Plant Circular RNA Database

Detail information of Os01g0665250_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0665250_circ_g.3
					
						ID in PlantcircBase
						osa_circ_003132
					
						Alias
						Os_ciR2732
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 27174408-27176596  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0665250						
					
						Parent gene annotation
						
							Hypothetical protein. (Os01t0665250-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0665250_circ_g.2 Os01g0665250_circ_g.4 Os01g0665250_circ_g.5 Os01g0665250_circ_g.6 						
					
						Support reads
						4/1
					
						Tissues
						root/root
					
						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  
						
							GT-AG							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
						Os01t0665200-03:2
Os01t0665200-02:3
Os01t0665200-01:5
Os01t0665200-03:2
Os01t0665200-02:3
Os01t0665250-00:5
Os01t0665200-01:5

General Information
CircRNA Name	Os01g0665250_circ_g.3
ID in PlantcircBase	osa_circ_003132
Alias	Os_ciR2732
Organism	Oryza sativa
Position	chr1: 27174408-27176596 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0665250
Parent gene annotation	Hypothetical protein. (Os01t0665250-00)
Parent gene strand	-
Alternative splicing	Os01g0665250_circ_g.2 Os01g0665250_circ_g.4 Os01g0665250_circ_g.5 Os01g0665250_circ_g.6
Support reads	4/1
Tissues	root/root
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	GT-AG 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	Os01t0665200-03:2 Os01t0665200-02:3 Os01t0665200-01:5 Os01t0665200-03:2 Os01t0665200-02:3 Os01t0665250-00:5 Os01t0665200-01:5

			
						 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  
						
							ATGTGAAGGAACTTATATTCCGTGAAATACTGGAGTATCATCCTCAACTTCTTAAGGATTACAT
GAATGGAACCGAAAAAACAAACTTCCTATATCCTAGctaatgtctatcatcgtgatttgaagcc
aaagaacatattggcaaacgctaactgtaaactcaaaatatgcgatttcggtctagcacgagtg
gcatttaa

									
								

					

						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
						
							CTAATGTCTATCATCGTGATTTGAAGCCAAAGAACATATTGGCAAACGCTAACTGTAAACTCAA
AATATGCGATTTCGGTCTAGCACGAGTGGCATTTAATGACACTCCTACAACGGTATTCTGGACG
GTGTGTGACATTGTACATTCATATATTGCATTATCTGCAATAGTACATGCATAGTTTTGCTACG
TAAGTTTTATTTTCTATTTCATAATTTTCTTTCTTTGTTTTTTGCAGGATTATGTTGCTACTAG
ATGGTATAGGGCTCCTGAGTTGTGTGGTTCTTTCTTTACTAAGGTAATTAATCTGCAGTTCTCA
TGTGTTGTTTGTTGGAATATTTGCTTGGGCTACTTCCCCAGAAGCCCTATAACATGATTTGCTT
GGTCTACTTGATGGTATATTGCTGAATTATATTTTCTGTTAAAATTCATTGTCACATCCCTATA
CATGATTTTGCTATGGTTTTCTGCATGCTCTTCTGACTGTACACATTTTATCATAGAGAAATGT
AATATTTTTATATCATAAAGACATAATATTTCAATTTAACTAGTGTAATACATTGAGTGTTATG
CCAATAGAATGATAATGGCAGCTATTCTAGAGCCTAGTATTCATGGCCACACACACTATACTGG
TGGTATGCCAACATGCTGGTATACAATAGTTGTCACTTGTCAATCTGTGGCCCTTCCTTGATAT
GCAGCCATTTATGTCAGTCATAGCAACTACTGTTGATGCTAAGTGGACTTCCTAATATTTAGCA
ATCACAATTCGAATTAACTAGTGTTACATATCGTCATAAATCATACTTCACATTTTGTGGCCTC
TTTCCCATTCCTCCAAGCCTTCATTTGGATCTTTGACAACGATCGTGTGACTATATTCTGTTTT
ATGATGTCTGGCTCAATTTTACTTTATCTTGATTAATCGGGTGACTTGATTCCAAGCTCCCTAC
AGATATGCACATGTTACTGTTTAGAAACTTCATATGCGGTCATTTTTTATTTTCCTGAAAAATT
AATGTCTATGTGTTAAATTTATCCTGTTGTACATAACCCTTTTTATGCACAAGTACCCCCATAG
CTATATGTGATTTTACATCAGGCCATTCATCCCCTTTGATTCCGATTTGGCTTTTTACCAGCTG
GTATAACAGGGATCATTCCTTCCAAATTGTCTTGTTCAGAAGCTGCATTCATAGGCGGCATTTG
CTACCTTTTTAGTAGGTATTGCCTTCATTGATCATCATAGATAGTTTTATTAGTATTATTTGGT
TAGGTTTGAAAAGTACAGCATTTACAGTAACCTGAGAGTTTATTCGTCTGTTTGACATCTAGGC
GAAGTGATAGGATTAATGTAGTTAGCTGATATTTTCTTCACTTTTACGCCAACTGTTCAACTAA
TATCTGCTCCTCTGTAAATTTCAATGGATGCTAAATCGATTGTACTGTGCAGTATTCACCAGCT
ATTGACATATGGAGTATTGGCTGCATTTTTGCTGAGATTTTAACTGGGAAGCCTTTGTTTCCTG
GTAAAAATGTGGTTCACCAGTTGGATCTGATGACTGATCTCTTGGGTACTCCATCAATGGATAC
TGTTACAAGGGTATGCTTTGCCTTTCATCAATGACTAATGCTCCAAAGTGAACTATCCATAATA
AATGCCAGGTATCATGTTGTAACTGCAGATTCGGAATGAGAAAGCAAGGAGGTACTTGAGCAGT
ATGAGGAAAAAGCAGCCAGTACCTTTTTCTGAGAGATTCCCAAAAGCAGATCCTGCTGCACTCA
AACTTCTGCAGAGGCTTTTAGCATTCGACCCGAAGGATAGACCAACTGCCGAAGAGGTTAGTTT
TTATTAATGAATGTCGAATTAAAACTTCTGTAGTTTGTACTTCCATGTGATGGCTGCACCTGGT
GTCATTTGGTGCTGAAATCATTCTAATGATATTCATTTTCATTGATTTACATATCAGGCGTTGG
CTGATCCATATTTTAAAGGCCTTGCGAAAGCAGAGAGAGAACCATCATGCCAGCCAATAACAAA
GATGGAGTTTGAGTTTGAGCGGAGAAAGGTGACTAAAGAGGATGTGAAGGAACTTATATTCCGT
GAAATACTGGAGTATCATCCTCAACTTCTTAAGGATTACATGAATGGAACCGAAAAAACAAACT
TCCTATATCCTAG
						
