Plant Circular RNA Database

Detail information of Os06g0656500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0656500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_031824
					
						Alias
						Os06circ15558/Os_ciR1086
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 26947004-26948514  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os06g0656500						
					
						Parent gene annotation
						
							4-coumarate:coenzyme A ligase, Lignin biosynthesis, Defense agai
nst wounding (Os06t0656500-01);Similar to cDNA clone:J023002B16,
 full insert sequence. (Os06t0656500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0656500_circ_g.2 Os06g0656566_circ_g.1 Os06g0656566_circ_g.2 						
					
						Support reads
						5/18/11
					
						Tissues
						leaf/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  
						
							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
						Os06t0656500-01:2
Os06t0656500-02:2

General Information
CircRNA Name	Os06g0656500_circ_g.1
ID in PlantcircBase	osa_circ_031824
Alias	Os06circ15558/Os_ciR1086
Organism	Oryza sativa
Position	chr6: 26947004-26948514 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os06g0656500
Parent gene annotation	4-coumarate:coenzyme A ligase, Lignin biosynthesis, Defense agai nst wounding (Os06t0656500-01);Similar to cDNA clone:J023002B16, full insert sequence. (Os06t0656500-02)
Parent gene strand	-
Alternative splicing	Os06g0656500_circ_g.2 Os06g0656566_circ_g.1 Os06g0656566_circ_g.2
Support reads	5/18/11
Tissues	leaf/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	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	Os06t0656500-01:2 Os06t0656500-02:2

			
						 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  
						
							CCAGCAGCACGGAGTTGAGCGAGTAGATGTGGAACAGCGGCAGCAAGCACAGCACCACGTCCTC
CCTCCTGAAGTACAGGTTCGGGTTCTCCCCGTCCACctttcatgatttgttctccccggatgca
aatctccccggactggttccggccaagggtggcgccggtgtcagggtcaacgatcttcagctcc
gcgtttct

									
								

					

						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: 151
Transcript exons: 26947004-26947053,26948414-26948514
CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGGCCAGCAGCACGGA
GTTGAGCGAGTAGATGTGGAACAGCGGCAGCAAGCACAGCACCACGTCCTCCCTCCTGAAGTAC
AGGTTCGGGTTCTCCCCGTCCAC
Transcript length: 156
Transcript exons: 26947004-26947096,26948452-26948514
CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC
GGTGTCAGGGTCAACGATCTTCAGCTCCGCGGCAGCAAGCACAGCACCACGTCCTCCCTCCTGA
AGTACAGGTTCGGGTTCTCCCCGTCCAC
Transcript length: 313
Transcript exons: 26947004-26947113,26948158-26948290,26948445-26948514
CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC
GGTGTCAGGGTCAACGATCTTCAGCTCCGCGTTTCTGACGACTGTCCACCTGTCCCAGGACGGC
GTTGGGGATCTTGGCCATGAAGGCGTCCTGGAGGTCCTTCCCCATGGGGGCGGCGCCGGACATA
ACCATGCGGATGGAGGCGAGGTCGTCGGCGGTGACGCGGGGGCTCTTGGCGGGAACAGCGGCAG
CAAGCACAGCACCACGTCCTCCCTCCTGAAGTACAGGTTCGGGTTCTCCCCGTCCAC
Transcript length: 325
Transcript exons: 26947004-26947160,26948347-26948514
CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC
GGTGTCAGGGTCAACGATCTTCAGCTCCGCGTTTCTGACGACTGTCCCGCACGAGCCGGACTTG
ACCTCGAATGGCTCCTTTGCGAAGGCCAGCAGGTCCACCAGCGCGCCCAGGTCGAACTTGCGCA
TGATCACGATCGCCGACCCGGCTCGCAGCCCCGCCAGCAGCACGGAGTTGAGCGAGTAGATGTG
GAACAGCGGCAGCAAGCACAGCACCACGTCCTCCCTCCTGAAGTACAGGTTCGGGTTCTCCCCG
TCCAC
Transcript length: 553
Transcript exons: 26947004-26947202,26948161-26948514
CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC
GGTGTCAGGGTCAACGATCTTCAGCTCCGCGTTTCTGACGACTGTCCCGCACGAGCCGGACTTG
ACCTCGAATGGCTCCTTTGCGAAGGCCAGACACATGGCCAGCACAGGTCCAGCCTCAGTCATCC
CATACCCCTGTCCCAGGACGGCGTTGGGGATCTTGGCCATGAAGGCGTCCTGGAGGTCCTTCCC
CATGGGGGCGGCGCCGGACATAACCATGCGGATGGAGGCGAGGTCGTCGGCGGTGACGCGGGGG
CTCTTGGCGATCTCCACCACGATGGGCGGCACGAACGGCGCGACGGTGACGCCGTGCCTCCGCG
TCAGGTCCACCAGCGCGCCCAGGTCGAACTTGCGCATGATCACGATCGCCGACCCGGCTCGCAG
CCCCGCCAGCAGCACGGAGTTGAGCGAGTAGATGTGGAACAGCGGCAGCAAGCACAGCACCACG
TCCTCCCTCCTGAAGTACAGGTTCGGGTTCTCCCCGTCCAC
						
