Plant Circular RNA Database

Detail information of Os01g0659200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0659200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_003087
					
						Alias
						Os_ciR5977, 
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 26814618-26816029  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ, CIRI-long
					
						Parent gene
						
							Os01g0659200						
					
						Parent gene annotation
						
							Similar to Vacuolar ATP synthase subunit E (EC 3.6.3.14) (V-ATPa
se E subunit) (Vacuolar proton pump E subunit). (Os01t0659200-01
)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0659200_circ_g.2 Os01g0659200_circ_g.4 Os01g0659200_circ_g.5 Os01g0659200_circ_g.6 Os01g0659200_circ_g.7 Os01g0659200_circ_g.8 Os01g0659200_circ_g.9 Os01g0659200_circ_g.10 Os01g0659200_circ_g.11 Os01g0659200_circ_g.12 Os01g0659200_circ_g.13  Os01g0659200_circ_g.15 Os01g0659200_circ_g.16 						
					
						Support reads
						2/1
					
						Tissues
						root/root, leaf
					
						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
						Os01t0659200-01:3

General Information
CircRNA Name	Os01g0659200_circ_g.3
ID in PlantcircBase	osa_circ_003087
Alias	Os_ciR5977,
Organism	Oryza sativa
Position	chr1: 26814618-26816029 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ, CIRI-long
Parent gene	Os01g0659200
Parent gene annotation	Similar to Vacuolar ATP synthase subunit E (EC 3.6.3.14) (V-ATPa se E subunit) (Vacuolar proton pump E subunit). (Os01t0659200-01 )
Parent gene strand	+
Alternative splicing	Os01g0659200_circ_g.2 Os01g0659200_circ_g.4 Os01g0659200_circ_g.5 Os01g0659200_circ_g.6 Os01g0659200_circ_g.7 Os01g0659200_circ_g.8 Os01g0659200_circ_g.9 Os01g0659200_circ_g.10 Os01g0659200_circ_g.11 Os01g0659200_circ_g.12 Os01g0659200_circ_g.13 Os01g0659200_circ_g.15 Os01g0659200_circ_g.16
Support reads	2/1
Tissues	root/root, leaf
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	Os01t0659200-01:3

			
						 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  
						
							CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCC
AGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAGtgagtactctatgcagctgaatgcttct
cgcatcaaagtgcttcaagctcaggatgatttggttaattccatgaaagaggatgctacaaagc
aactcctg

									
								

					

						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: 454
Transcript exons: 26814618-26814774,26815128-26815324,26815930-26816029
TGAGTACTCTATGCAGCTGAATGCTTCTCGCATCAAAGTGCTTCAAGCTCAGGATGATTTGGTT
AATTCCATGAAAGAGGATGCTACAAAGCAACTCCTGCGTGTCAGCCACAACCACCATGAATACA
AGAACCTTTTGAAAGAACTCGTCGTTCAGGGTTTGCTTCGGTTGAAAGAGCCAGCGGTACTTCT
CCGTTGCCGCAAAGAAGACCATCATCATGTGGAATCTGTACTGCATTCAGCAAAGAATGAATAT
GCGTCAAAAGCAGAAGTTCATCACCCAGAGATACTTGTTGACCACGATGTGTACCTACCGCCTT
CTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGCTCTGGAGGTGTTGTGCTGGCTTCTCGAGA
TGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTA
CCGGAG
						
					

