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mmu_circMe1_342
Basic information of circular RNA
PanCircBase ID:
mmu_circMe1_342
mm39_Chr. Position ID:
chr9|86528363|86536771|-
Gene name:
Me1
Transcript:
ENSMUST00000034989.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,4557,8332
Genomic length:
8408
Exon/intron sizes in nt:
104,162,76
Flanking exon/introns:
chr9:86501887-86528363|chr9:86536771-86559916
Splice length:
342
Other database IDs:
CIRCpedia: MMU_CIRCpedia_32530, circAtlas: mmu-Me1_0001
circAtlas: hsa-ME1_0001, CIRCpedia: HSA_CIRCpedia_362376
Human Ortholog IDs:
Mature spliced Sequence:
AGGCCTCTTTATTAGTATCCATGACAAAGGGCACATTGCTTCAGTTCTTAATGCATGGCCAGAGGATGTCGTCAAGGCTATTGTGGTAACTGATGGAGAGCGCATCCTTGGCTTGGGAGACCTTGGCTGTAATGGGATGGGCATCCCTGTGGGTAAACTGGCCCTGTACACGGCATGTGGAGGGGTGAACCCACAACAGTGTCTACCCATCACTTTGGATGTGGGAACAGAAAATGAGGAGTTACTTAAGGATCCACTGTACATCGGGCTGCGGCACCGGCGAGTCAGAGGCCCTGAGTATGACGCCTTCCTGGATGAGTTCATGGAGGCAGCGTCTTCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCCACTGTACATCGGGC
60.25
GACATCCTCTGGCCATGCAT
60.18
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCCACTGTACATCGGGC
60.25
ACATCCTCTGGCCATGCATT
59.74
162
PCR template sequence:
TACTTAAGGATCCACTGTACATCGGGCTGCGGCACCGGCGAGTCAGAGGCCCTGAGTATGACGCCTTCCTGGATGAGTTCATGGAGGCAGCGTCTTCCAAAGGCCTCTTTATTAGTATCCATGACAAAGGGCACATTGCTTCAGTTCTTAATGCATGGCCAGAGGATGTCGTCAAGGCTATTGTGGTAACTGATGGAGAG
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-7b-5p(1), mmu-miR-188-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCGTCTTCCAAAGGCCTCTTTATT
siRNA sets
ATAAAGAGGCCTTTGGAAG, AATAAAGAGGCCTTTGGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCME1_342_ORF_1
1.1355
0.35088922
0.902671742
546
ORF sequence:
ATGGGCATCCCTGTGGGTAAACTGGCCCTGTACACGGCATGTGGAGGGGTGAACCCACAACAGTGTCTACCCATCACTTTGGATGTGGGAACAGAAAATGAGGAGTTACTTAAGGATCCACTGTACATCGGGCTGCGGCACCGGCGAGTCAGAGGCCCTGAGTATGACGCCTTCCTGGATGAGTTCATGGAGGCAGCGTCTTCCAAAGGCCTCTTTATTAGTATCCATGACAAAGGGCACATTGCTTCAGTTCTTAATGCATGGCCAGAGGATGTCGTCAAGGCTATTGTGGTAACTGATGGAGAGCGCATCCTTGGCTTGGGAGACCTTGGCTGTAATGGGATGGGCATCCCTGTGGGTAAACTGGCCCTGTACACGGCATGTGGAGGGGTGAACCCACAACAGTGTCTACCCATCACTTTGGATGTGGGAACAGAAAATGAGGAGTTACTTAAGGATCCACTGTACATCGGGCTGCGGCACCGGCGAGTCAGAGGCCCTGAGTATGACGCCTTCCTGGATGAGTTCATGGAGGCAGCGTCTTCC
Peptide sequence:
MGIPVGKLALYTACGGVNPQQCLPITLDVGTENEELLKDPLYIGLRHRRVRGPEYDAFLDEFMEAASSKGLFISIHDKGHIASVLNAWPEDVVKAIVVTDGERILGLGDLGCNGMGIPVGKLALYTACGGVNPQQCLPITLDVGTENEELLKDPLYIGLRHRRVRGPEYDAFLDEFMEAASS
IRESfinder result
IRESfinder score
0.317734458
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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