top of page
mmu_circOptn_1127
Basic information of circular RNA
PanCircBase ID:
mmu_circOptn_1127
mm39_Chr. Position ID:
chr2|5026133|5045084|-
Gene name:
Optn
Transcript:
ENSMUST00000027986.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,2744,5791,9937,11808,12831,13645,15348,18816
Genomic length:
18951
Exon/intron sizes in nt:
15,98,31,31,15,99,41,50,00,00,00,000
Flanking exon/introns:
chr2:5026039-5026133|chr2:5045084-5047257
Splice length:
1127
Other database IDs:
CIRCpedia: MMU_CIRCpedia_21764, circAtlas: mmu-Optn_0008
Human Ortholog IDs:
Mature spliced Sequence:
GAGCAACTGTACAGAGGATGCCAGGAGTTGTGCGGAGTTTGAAGAACTGACTGTGAGCCAGCTTCTGCTTTGCCTAAGGGAAGGAAACCAAAAGGTGGAGAGACTTGAAGTCGCCCTCAGAGAAGCCAAAGAAAGAATTTCAGATTTTGAAAAGAAAGCAAATGGCCATTCTTCTACTGAGAAGCAGACAGCGAGGAGAGCAGACAGAGAGAAGGAGGACAAAGGCCAAGAGAGTGTTGGAAGCGAAGTGGAAACACTGAGCATTCAAGTGACCTCTCTGTTTAAGGAGCTTCAAGAGGCACACACAAAACTCAGTGAGGCTGAGCTGATGAAGAAGAGACTTCAAGAAAAGTGTCAGGCTCTGGAGAGGAAGAACTCTGCAACACCATCAGAGCTGAATGAAAAGCAAGAGCTCGTTTACAGTAACAAGAAGTTAGAGCTGCAGGTGGAGAGCATGCGCTCCGAAATCAAGATGGAGCAGGCCAAGACAGAGGAGGAGAAGTCCAGGTTAGCCACTCTGCAGGCAACTCACAACAAGCTCCTTCAAGAACATAATAAGGCACTGAAAACAATTGAAGAACTAACCAAGCAACAGGCAGAAAAGGTGGACAAGATGTTGCTGCAGGAGCTCAGCGAGAAGCTGGAGCTGGCAGAGCAGGCTCTGGCATCCAAACAGCTCCAGATGGATGAGATGAAGCAGACGCTCGCTAAGCAGGAGGAAGACCTGGAGACCATGGCCGTCCTCAGGGCTCAGATGGAGGTGTACTGCTCAGATTTTCACGCTGAGAGAGCAGCAAGAGAGAAGATTCATGAAGAAAAGGAGCAGCTGGCCTTGCAGCTCGCGATTTTGCTGAAAGAGAACAATGACATTGAAGAGGGAGGCAGTAGACAGTCCCTGATGGAAATGCAGTGCCGACACGGGGCAAGAACCAGTGACTCTGACCAGCAGACTTACCTGTTTCAAAGAGGAGCCGAGGACAGGAGCTGGCAGCACGGGCAGCAGCCTCGCAGTATTCCGATTCACTCCTGCCCCAAGTGCGGGGAGGTCCTGCCGGACATCGACACGCTTCAGATCCATGTGATGGACTGCATCATTTGAGTGTTCTCTCCAGTCCCCAAAGCTCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACATCGACACGCTTCAGA
60.11
CCCTTAGGCAAAGCAGAAGC
59.19
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACATCGACACGCTTCAGA
60.11
CCTTCCCTTAGGCAAAGCAGA
60
158
PCR template sequence:
TGCCCCAAGTGCGGGGAGGTCCTGCCGGACATCGACACGCTTCAGATCCATGTGATGGACTGCATCATTTGAGTGTTCTCTCCAGTCCCCAAAGCTCTTGGAGCAACTGTACAGAGGATGCCAGGAGTTGTGCGGAGTTTGAAGAACTGACTGTGAGCCAGCTTCTGCTTTGCCTAAGGGAAGGAAACCAAAAGGTGGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-223-3p(1), mmu-miR-200c-3p(1), mmu-miR-217-5p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-490-3p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCAAAGCTCTTGGAGCAACTGTACA
siRNA sets
TGTACAGTTGCTCCAAGAG
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
0.393924721
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page