Plant Circular RNA Database

Detail information of Os06g0724600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0724600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_032411
					
						Alias
						Os_ciR10657
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 30781831-30783130  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0724600						
					
						Parent gene annotation
						
							Similar to Transformer-SR ribonucleoprotein (Fragment). (Os06t07
24600-01);Similar to transformer-2 protein. (Os06t0724600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0724600_circ_g.1 Os06g0724600_circ_g.3 						
					
						Support reads
						2/2
					
						Tissues
						root/shoot, 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
						Os06t0724650-00:4
Os06t0724600-01:5
Os06t0724650-00:4
Os06t0724600-02:4

General Information
CircRNA Name	Os06g0724600_circ_g.2
ID in PlantcircBase	osa_circ_032411
Alias	Os_ciR10657
Organism	Oryza sativa
Position	chr6: 30781831-30783130 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0724600
Parent gene annotation	Similar to Transformer-SR ribonucleoprotein (Fragment). (Os06t07 24600-01);Similar to transformer-2 protein. (Os06t0724600-02)
Parent gene strand	+
Alternative splicing	Os06g0724600_circ_g.1 Os06g0724600_circ_g.3
Support reads	2/2
Tissues	root/shoot, 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	Os06t0724650-00:4 Os06t0724600-01:5 Os06t0724650-00:4 Os06t0724600-02:4

			
						 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  
						
							ATATCCTAGTTTGGACCCTCGACTTTGTGCTAATGGATTTCTGTTTTATTTCAGTCACGTCGAG
GTCGCCCAAGGACGCCAACTCCTGGAAGCTATCTTGgtactcagggtccccctctccttacagg
ggaaacccaaaatcaaggtcaagatcacgatcacctgctgctcgatcccagtctaggtctccag
tccctgac

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 440
Transcript exons: 30781831-30781971,30782229-30782331,30782411-30782560,30
783085-30783130
GTACTCAGGGTCCCCCTCTCCTTACAGGGGAAACCCAAAATCAAGGTCAAGATCACGATCACCT
GCTGCTCGATCCCAGTCTAGGTCTCCAGTCCCTGACCCTAGATCTCAGGCAAGGTCAAGATCAA
GAAGCCGCGAGAGGGAGCCTGATGCTGTAAATCATGGAAATACACTGTATGTGACTGGACTCTC
TTCTCGAGTGACTGAAAGAGAACTTAAAGATTACTTCTCTAAAGAAGGAAGGGTGACTAGTTGC
CATGTTGTCCTTGAACCCCATACACGTGTTTCTCGTGGATTTGCTTTTGTCACCATGGACACTG
TTGAAGATGCTGAACGCTGTATCAAGTATCTTAACCAGTCTGTAATGGAAGGCCGGAACATCAC
AGTTGAAAAGTCACGTCGAGGTCGCCCAAGGACGCCAACTCCTGGAAGCTATCTTG
Transcript length: 779
Transcript exons: 30781831-30781971,30782229-30782331,30782411-30782560,30
782658-30782996,30783085-30783130
GTACTCAGGGTCCCCCTCTCCTTACAGGGGAAACCCAAAATCAAGGTCAAGATCACGATCACCT
GCTGCTCGATCCCAGTCTAGGTCTCCAGTCCCTGACCCTAGATCTCAGGCAAGGTCAAGATCAA
GAAGCCGCGAGAGGGAGCCTGATGCTGTAAATCATGGAAATACACTGTATGTGACTGGACTCTC
TTCTCGAGTGACTGAAAGAGAACTTAAAGATTACTTCTCTAAAGAAGGAAGGGTGACTAGTTGC
CATGTTGTCCTTGAACCCCATACACGTGTTTCTCGTGGATTTGCTTTTGTCACCATGGACACTG
TTGAAGATGCTGAACGCTGTATCAAGTATCTTAACCAGTCTGTAATGGAAGGCCGGAACATCAC
AGTTGAAAAGAAGAGATTGTGCAAGCTATGTGCAACAATCAAGATGCTGAGTTCATCAATTTCA
ACTTTAGCTCATACAGCTTGATCAATGGACAGCCCAAAGGGTTACTATGCACCACAAGATTCAC
AACTAAACATAGCAAATTTTCAACTAAACCCCTGAGCATTCATCTTCAACTTCCAACATCAACT
AATCAACGGGCATTCACAACTCGTTAGACAAGCATGTGTGGTGACGTACGCATAGCAAATATTG
GATCCCTGCTAGTTGGAGTTTGCGCTCTTCATTACATATTTCCTCCATTGGTCCGTAATTGCGG
CATATGTTGATTGATCGTAAGAGGAACTTTCACGTCGAGGTCGCCCAAGGACGCCAACTCCTGG
AAGCTATCTTG
						
					