					

						Genomic sequence
						
							CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC
GGTGTCAGGGTCAACGATCTTCAGCTCCGCGTTTCTGACGACTGTCCCGCACGAGCCGGACTTG
ACCTCGAATGGCTCCTTTGCGAAGGCCAGACACATGGCCAGCACAGGTCCAGCCTCAGTCATCC
CATACCCCTGTCAGAAAAAGAAAAAAAAACGAAATGCAGTGAATTTCTCAGCGATTCAGTCACT
TAAGGATCAGAAATTTCACATCAGTGTCAGTGTCACCCACGGTGCATTGTGAACATTGCAGTGA
GGTGAAACATCACACACAAACGAACACAACGGGTGGGGCGCACTGCACAGCACAGCCATCAGGT
GTGGGGGCTTGTCCACCCAGAGATCTCAACAAAAGGTAGTTAACCGAAATGCTTTCTTAAGGAG
ACAGCAACCGAAATCATGGAGTTGGCGTGTGCTTCCGACCTTTCACCACACTTGTCCTGGCCGG
CGATCGAGCGCCCGTGGAACGCGAACACACACACACCCCACCTACAGGCCTCGATGCGTAAAGG
GGGTCGCCCATTTCGCTTCCAATCTGTTGAGACGTCGCCTTACCACACACCCCAAGTAACCAGC
CGGCCACTAACGATTCTCCTCTGCCTTTCGCGCCACAAAAGGAGCCAAAAGCTTCGACGCACTA
CCACCCACCTACTGCTCATCAAAATTTCTCTCAATAATATGCAATCCTAAGCTCTAGTAGCATG
TATAGCAACCACTGGATTCCATCCAAGATTCCATATATCGCCTTGTACCAACAGGTACTGTACT
GCCGACGCGCATTGCATCGCATATTTGCATGGCATTCACAACTGAAAGCGGCATGAGATATAAT
CTTATCTTTTCGCCAATACTTATACTTATGTGTTAAAATTTAAATTTTAAAAACTTAATTTTAA
AGTTAATTTTGTGGGTTTTTTTTATCATAGTTTACTTGGTTTTGAGTAACTAAGGATACGTATA
TCAAAGTTCTACTCACATATTATTTCTTGTGTGTTAATAAGAGAGACAAATAAGCATACGCTAT
AATTTAGGAATTGGGGAAGGGAATTGAATGGATCAGTGTGTGAAGGGCATATTAGTTTGAGCGG
ATCACCTGTCCCAGGACGGCGTTGGGGATCTTGGCCATGAAGGCGTCCTGGAGGTCCTTCCCCA
TGGGGGCGGCGCCGGACATAACCATGCGGATGGAGGCGAGGTCGTCGGCGGTGACGCGGGGGCT
CTTGGCGATCTCCACCACGATGGGCGGCACGAACGGCGCGACGGTGACGCCGTGCCTCCGCGTC
AGGTCCACCAGCGCGCCCAGGTCGAACTTGCGCATGATCACGATCGCCGACCCGGCTCGCAGCC
CCGCCAGCAGCACGGAGTTGAGCGAGTAGATGTGGAACAGCGGCAGCAAGCACAGCACCACGTC
CTCCCTCCTGAAGTACAGGTTCGGGTTCTCCCCGTCCAC
						
					

			
		

