMLGSEACKSSPGSMEQAALGDSAGYMEVSLDSLDLRVRGILSSQTENEGLASGPDVLGTDGLQEVPLCSCRMETPKSREISTLANNQCMATESVDHELGRCTNSVVKYELMRPSNKAPLLVLCEDHRGRMVKHQCCPGCGYFCTAGNFMECQPESSISHRFHKDCASRVNNASYCPHCGEEASKAKEVTIAKADTTSTVTLAPGQEKSLAAEGRADTTTGRWMEIQRRNRSLPTQGRMKMVETSLT
IRESfinder result
IRESfinder score
0.312615984
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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