						Genomic sequence
						
							GTACTCAGGGTCCCCCTCTCCTTACAGGGGAAACCCAAAATCAAGGTCAAGATCACGATCACCT
GCTGCTCGATCCCAGTCTAGGTCTCCAGTCCCTGACCCTAGATCTCAGGCAAGGTCAAGATCAA
GAAGCCGCGAGAGGTATTTGCTTATATTGCATATGCTGCCATCTATTTCACATAGTATTTGCTA
ATATTGCATATGCTGCCATCTATTTCACATATAATGTTTCTCTTCACAAATGGATGAAAGAAAG
AGGGGTAGAGGGACTGATGGATGTTTTGTGTTCTGTAAACAAAATTATTGTAGTACAGTAACAG
CTGACTTGTGTATTGTGTGTTCTGTATTTACATGGAAATCAATCAACATCCATGTTATTAACTT
GTTTTTGGTTGCAGGGAGCCTGATGCTGTAAATCATGGAAATACACTGTATGTGACTGGACTCT
CTTCTCGAGTGACTGAAAGAGAACTTAAAGATTACTTCTCTAAAGAAGGAAGGGTTAGTTGACT
TCATAAAGTTACCGCAATATGTTCCTATTCTGCAGAATCACTGTCTTATGTAATTTCCTGTTTG
TTAGGTGACTAGTTGCCATGTTGTCCTTGAACCCCATACACGTGTTTCTCGTGGATTTGCTTTT
GTCACCATGGACACTGTTGAAGATGCTGAACGCTGTATCAAGTATCTTAACCAGTCTGTAATGG
AAGGCCGGAACATCACAGTTGAAAAGGTAATTTGTTTGTTCATATCTGCTTGGGTTGTTTGATC
AGTATGCAACCTTGTATTTCCTGAATGTTGACCTGGAGGTTTTTTTGGTTATCATTCAGAAGAG
ATTGTGCAAGCTATGTGCAACAATCAAGATGCTGAGTTCATCAATTTCAACTTTAGCTCATACA
GCTTGATCAATGGACAGCCCAAAGGGTTACTATGCACCACAAGATTCACAACTAAACATAGCAA
ATTTTCAACTAAACCCCTGAGCATTCATCTTCAACTTCCAACATCAACTAATCAACGGGCATTC
ACAACTCGTTAGACAAGCATGTGTGGTGACGTACGCATAGCAAATATTGGATCCCTGCTAGTTG
GAGTTTGCGCTCTTCATTACATATTTCCTCCATTGGTCCGTAATTGCGGCATATGTTGATTGAT
CGTAAGAGGAACTTGTAATTACCTACACAATCCAGACTGACACTTCTCATATCCTAGTTTGGAC
CCTCGACTTTGTGCTAATGGATTTCTGTTTTATTTCAGTCACGTCGAGGTCGCCCAAGGACGCC
AACTCCTGGAAGCTATCTTG
						
					

			
		