					

			
		

Sequences
Splice junction sequence	ATGTGAAGGAACTTATATTCCGTGAAATACTGGAGTATCATCCTCAACTTCTTAAGGATTACAT GAATGGAACCGAAAAAACAAACTTCCTATATCCTAGctaatgtctatcatcgtgatttgaagcc aaagaacatattggcaaacgctaactgtaaactcaaaatatgcgatttcggtctagcacgagtg gcatttaa
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	CTAATGTCTATCATCGTGATTTGAAGCCAAAGAACATATTGGCAAACGCTAACTGTAAACTCAA AATATGCGATTTCGGTCTAGCACGAGTGGCATTTAATGACACTCCTACAACGGTATTCTGGACG GTGTGTGACATTGTACATTCATATATTGCATTATCTGCAATAGTACATGCATAGTTTTGCTACG TAAGTTTTATTTTCTATTTCATAATTTTCTTTCTTTGTTTTTTGCAGGATTATGTTGCTACTAG ATGGTATAGGGCTCCTGAGTTGTGTGGTTCTTTCTTTACTAAGGTAATTAATCTGCAGTTCTCA TGTGTTGTTTGTTGGAATATTTGCTTGGGCTACTTCCCCAGAAGCCCTATAACATGATTTGCTT GGTCTACTTGATGGTATATTGCTGAATTATATTTTCTGTTAAAATTCATTGTCACATCCCTATA CATGATTTTGCTATGGTTTTCTGCATGCTCTTCTGACTGTACACATTTTATCATAGAGAAATGT AATATTTTTATATCATAAAGACATAATATTTCAATTTAACTAGTGTAATACATTGAGTGTTATG CCAATAGAATGATAATGGCAGCTATTCTAGAGCCTAGTATTCATGGCCACACACACTATACTGG TGGTATGCCAACATGCTGGTATACAATAGTTGTCACTTGTCAATCTGTGGCCCTTCCTTGATAT GCAGCCATTTATGTCAGTCATAGCAACTACTGTTGATGCTAAGTGGACTTCCTAATATTTAGCA ATCACAATTCGAATTAACTAGTGTTACATATCGTCATAAATCATACTTCACATTTTGTGGCCTC TTTCCCATTCCTCCAAGCCTTCATTTGGATCTTTGACAACGATCGTGTGACTATATTCTGTTTT ATGATGTCTGGCTCAATTTTACTTTATCTTGATTAATCGGGTGACTTGATTCCAAGCTCCCTAC AGATATGCACATGTTACTGTTTAGAAACTTCATATGCGGTCATTTTTTATTTTCCTGAAAAATT AATGTCTATGTGTTAAATTTATCCTGTTGTACATAACCCTTTTTATGCACAAGTACCCCCATAG CTATATGTGATTTTACATCAGGCCATTCATCCCCTTTGATTCCGATTTGGCTTTTTACCAGCTG GTATAACAGGGATCATTCCTTCCAAATTGTCTTGTTCAGAAGCTGCATTCATAGGCGGCATTTG CTACCTTTTTAGTAGGTATTGCCTTCATTGATCATCATAGATAGTTTTATTAGTATTATTTGGT TAGGTTTGAAAAGTACAGCATTTACAGTAACCTGAGAGTTTATTCGTCTGTTTGACATCTAGGC GAAGTGATAGGATTAATGTAGTTAGCTGATATTTTCTTCACTTTTACGCCAACTGTTCAACTAA TATCTGCTCCTCTGTAAATTTCAATGGATGCTAAATCGATTGTACTGTGCAGTATTCACCAGCT ATTGACATATGGAGTATTGGCTGCATTTTTGCTGAGATTTTAACTGGGAAGCCTTTGTTTCCTG GTAAAAATGTGGTTCACCAGTTGGATCTGATGACTGATCTCTTGGGTACTCCATCAATGGATAC