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mmu_circPlekha3_735
Basic information of circular RNA
PanCircBase ID:
mmu_circPlekha3_735
mm39_Chr. Position ID:
chr2|76510506|76523108|+
Gene name:
Plekha3
Transcript:
ENSMUST00000111920.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,2567,6456,7119,10282,12486
Genomic length:
12602
Exon/intron sizes in nt:
11,71,56,13,71,65,44,100
Flanking exon/introns:
chr2:76505978-76510506|chr2:76523108-76525727
Splice length:
735
Other database IDs:
CIRCpedia: MMU_CIRCpedia_29401
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGCAGCCTCGATGGTTTGTTCTGGATAATGGAATCCTGTCCTACTATGACTCACAGGATGATGTCTGCAAAGGGAGCAAAGGGAGTATAAAGATGGCGGTCTGTGAGATTAAAGTCCATCCCGCAGACAACACAAGAATGGAGTTAATCATTCCAGGAGAGCAGCATTTCTACATGAAGGCAGTAAATGCCGCCGAGAGACAGAGGTGGCTGGTTGCCCTTGGGAGCTCCAAAGCGTGTTTGACCGACACGAGGACTGCAAAAGAGAAAGAAATAAGTGAGACCAGTGAATCTCTGAAAACCAAAATGTCTGAACTTCGCCTCTACTGTGACCTCCTGATGCAGCAGGTTCATACGATCCAGGAATTCGTCCACCGTGATGAGAGGCATCCCTCTCCCAGTGTGGAGAACATGAATGAAGCCTCCTCCTTGCTCAGTGCCACCTGTAACACATTCATCACAACCCTGGAGGAGTGTGTGAAGATCGCCAACGCCAAGTTTAAACCTGAGATGTTTCAACTGCCTCATCCGGATCCCCTGGTCTCTCCCGTGTCGCCTTCTCCTGTTCAGATGATGAAGCGTTCAGCCAGCCACCCTGGTTCCTGCAGTTCCGAGAGGAGCAGCTGCTCCATCAAAGAACCAGCATCTGCCCTCCACCGACTTCCTCAGCGACGCCGCAGAACCTACTCGGACACAGACTCTTGTAATGATGTTCCCCCTGAAGACCCAGAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAACCAGCATCTGCCCTC
60.03
TGCTCCCTTTGCAGACATCA
59.6
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAGAACCTACTCGGACAC
60.46
CCCTTTGCTCCCTTTGCAGA
60.54
144
PCR template sequence:
AAAGAACCAGCATCTGCCCTCCACCGACTTCCTCAGCGACGCCGCAGAACCTACTCGGACACAGACTCTTGTAATGATGTTCCCCCTGAAGACCCAGAGAGTTGGCAGCCTCGATGGTTTGTTCTGGATAATGGAATCCTGTCCTACTATGACTCACAGGATGATGTCTGCAAAGGGAGCAAAGGGAGTATAAAGATGGC
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-216a-5p(1), mmu-miR-217-5p(1), mmu-miR-185-5p(1), mmu-miR-136-5p(1), mmu-miR-494-3p(1), mmu-miR-1198-5p(1), mmu-miR-296-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGACCCAGAGAGTTGGCAGCCTCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPLEKHA3_735_ORF_1
0.9116
0.260757705
0.999388589
1374
ORF sequence:
ATGGCGGTCTGTGAGATTAAAGTCCATCCCGCAGACAACACAAGAATGGAGTTAATCATTCCAGGAGAGCAGCATTTCTACATGAAGGCAGTAAATGCCGCCGAGAGACAGAGGTGGCTGGTTGCCCTTGGGAGCTCCAAAGCGTGTTTGACCGACACGAGGACTGCAAAAGAGAAAGAAATAAGTGAGACCAGTGAATCTCTGAAAACCAAAATGTCTGAACTTCGCCTCTACTGTGACCTCCTGATGCAGCAGGTTCATACGATCCAGGAATTCGTCCACCGTGATGAGAGGCATCCCTCTCCCAGTGTGGAGAACATGAATGAAGCCTCCTCCTTGCTCAGTGCCACCTGTAACACATTCATCACAACCCTGGAGGAGTGTGTGAAGATCGCCAACGCCAAGTTTAAACCTGAGATGTTTCAACTGCCTCATCCGGATCCCCTGGTCTCTCCCGTGTCGCCTTCTCCTGTTCAGATGATGAAGCGTTCAGCCAGCCACCCTGGTTCCTGCAGTTCCGAGAGGAGCAGCTGCTCCATCAAAGAACCAGCATCTGCCCTCCACCGACTTCCTCAGCGACGCCGCAGAACCTACTCGGACACAGACTCTTGTAATGATGTTCCCCCTGAAGACCCAGAGAGTTGGCAGCCTCGATGGTTTGTTCTGGATAATGGAATCCTGTCCTACTATGACTCACAGGATGATGTCTGCAAAGGGAGCAAAGGGAGTATAAAGATGGCGGTCTGTGAGATTAAAGTCCATCCCGCAGACAACACAAGAATGGAGTTAATCATTCCAGGAGAGCAGCATTTCTACATGAAGGCAGTAAATGCCGCCGAGAGACAGAGGTGGCTGGTTGCCCTTGGGAGCTCCAAAGCGTGTTTGACCGACACGAGGACTGCAAAAGAGAAAGAAATAAGTGAGACCAGTGAATCTCTGAAAACCAAAATGTCTGAACTTCGCCTCTACTGTGACCTCCTGATGCAGCAGGTTCATACGATCCAGGAATTCGTCCACCGTGATGAGAGGCATCCCTCTCCCAGTGTGGAGAACATGAATGAAGCCTCCTCCTTGCTCAGTGCCACCTGTAACACATTCATCACAACCCTGGAGGAGTGTGTGAAGATCGCCAACGCCAAGTTTAAACCTGAGATGTTTCAACTGCCTCATCCGGATCCCCTGGTCTCTCCCGTGTCGCCTTCTCCTGTTCAGATGATGAAGCGTTCAGCCAGCCACCCTGGTTCCTGCAGTTCCGAGAGGAGCAGCTGCTCCATCAAAGAACCAGCATCTGCCCTCCACCGACTTCCTCAGCGACGCCGCAGAACCTACTCGGACACAGACTCTTGTAATGATGTTCCCCCTGAAGACCCAGAG
Peptide sequence:
MAVCEIKVHPADNTRMELIIPGEQHFYMKAVNAAERQRWLVALGSSKACLTDTRTAKEKEISETSESLKTKMSELRLYCDLLMQQVHTIQEFVHRDERHPSPSVENMNEASSLLSATCNTFITTLEECVKIANAKFKPEMFQLPHPDPLVSPVSPSPVQMMKRSASHPGSCSSERSSCSIKEPASALHRLPQRRRRTYSDTDSCNDVPPEDPESWQPRWFVLDNGILSYYDSQDDVCKGSKGSIKMAVCEIKVHPADNTRMELIIPGEQHFYMKAVNAAERQRWLVALGSSKACLTDTRTAKEKEISETSESLKTKMSELRLYCDLLMQQVHTIQEFVHRDERHPSPSVENMNEASSLLSATCNTFITTLEECVKIANAKFKPEMFQLPHPDPLVSPVSPSPVQMMKRSASHPGSCSSERSSCSIKEPASALHRLPQRRRRTYSDTDSCNDVPPEDPE
IRESfinder result
IRESfinder score
0.44103635
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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