Plant Circular RNA Database

Detail information of Os12g0460800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os12g0460800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_011450
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 16196570-16198327  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0460800						
					
						Parent gene annotation
						
							LAMMER kinase-type protein, Positive regulator of disease resist
ance (Os12t0460800-01);Similar to Lammer-type protein kinase. (O
s12t0460800-02);Similar to Lammer-type protein kinase. (Os12t046
0800-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0460800_circ_g.3 Os12g0460800_circ_g.4 Os12g0460800_circ_g.5 Os12g0460800_circ_g.6 Os12g0460800_circ_g.7 Os12g0460800_circ_g.8 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os12t0460800-03:4
Os12t0460800-01:6
Os12t0460800-02:6

General Information
CircRNA Name	Os12g0460800_circ_g.2
ID in PlantcircBase	osa_circ_011450
Alias	NA
Organism	Oryza sativa
Position	chr12: 16196570-16198327 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0460800
Parent gene annotation	LAMMER kinase-type protein, Positive regulator of disease resist ance (Os12t0460800-01);Similar to Lammer-type protein kinase. (O s12t0460800-02);Similar to Lammer-type protein kinase. (Os12t046 0800-03)
Parent gene strand	-
Alternative splicing	Os12g0460800_circ_g.3 Os12g0460800_circ_g.4 Os12g0460800_circ_g.5 Os12g0460800_circ_g.6 Os12g0460800_circ_g.7 Os12g0460800_circ_g.8
Support reads	1
Tissues	shoot
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os12t0460800-03:4 Os12t0460800-01:6 Os12t0460800-02:6

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							AACAAATTCAGCATGCAAGAAACATCTCAAGTTAAGATGTTCAATTCTAACGGAGGCAGCTCTC
CCAACTGACCTTCACCCATTTTTGCATTAATCCTGTctgaagacgtggcagcttcataacagct
ttcatgctatcccgtgacgcacaaccttcaggccagtttaaacggccttttctgacatatttct
cggaatgc

									
								

					

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							CTGAAGACGTGGCAGCTTCATAACAGCTTTCATGCTATCCCGTGACGCACAACCTTCAGGCCAG
TTTAAACGGCCTTTTCTGACATATTTCTCGGAATGCCGGCTACATACAAGCAACAAATGAGCAC
ACAATACCTACTAATCCCCAATGCTGTGAATGCTTACTGACAATGAGACGGATCAAGGACAGCA
ACATACTCTGCCCTTTTGAGCATGTGACATGGCAAAGGACCAAATACCCTCTCCATCATAGCAA
GATGCTCCAAGTTTTCATGGGTCTGAAACAATGCTTCTCCCTGCGGTAGCTTTCGTAACTCAAA
AATCCTGCTGTTGTTGTGATAGAATACAAACCAAATATTGCACCCAACAACATACCGTGCATAG
CTCAACCAGTATACAACCAACACTCCATATATCACAGGGGTAACTCCATCCAAGTCCTGAACAG
AACAACAGCCATTCCAATCGTAAACATAAACCATAATCACGCTGACAGGGAAGGCTTTGCACTA
GGCAAGACAAATACCCAAGATAACTTCTGGAGCTCGATAATGCCTAGTAGACACCACATAGGTC
TGATCCTGCTGGTCATATGTTGTGCTGCCAAAATCAATCACCTTAATAGCACTGGACTTGGGCA
GCTGCTTGAAATAGGAACCTTCCTTTGGAGAACGGGATGAAACCTAGCAGAGATTGTAGAAGGA
TTAGAAAGATAACATAAAATTGTTGAATCATAATCAGCTAAACCGGGTAAAAAGAAGACGTTAA
AAAGGCTAAAAGGTCAAATAGGTAGAAGAACAAAGTATACTTTGTAATCGGGCACTTTAATGTA
CTCTGGAGAAACAAGAAGAATGTTCTCAGGCTTTAAATCAGTGTGAATGAGGCGCAATTCATGC
ATAACTGCAACACACATTACAGAGAAGATAAATATATAAACAAACAAAGCAGGTTAGGTATTAG
GTATTCCTAAAAGGATGAAGCAAAGAAAGCATCAGCTATCAACTGATGACAGCATGCAATTTAT
GGAAGAATAATCTAGATCTGCTAATTAGTGTGGTAATAAGAGTAACAGAAGGAACTGTGCACAC
ACATGCTATACATTCCAACAGTTGTTTGGCAACCTCCCGAACTAGGGCAATTGGGAATGAGCGG
TAACTGTTTTTCCGCAGAAAATCATATAAGCTTGGTCCAAGCTTCTCACAGACCTGCCCACCAT
CCATTCAAATTCACCAATGTTTAAGCTTCATGGGGTTATCTCTTTTGGTTAGTTCATAATTGCC
ATAATCTAATGATGTACTTACAATACAGATATGGTTACGATAGTCAAACCAGTTCCGAATTTGA
ACACAACTGCAAAATAGACCAGCTTATATATACAAGCAATATTGCGCAAGTAAAGCACACAGAT
AGATCAACAGTTACTTAAGGGAAACGGAAAAGTGAACCATAGGACTCACCTGGATCTACTTTTT
TCATATTTACCAAGCTGCTCGAGCATGCCAATTTCTATCATTGCAGCATCCCTGTACTTCTTAA
TGCCTCTGATGATCTTAATGGCCACCATTTCTTTCCTTTCCCTATCCCAACATTCCAATACCTG
ACCAAAGGTACCTGATGTATATCCAAAAAGTTTCAGTTTCAATATACTCCGCTCTGTCAACAAA
TTCAGCATGCAAGAAACATCTCAAGTTAAGATGTTCAATTCTAACGGAGGCAGCTCTCCCAACT
GACCTTCACCCATTTTTGCATTAATCCTGT
						