Sequences
Splice junction sequence	ATATCCTAGTTTGGACCCTCGACTTTGTGCTAATGGATTTCTGTTTTATTTCAGTCACGTCGAG GTCGCCCAAGGACGCCAACTCCTGGAAGCTATCTTGgtactcagggtccccctctccttacagg ggaaacccaaaatcaaggtcaagatcacgatcacctgctgctcgatcccagtctaggtctccag tccctgac
Assembled circRNA sequence	Yes 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	Transcript length: 440 Transcript exons: 30781831-30781971,30782229-30782331,30782411-30782560,30 783085-30783130 GTACTCAGGGTCCCCCTCTCCTTACAGGGGAAACCCAAAATCAAGGTCAAGATCACGATCACCT GCTGCTCGATCCCAGTCTAGGTCTCCAGTCCCTGACCCTAGATCTCAGGCAAGGTCAAGATCAA GAAGCCGCGAGAGGGAGCCTGATGCTGTAAATCATGGAAATACACTGTATGTGACTGGACTCTC TTCTCGAGTGACTGAAAGAGAACTTAAAGATTACTTCTCTAAAGAAGGAAGGGTGACTAGTTGC CATGTTGTCCTTGAACCCCATACACGTGTTTCTCGTGGATTTGCTTTTGTCACCATGGACACTG TTGAAGATGCTGAACGCTGTATCAAGTATCTTAACCAGTCTGTAATGGAAGGCCGGAACATCAC AGTTGAAAAGTCACGTCGAGGTCGCCCAAGGACGCCAACTCCTGGAAGCTATCTTG Transcript length: 779 Transcript exons: 30781831-30781971,30782229-30782331,30782411-30782560,30 782658-30782996,30783085-30783130 GTACTCAGGGTCCCCCTCTCCTTACAGGGGAAACCCAAAATCAAGGTCAAGATCACGATCACCT GCTGCTCGATCCCAGTCTAGGTCTCCAGTCCCTGACCCTAGATCTCAGGCAAGGTCAAGATCAA GAAGCCGCGAGAGGGAGCCTGATGCTGTAAATCATGGAAATACACTGTATGTGACTGGACTCTC TTCTCGAGTGACTGAAAGAGAACTTAAAGATTACTTCTCTAAAGAAGGAAGGGTGACTAGTTGC CATGTTGTCCTTGAACCCCATACACGTGTTTCTCGTGGATTTGCTTTTGTCACCATGGACACTG TTGAAGATGCTGAACGCTGTATCAAGTATCTTAACCAGTCTGTAATGGAAGGCCGGAACATCAC AGTTGAAAAGAAGAGATTGTGCAAGCTATGTGCAACAATCAAGATGCTGAGTTCATCAATTTCA ACTTTAGCTCATACAGCTTGATCAATGGACAGCCCAAAGGGTTACTATGCACCACAAGATTCAC AACTAAACATAGCAAATTTTCAACTAAACCCCTGAGCATTCATCTTCAACTTCCAACATCAACT AATCAACGGGCATTCACAACTCGTTAGACAAGCATGTGTGGTGACGTACGCATAGCAAATATTG GATCCCTGCTAGTTGGAGTTTGCGCTCTTCATTACATATTTCCTCCATTGGTCCGTAATTGCGG CATATGTTGATTGATCGTAAGAGGAACTTTCACGTCGAGGTCGCCCAAGGACGCCAACTCCTGG AAGCTATCTTG
Genomic sequence	GTACTCAGGGTCCCCCTCTCCTTACAGGGGAAACCCAAAATCAAGGTCAAGATCACGATCACCT GCTGCTCGATCCCAGTCTAGGTCTCCAGTCCCTGACCCTAGATCTCAGGCAAGGTCAAGATCAA GAAGCCGCGAGAGGTATTTGCTTATATTGCATATGCTGCCATCTATTTCACATAGTATTTGCTA ATATTGCATATGCTGCCATCTATTTCACATATAATGTTTCTCTTCACAAATGGATGAAAGAAAG AGGGGTAGAGGGACTGATGGATGTTTTGTGTTCTGTAAACAAAATTATTGTAGTACAGTAACAG CTGACTTGTGTATTGTGTGTTCTGTATTTACATGGAAATCAATCAACATCCATGTTATTAACTT GTTTTTGGTTGCAGGGAGCCTGATGCTGTAAATCATGGAAATACACTGTATGTGACTGGACTCT CTTCTCGAGTGACTGAAAGAGAACTTAAAGATTACTTCTCTAAAGAAGGAAGGGTTAGTTGACT TCATAAAGTTACCGCAATATGTTCCTATTCTGCAGAATCACTGTCTTATGTAATTTCCTGTTTG TTAGGTGACTAGTTGCCATGTTGTCCTTGAACCCCATACACGTGTTTCTCGTGGATTTGCTTTT GTCACCATGGACACTGTTGAAGATGCTGAACGCTGTATCAAGTATCTTAACCAGTCTGTAATGG AAGGCCGGAACATCACAGTTGAAAAGGTAATTTGTTTGTTCATATCTGCTTGGGTTGTTTGATC AGTATGCAACCTTGTATTTCCTGAATGTTGACCTGGAGGTTTTTTTGGTTATCATTCAGAAGAG ATTGTGCAAGCTATGTGCAACAATCAAGATGCTGAGTTCATCAATTTCAACTTTAGCTCATACA GCTTGATCAATGGACAGCCCAAAGGGTTACTATGCACCACAAGATTCACAACTAAACATAGCAA ATTTTCAACTAAACCCCTGAGCATTCATCTTCAACTTCCAACATCAACTAATCAACGGGCATTC ACAACTCGTTAGACAAGCATGTGTGGTGACGTACGCATAGCAAATATTGGATCCCTGCTAGTTG GAGTTTGCGCTCTTCATTACATATTTCCTCCATTGGTCCGTAATTGCGGCATATGTTGATTGAT CGTAAGAGGAACTTGTAATTACCTACACAATCCAGACTGACACTTCTCATATCCTAGTTTGGAC CCTCGACTTTGTGCTAATGGATTTCTGTTTTATTTCAGTCACGTCGAGGTCGCCCAAGGACGCC AACTCCTGGAAGCTATCTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016632 						
					
						PMCS
						0.415531019

Conservation Information
Conserved circRNAs	osi_circ_016632
PMCS	0.415531019

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							30782478-30782242(+)
						
						Potential amino acid sequence
						
							MDTVEDAERCIKYLNQSVMEGRNITVEKSRRGRPRTPTPGSYLGTQGPPLLTGETQNQGQDHDH
LLLDPSLGLQSLTLDLRQGQDQEAARGSLML*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	30782478-30782242(+)
Potential amino acid sequence	MDTVEDAERCIKYLNQSVMEGRNITVEKSRRGRPRTPTPGSYLGTQGPPLLTGETQNQGQDHDH LLLDPSLGLQSLTLDLRQGQDQEAARGSLML*(+)
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 Os06g0724600_circ_g.2

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