TGTTACAAGGGTATGCTTTGCCTTTCATCAATGACTAATGCTCCAAAGTGAACTATCCATAATA AATGCCAGGTATCATGTTGTAACTGCAGATTCGGAATGAGAAAGCAAGGAGGTACTTGAGCAGT ATGAGGAAAAAGCAGCCAGTACCTTTTTCTGAGAGATTCCCAAAAGCAGATCCTGCTGCACTCA AACTTCTGCAGAGGCTTTTAGCATTCGACCCGAAGGATAGACCAACTGCCGAAGAGGTTAGTTT TTATTAATGAATGTCGAATTAAAACTTCTGTAGTTTGTACTTCCATGTGATGGCTGCACCTGGT GTCATTTGGTGCTGAAATCATTCTAATGATATTCATTTTCATTGATTTACATATCAGGCGTTGG CTGATCCATATTTTAAAGGCCTTGCGAAAGCAGAGAGAGAACCATCATGCCAGCCAATAACAAA GATGGAGTTTGAGTTTGAGCGGAGAAAGGTGACTAAAGAGGATGTGAAGGAACTTATATTCCGT GAAATACTGGAGTATCATCCTCAACTTCTTAAGGATTACATGAATGGAACCGAAAAAACAAACT TCCTATATCCTAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.169859559

Conservation Information
Conserved circRNAs	NA
PMCS	0.169859559

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27176564-27174408(+)
27175974-27174408(+)
						
						Potential amino acid sequence
						
							MEPKKQTSYILANVYHRDLKPKNILANANCKLKICDFGLARVAFNDTPTTVFWTDYVATRWYRA
PELCGSFFTKYSPAIDIWSIGCIFAEILTGKPLFPGKNVVHQLDLMTDLLGTPSMDTVTRIRNE
KARRYLSSMRKKQPVPFSERFPKADPAALKLLQRLLAFDPKDRPTAEEALADPYFKGLAKAERE
PSCQPITKMEFEFERRKVTKEDVKELIFREILEYHPQLLKDYMNGTEKTNFLYPS*(+)
MTDLLGTPSMDTVTRIRNEKARRYLSSMRKKQPVPFSERFPKADPAALKLLQRLLAFDPKDRPT
AEEALADPYFKGLAKAEREPSCQPITKMEFEFERRKVTKEDVKELIFREILEYHPQLLKDYMNG
TEKTNFLYPS*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27176564-27174408(+) 27175974-27174408(+)
Potential amino acid sequence	MEPKKQTSYILANVYHRDLKPKNILANANCKLKICDFGLARVAFNDTPTTVFWTDYVATRWYRA PELCGSFFTKYSPAIDIWSIGCIFAEILTGKPLFPGKNVVHQLDLMTDLLGTPSMDTVTRIRNE KARRYLSSMRKKQPVPFSERFPKADPAALKLLQRLLAFDPKDRPTAEEALADPYFKGLAKAERE PSCQPITKMEFEFERRKVTKEDVKELIFREILEYHPQLLKDYMNGTEKTNFLYPS(+) MTDLLGTPSMDTVTRIRNEKARRYLSSMRKKQPVPFSERFPKADPAALKLLQRLLAFDPKDRPT AEEALADPYFKGLAKAEREPSCQPITKMEFEFERRKVTKEDVKELIFREILEYHPQLLKDYMNG TEKTNFLYPS(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os01g0665250_circ_g.3

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