Sequences
Splice junction sequence	CCAGCAGCACGGAGTTGAGCGAGTAGATGTGGAACAGCGGCAGCAAGCACAGCACCACGTCCTC CCTCCTGAAGTACAGGTTCGGGTTCTCCCCGTCCACctttcatgatttgttctccccggatgca aatctccccggactggttccggccaagggtggcgccggtgtcagggtcaacgatcttcagctcc gcgtttct
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: 151 Transcript exons: 26947004-26947053,26948414-26948514 CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGGCCAGCAGCACGGA GTTGAGCGAGTAGATGTGGAACAGCGGCAGCAAGCACAGCACCACGTCCTCCCTCCTGAAGTAC AGGTTCGGGTTCTCCCCGTCCAC Transcript length: 156 Transcript exons: 26947004-26947096,26948452-26948514 CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC GGTGTCAGGGTCAACGATCTTCAGCTCCGCGGCAGCAAGCACAGCACCACGTCCTCCCTCCTGA AGTACAGGTTCGGGTTCTCCCCGTCCAC Transcript length: 313 Transcript exons: 26947004-26947113,26948158-26948290,26948445-26948514 CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC GGTGTCAGGGTCAACGATCTTCAGCTCCGCGTTTCTGACGACTGTCCACCTGTCCCAGGACGGC GTTGGGGATCTTGGCCATGAAGGCGTCCTGGAGGTCCTTCCCCATGGGGGCGGCGCCGGACATA ACCATGCGGATGGAGGCGAGGTCGTCGGCGGTGACGCGGGGGCTCTTGGCGGGAACAGCGGCAG CAAGCACAGCACCACGTCCTCCCTCCTGAAGTACAGGTTCGGGTTCTCCCCGTCCAC Transcript length: 325 Transcript exons: 26947004-26947160,26948347-26948514 CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC GGTGTCAGGGTCAACGATCTTCAGCTCCGCGTTTCTGACGACTGTCCCGCACGAGCCGGACTTG ACCTCGAATGGCTCCTTTGCGAAGGCCAGCAGGTCCACCAGCGCGCCCAGGTCGAACTTGCGCA TGATCACGATCGCCGACCCGGCTCGCAGCCCCGCCAGCAGCACGGAGTTGAGCGAGTAGATGTG GAACAGCGGCAGCAAGCACAGCACCACGTCCTCCCTCCTGAAGTACAGGTTCGGGTTCTCCCCG TCCAC Transcript length: 553 Transcript exons: 26947004-26947202,26948161-26948514 CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC GGTGTCAGGGTCAACGATCTTCAGCTCCGCGTTTCTGACGACTGTCCCGCACGAGCCGGACTTG ACCTCGAATGGCTCCTTTGCGAAGGCCAGACACATGGCCAGCACAGGTCCAGCCTCAGTCATCC CATACCCCTGTCCCAGGACGGCGTTGGGGATCTTGGCCATGAAGGCGTCCTGGAGGTCCTTCCC CATGGGGGCGGCGCCGGACATAACCATGCGGATGGAGGCGAGGTCGTCGGCGGTGACGCGGGGG CTCTTGGCGATCTCCACCACGATGGGCGGCACGAACGGCGCGACGGTGACGCCGTGCCTCCGCG TCAGGTCCACCAGCGCGCCCAGGTCGAACTTGCGCATGATCACGATCGCCGACCCGGCTCGCAG CCCCGCCAGCAGCACGGAGTTGAGCGAGTAGATGTGGAACAGCGGCAGCAAGCACAGCACCACG TCCTCCCTCCTGAAGTACAGGTTCGGGTTCTCCCCGTCCAC
Genomic sequence	CTTTCATGATTTGTTCTCCCCGGATGCAAATCTCCCCGGACTGGTTCCGGCCAAGGGTGGCGCC GGTGTCAGGGTCAACGATCTTCAGCTCCGCGTTTCTGACGACTGTCCCGCACGAGCCGGACTTG ACCTCGAATGGCTCCTTTGCGAAGGCCAGACACATGGCCAGCACAGGTCCAGCCTCAGTCATCC CATACCCCTGTCAGAAAAAGAAAAAAAAACGAAATGCAGTGAATTTCTCAGCGATTCAGTCACT TAAGGATCAGAAATTTCACATCAGTGTCAGTGTCACCCACGGTGCATTGTGAACATTGCAGTGA GGTGAAACATCACACACAAACGAACACAACGGGTGGGGCGCACTGCACAGCACAGCCATCAGGT GTGGGGGCTTGTCCACCCAGAGATCTCAACAAAAGGTAGTTAACCGAAATGCTTTCTTAAGGAG ACAGCAACCGAAATCATGGAGTTGGCGTGTGCTTCCGACCTTTCACCACACTTGTCCTGGCCGG CGATCGAGCGCCCGTGGAACGCGAACACACACACACCCCACCTACAGGCCTCGATGCGTAAAGG GGGTCGCCCATTTCGCTTCCAATCTGTTGAGACGTCGCCTTACCACACACCCCAAGTAACCAGC CGGCCACTAACGATTCTCCTCTGCCTTTCGCGCCACAAAAGGAGCCAAAAGCTTCGACGCACTA CCACCCACCTACTGCTCATCAAAATTTCTCTCAATAATATGCAATCCTAAGCTCTAGTAGCATG TATAGCAACCACTGGATTCCATCCAAGATTCCATATATCGCCTTGTACCAACAGGTACTGTACT GCCGACGCGCATTGCATCGCATATTTGCATGGCATTCACAACTGAAAGCGGCATGAGATATAAT CTTATCTTTTCGCCAATACTTATACTTATGTGTTAAAATTTAAATTTTAAAAACTTAATTTTAA AGTTAATTTTGTGGGTTTTTTTTATCATAGTTTACTTGGTTTTGAGTAACTAAGGATACGTATA TCAAAGTTCTACTCACATATTATTTCTTGTGTGTTAATAAGAGAGACAAATAAGCATACGCTAT AATTTAGGAATTGGGGAAGGGAATTGAATGGATCAGTGTGTGAAGGGCATATTAGTTTGAGCGG ATCACCTGTCCCAGGACGGCGTTGGGGATCTTGGCCATGAAGGCGTCCTGGAGGTCCTTCCCCA TGGGGGCGGCGCCGGACATAACCATGCGGATGGAGGCGAGGTCGTCGGCGGTGACGCGGGGGCT CTTGGCGATCTCCACCACGATGGGCGGCACGAACGGCGCGACGGTGACGCCGTGCCTCCGCGTC AGGTCCACCAGCGCGCCCAGGTCGAACTTGCGCATGATCACGATCGCCGACCCGGCTCGCAGCC CCGCCAGCAGCACGGAGTTGAGCGAGTAGATGTGGAACAGCGGCAGCAAGCACAGCACCACGTC CTCCCTCCTGAAGTACAGGTTCGGGTTCTCCCCGTCCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							zma_circ_008622* osi_circ_003692 zma_circ_002015 osi_circ_012587 
zma_circ_002990 						
					