						Genomic sequence
						
							TGAGTACTCTATGCAGCTGAATGCTTCTCGCATCAAAGTGCTTCAAGCTCAGGATGATTTGGTT
AATTCCATGAAAGAGGATGCTACAAAGCAACTCCTGCGTGTCAGCCACAACCACCATGAATACA
AGAACCTTTTGAAAGAACTCGTCGTTCAGGTTTGTATGAAATGTTGAATACATCATCTGCTAGA
TTCTTATCCATTAAGCCTTTTTGAGCGATCCTTCTGATAATTGTGGACCCCAAGAGGGTTTCAC
CTATATAGTTAAGTTCGATACGCAGAACTGAATTATTGGATATTGAAGTGTTAAATCACATTGT
AGTTTTGCAACTCTAACTGCATGCACAAAAGAGCTAGTGCTAAAAGAACATCTGTTTATGATTC
ACCTTTAAACTTCTCTTATGGACGTGTCAATTTAATTGATGGAATTAAGTTTGAAATGCCATCT
CCTTGTTTGTTCACTACTGTTATTAACAAAATAATCATTCATCATATTGACTGGAAATACAGGG
TTTGCTTCGGTTGAAAGAGCCAGCGGTACTTCTCCGTTGCCGCAAAGAAGACCATCATCATGTG
GAATCTGTACTGCATTCAGCAAAGAATGAATATGCGTCAAAAGCAGAAGTTCATCACCCAGAGA
TACTTGTTGACCACGATGTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTT
TTGGTAATAAATAGTTTCTTACCCTTGCAGCCTGCCAATTTGCTACTGTATATCTGTACTACTA
GTAACAGTCTAGCAAATATACTAAAAGAAAGAAAGCTATCTTTTGGACTAACAGATAATCTGCT
CAGTAACTCTACAAACATGTATAATTTGGAAAATAACATCAATATGAGTATACAGGTCGGTCTT
GGGCCTGTTAATCAGAAGTTTAGTGCTGAAGACTTTAACTCTACCCTGACCTGGACAATCAGCT
CTTATCTGGCTATTGCTTTGGCATACATTATGACATTTATTGAACAGTTGATATGCTGAATAGT
GTAATACTGCACTAGGTTAAGCCACAAATACATCCGTCTACCTTAAAACTGATTGAATATGGGA
AGAGAGCACTACAGCTCCTGATATAGCATAATGAAGTGATCATTGGCCTGTTGCAGCTCTCTCT
CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGCATGTTCTAGTATAGGACAGCAGTTGGGATTTG
AAATCCATAGCTTCGTTTCAATTTCAATACTTTTACTGTAGTTCTTAATCCTGATATGGATCCT
GCTGTTTATGCTAATATAATGTGTTTATGCAGCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATG
GAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACC
GGAG
						
					

			
		

Sequences
Splice junction sequence	CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCC AGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAGtgagtactctatgcagctgaatgcttct cgcatcaaagtgcttcaagctcaggatgatttggttaattccatgaaagaggatgctacaaagc aactcctg
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: 454 Transcript exons: 26814618-26814774,26815128-26815324,26815930-26816029 TGAGTACTCTATGCAGCTGAATGCTTCTCGCATCAAAGTGCTTCAAGCTCAGGATGATTTGGTT AATTCCATGAAAGAGGATGCTACAAAGCAACTCCTGCGTGTCAGCCACAACCACCATGAATACA AGAACCTTTTGAAAGAACTCGTCGTTCAGGGTTTGCTTCGGTTGAAAGAGCCAGCGGTACTTCT CCGTTGCCGCAAAGAAGACCATCATCATGTGGAATCTGTACTGCATTCAGCAAAGAATGAATAT GCGTCAAAAGCAGAAGTTCATCACCCAGAGATACTTGTTGACCACGATGTGTACCTACCGCCTT CTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGCTCTGGAGGTGTTGTGCTGGCTTCTCGAGA TGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTA CCGGAG
Genomic sequence	TGAGTACTCTATGCAGCTGAATGCTTCTCGCATCAAAGTGCTTCAAGCTCAGGATGATTTGGTT AATTCCATGAAAGAGGATGCTACAAAGCAACTCCTGCGTGTCAGCCACAACCACCATGAATACA AGAACCTTTTGAAAGAACTCGTCGTTCAGGTTTGTATGAAATGTTGAATACATCATCTGCTAGA TTCTTATCCATTAAGCCTTTTTGAGCGATCCTTCTGATAATTGTGGACCCCAAGAGGGTTTCAC CTATATAGTTAAGTTCGATACGCAGAACTGAATTATTGGATATTGAAGTGTTAAATCACATTGT AGTTTTGCAACTCTAACTGCATGCACAAAAGAGCTAGTGCTAAAAGAACATCTGTTTATGATTC ACCTTTAAACTTCTCTTATGGACGTGTCAATTTAATTGATGGAATTAAGTTTGAAATGCCATCT CCTTGTTTGTTCACTACTGTTATTAACAAAATAATCATTCATCATATTGACTGGAAATACAGGG TTTGCTTCGGTTGAAAGAGCCAGCGGTACTTCTCCGTTGCCGCAAAGAAGACCATCATCATGTG GAATCTGTACTGCATTCAGCAAAGAATGAATATGCGTCAAAAGCAGAAGTTCATCACCCAGAGA TACTTGTTGACCACGATGTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTT TTGGTAATAAATAGTTTCTTACCCTTGCAGCCTGCCAATTTGCTACTGTATATCTGTACTACTA GTAACAGTCTAGCAAATATACTAAAAGAAAGAAAGCTATCTTTTGGACTAACAGATAATCTGCT CAGTAACTCTACAAACATGTATAATTTGGAAAATAACATCAATATGAGTATACAGGTCGGTCTT GGGCCTGTTAATCAGAAGTTTAGTGCTGAAGACTTTAACTCTACCCTGACCTGGACAATCAGCT CTTATCTGGCTATTGCTTTGGCATACATTATGACATTTATTGAACAGTTGATATGCTGAATAGT GTAATACTGCACTAGGTTAAGCCACAAATACATCCGTCTACCTTAAAACTGATTGAATATGGGA AGAGAGCACTACAGCTCCTGATATAGCATAATGAAGTGATCATTGGCCTGTTGCAGCTCTCTCT CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGCATGTTCTAGTATAGGACAGCAGTTGGGATTTG AAATCCATAGCTTCGTTTCAATTTCAATACTTTTACTGTAGTTCTTAATCCTGATATGGATCCT GCTGTTTATGCTAATATAATGTGTTTATGCAGCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATG GAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACC GGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010487 						
					