					

			
		

Sequences
Splice junction sequence	AACAAATTCAGCATGCAAGAAACATCTCAAGTTAAGATGTTCAATTCTAACGGAGGCAGCTCTC CCAACTGACCTTCACCCATTTTTGCATTAATCCTGTctgaagacgtggcagcttcataacagct ttcatgctatcccgtgacgcacaaccttcaggccagtttaaacggccttttctgacatatttct cggaatgc
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	CTGAAGACGTGGCAGCTTCATAACAGCTTTCATGCTATCCCGTGACGCACAACCTTCAGGCCAG TTTAAACGGCCTTTTCTGACATATTTCTCGGAATGCCGGCTACATACAAGCAACAAATGAGCAC ACAATACCTACTAATCCCCAATGCTGTGAATGCTTACTGACAATGAGACGGATCAAGGACAGCA ACATACTCTGCCCTTTTGAGCATGTGACATGGCAAAGGACCAAATACCCTCTCCATCATAGCAA GATGCTCCAAGTTTTCATGGGTCTGAAACAATGCTTCTCCCTGCGGTAGCTTTCGTAACTCAAA AATCCTGCTGTTGTTGTGATAGAATACAAACCAAATATTGCACCCAACAACATACCGTGCATAG CTCAACCAGTATACAACCAACACTCCATATATCACAGGGGTAACTCCATCCAAGTCCTGAACAG AACAACAGCCATTCCAATCGTAAACATAAACCATAATCACGCTGACAGGGAAGGCTTTGCACTA GGCAAGACAAATACCCAAGATAACTTCTGGAGCTCGATAATGCCTAGTAGACACCACATAGGTC TGATCCTGCTGGTCATATGTTGTGCTGCCAAAATCAATCACCTTAATAGCACTGGACTTGGGCA GCTGCTTGAAATAGGAACCTTCCTTTGGAGAACGGGATGAAACCTAGCAGAGATTGTAGAAGGA TTAGAAAGATAACATAAAATTGTTGAATCATAATCAGCTAAACCGGGTAAAAAGAAGACGTTAA AAAGGCTAAAAGGTCAAATAGGTAGAAGAACAAAGTATACTTTGTAATCGGGCACTTTAATGTA CTCTGGAGAAACAAGAAGAATGTTCTCAGGCTTTAAATCAGTGTGAATGAGGCGCAATTCATGC ATAACTGCAACACACATTACAGAGAAGATAAATATATAAACAAACAAAGCAGGTTAGGTATTAG GTATTCCTAAAAGGATGAAGCAAAGAAAGCATCAGCTATCAACTGATGACAGCATGCAATTTAT GGAAGAATAATCTAGATCTGCTAATTAGTGTGGTAATAAGAGTAACAGAAGGAACTGTGCACAC ACATGCTATACATTCCAACAGTTGTTTGGCAACCTCCCGAACTAGGGCAATTGGGAATGAGCGG TAACTGTTTTTCCGCAGAAAATCATATAAGCTTGGTCCAAGCTTCTCACAGACCTGCCCACCAT CCATTCAAATTCACCAATGTTTAAGCTTCATGGGGTTATCTCTTTTGGTTAGTTCATAATTGCC ATAATCTAATGATGTACTTACAATACAGATATGGTTACGATAGTCAAACCAGTTCCGAATTTGA ACACAACTGCAAAATAGACCAGCTTATATATACAAGCAATATTGCGCAAGTAAAGCACACAGAT AGATCAACAGTTACTTAAGGGAAACGGAAAAGTGAACCATAGGACTCACCTGGATCTACTTTTT TCATATTTACCAAGCTGCTCGAGCATGCCAATTTCTATCATTGCAGCATCCCTGTACTTCTTAA TGCCTCTGATGATCTTAATGGCCACCATTTCTTTCCTTTCCCTATCCCAACATTCCAATACCTG ACCAAAGGTACCTGATGTATATCCAAAAAGTTTCAGTTTCAATATACTCCGCTCTGTCAACAAA TTCAGCATGCAAGAAACATCTCAAGTTAAGATGTTCAATTCTAACGGAGGCAGCTCTCCCAACT GACCTTCACCCATTTTTGCATTAATCCTGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.239754053

Conservation Information
Conserved circRNAs	NA
PMCS	0.239754053

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16197247-16196570(+)
16196822-16198081(-)
						
						Potential amino acid sequence
						
							MKPGSTFFIFTKLLEHANFYHCSIPVLLNASDDLNGHHFFPFPIPTFQYLTKGTFTHFCINPV*
(+)
MMERVFGPLPCHMLKRADRHSEKYVRKGRLNWPEGCASRDSMKAVMKLPRLQTGLMQKWVKVPL
VRYWNVGIGKGKKWWPLRSSEALRSTGMLQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16197247-16196570(+) 16196822-16198081(-)
Potential amino acid sequence	MKPGSTFFIFTKLLEHANFYHCSIPVLLNASDDLNGHHFFPFPIPTFQYLTKGTFTHFCINPV* (+) MMERVFGPLPCHMLKRADRHSEKYVRKGRLNWPEGCASRDSMKAVMKLPRLQTGLMQKWVKVPL VRYWNVGIGKGKKWWPLRSSEALRSTGMLQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0460800_circ_g.2

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