						PMCS
						0.417622033

Conservation Information
Conserved circRNAs	zma_circ_008622* osi_circ_003692 zma_circ_002015 osi_circ_012587 zma_circ_002990
PMCS	0.417622033

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26948442-26947009(+)
26948384-26947188(-)
						
						Potential amino acid sequence
						
							MWNSGSKHSTTSSLLKYRFGFSPSTFHDLFSPDANLPGLVPAKGGAGVRVNDLQLRVSDDCPAR
AGLDLEWLLCEGQTHGQHRSSLSHPIPLSQDGVGDLGHEGVLEVLPHGGGAGHNHADGGEVVGG
DAGALGDLHHDGRHERRDGDAVPPRQVHQRAQVELAHDHDRRPGSQPRQQHGVERVDVEQRQQA
QHHVLPPEVQVRVLPVHLS*(+)
MRKFDLGALVDLTRRHGVTVAPFVPPIVVEIAKSPRVTADDLASIRMVMSGAAPMGKDLQDAFM
AKIPNAVLGQGYGMTEAGPVLAMCLAFAKEPFEVKSGSCGTVVRNAELKIVDPDTGATLGRNQS
GEICIRGEQIMKGGRGEPEPVLQEGGRGAVLAAAVPHLLAQLRAAGGAASRVGDRDHAQVRPGR
AGGPDAEARRHRRAVRAAHRGGDRQEPPRHRRRPRLHPHGYVRRRPHGEGPPGRLHGQDPQRRP
GTGVWDD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26948442-26947009(+) 26948384-26947188(-)
Potential amino acid sequence	MWNSGSKHSTTSSLLKYRFGFSPSTFHDLFSPDANLPGLVPAKGGAGVRVNDLQLRVSDDCPAR AGLDLEWLLCEGQTHGQHRSSLSHPIPLSQDGVGDLGHEGVLEVLPHGGGAGHNHADGGEVVGG DAGALGDLHHDGRHERRDGDAVPPRQVHQRAQVELAHDHDRRPGSQPRQQHGVERVDVEQRQQA QHHVLPPEVQVRVLPVHLS(+) MRKFDLGALVDLTRRHGVTVAPFVPPIVVEIAKSPRVTADDLASIRMVMSGAAPMGKDLQDAFM AKIPNAVLGQGYGMTEAGPVLAMCLAFAKEPFEVKSGSCGTVVRNAELKIVDPDTGATLGRNQS GEICIRGEQIMKGGRGEPEPVLQEGGRGAVLAAAVPHLLAQLRAAGGAASRVGDRDHAQVRPGR AGGPDAEARRHRRAVRAAHRGGDRQEPPRHRRRPRLHPHGYVRRRPHGEGPPGRLHGQDPQRRP GTGVWDD(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os06g0656500_circ_g.1

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