						PMCS
						0.243130288

Conservation Information
Conserved circRNAs	osi_circ_010487
PMCS	0.243130288

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26815190-26814617(+)
26815210-26814724(-)
						
						Potential amino acid sequence
						
							MWNLYCIQQRMNMRQKQKFITQRYLLTTMCTYRLLQALMIPMRGFALEVLCWLLEMERLCVRTH
LMPGWKLSSARNYRSEYSMQLNASRIKVLQAQDDLVNSMKEDATKQLLRVSHNHHEYKNLLKEL
VVQGLLRLKEPAVLLRCRKEDHHHVESVLHSAKNEYASKAEVHHPEILVDHDVYLPPSPSSHDS
HERFCSGGVVLASRDGKIVCENTLDARLEVVFRKKLPE*(+)
MQYRFHMMMVFFAATEKYRWLFQPKQTLNDEFFQKVLVFMVVVADTQELLCSILFHGINQIILS
LKHFDARSIQLHRVLTPVISCGRQLPAWHQVCSHTQSFHLEKPAQHLQSKTSHGNHESLEKAVG
THRGQQVSLGDELLLLTHIHSLLNAVQIPHDDGLLCGNGEVPLALSTEANPERRVLSKGSCIHG
GCG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26815190-26814617(+) 26815210-26814724(-)
Potential amino acid sequence	MWNLYCIQQRMNMRQKQKFITQRYLLTTMCTYRLLQALMIPMRGFALEVLCWLLEMERLCVRTH LMPGWKLSSARNYRSEYSMQLNASRIKVLQAQDDLVNSMKEDATKQLLRVSHNHHEYKNLLKEL VVQGLLRLKEPAVLLRCRKEDHHHVESVLHSAKNEYASKAEVHHPEILVDHDVYLPPSPSSHDS HERFCSGGVVLASRDGKIVCENTLDARLEVVFRKKLPE(+) MQYRFHMMMVFFAATEKYRWLFQPKQTLNDEFFQKVLVFMVVVADTQELLCSILFHGINQIILS LKHFDARSIQLHRVLTPVISCGRQLPAWHQVCSHTQSFHLEKPAQHLQSKTSHGNHESLEKAVG THRGQQVSLGDELLLLTHIHSLLNAVQIPHDDGLLCGNGEVPLALSTEANPERRVLSKGSCIHG GCG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os01g0659200_circ_g.3

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