Plant Circular RNA Database

Detail information of Os01g0859500_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os01g0859500_circ_g.5
					
						ID in PlantcircBase
						osa_circ_004897
					
						Alias
						Os_ciR723
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 37186147-37186795  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, circseq_cup, find_circ
					
						Parent gene
						
							Os01g0859500						
					
						Parent gene annotation
						
							Similar to Basic leucine zipper protein (Liguleless2). (Os01t085
9500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0859500_circ_g.3 Os01g0859500_circ_g.4 Os01g0859500_circ_g.6 Os01g0859500_circ_g.7 Os01g0859500_circ_g.8 Os01g0859500_circ_g.9 Os01g0859500_circ_g.10 Os01g0859500_circ_g.11 Os01g0859500_circ_g.12 Os01g0859500_circ_g.13 						
					
						Support reads
						43/32/70
					
						Tissues
						root/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  
						
							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
						Os01t0859500-01:2

General Information
CircRNA Name	Os01g0859500_circ_g.5
ID in PlantcircBase	osa_circ_004897
Alias	Os_ciR723
Organism	Oryza sativa
Position	chr1: 37186147-37186795 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, circseq_cup, find_circ
Parent gene	Os01g0859500
Parent gene annotation	Similar to Basic leucine zipper protein (Liguleless2). (Os01t085 9500-01)
Parent gene strand	-
Alternative splicing	Os01g0859500_circ_g.3 Os01g0859500_circ_g.4 Os01g0859500_circ_g.6 Os01g0859500_circ_g.7 Os01g0859500_circ_g.8 Os01g0859500_circ_g.9 Os01g0859500_circ_g.10 Os01g0859500_circ_g.11 Os01g0859500_circ_g.12 Os01g0859500_circ_g.13
Support reads	43/32/70
Tissues	root/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	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	Os01t0859500-01:2

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: AATGCCGCAGATGGAGTTG
 R: CTGCGAATTCCCACTGTGTA
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	Yes 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	F: AATGCCGCAGATGGAGTTG R: CTGCGAATTCCCACTGTGTA 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  
						
							CTGTGTAGCTGCTGTTGCTGCCTCATTGGCCATGAAGGGAAGATCTCCAGCGTGGGGGGCCTGG
CCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCGcttgtcatggtctcctcctccgtgcagc
tgctgctgctggtggtgctggagctgatgctgctgctgaaagcttggggaggcagcagcgaggc
ctggcttg

									
								

					

						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: 194
Transcript exons: 37186147-37186316,37186772-37186795
CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA
TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGCTGCCGTCGCTGCCGCTGCCGC
CG
Transcript length: 210
Transcript exons: 37186147-37186275,37186715-37186795
CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA
TGCCTCATTGGCCATGAAGGGAAGATCTCCAGCGTGGGGGGCCTGGCCGCGAGATATCCTGCCG
TCGCTGCCGCTGCCGCCG
Transcript length: 224
Transcript exons: 37186147-37186235,37186258-37186358,37186762-37186795
CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAATCAGTGGTCACCATCATGACCTCCTGCCCCGGCTGCTG
CTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGGGGACACCAACTCCATCTGCGGC
GAGATATCCTGCCGTCGCTGCCGCTGCCGCCG
Transcript length: 241
Transcript exons: 37186147-37186324,37186733-37186795
CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA
TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCGGAAGATCTCCAGC
GTGGGGGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCG
Transcript length: 245
Transcript exons: 37186147-37186289,37186694-37186795
CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA
TGACCTCCTGCCCCGCACTGTGTAGCTGCTGTTGCTGCCTCATTGGCCATGAAGGGAAGATCTC
CAGCGTGGGGGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCG
Transcript length: 300
Transcript exons: 37186147-37186249,37186252-37186358,37186706-37186795
CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGGTAATCATCAGTGGTCACCATCATG
ACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGGGG
ACACCAACTCCATCTGCGGCTGTTGCTGCCTCATTGGCCATGAAGGGAAGATCTCCAGCGTGGG
GGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCG
Transcript length: 338
Transcript exons: 37186147-37186346,37186658-37186795
CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA
TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGG
GGACACCACGATGAATGAATGATCATGGGAAGCGCGTCCATTTACACTGTGTAGCTGCTGTTGC
TGCCTCATTGGCCATGAAGGGAAGATCTCCAGCGTGGGGGGCCTGGCCGCGAGATATCCTGCCG
TCGCTGCCGCTGCCGCCG
Transcript length: 371
Transcript exons: 37186147-37186416,37186695-37186795
CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA
TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGG
GGACACCAACTCCATCTGCGGCATTGTGTTCTGGGCTGAGCTCGAGTCAGTGGTGCTCCCGACT
GACTGCGAATTCCCACTGTGTAGCTGCTGTTGCTGCCTCATTGGCCATGAAGGGAAGATCTCCA
GCGTGGGGGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCG
						
					

						Genomic sequence
						
							CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC
TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA
TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGG
GGACACCAACTCCATCTGCGGCATTGTGTTCTGGGCTGAGCTCGAGTCAGTGGTGCTCCCGACT
GACTGCGAATTCCCCTGTTCAGCCATTAATTGAGGCAGCGAGAGACAACAGTGAGCGGTCGGTA
AGCATGAGATTAATGTGCTCTGAATCATCTCTCAGTCTCTCTCTCTCTTTCTCTCTCTGCTCGT
GGTGATGCGAACCAAGAGCCAAGAACAACAGCGGCAACAGTGTCGTCTCGATCTCTTTTCTTGG
GTTCAGCGATGAGCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGGGAAGAAGAAGAC
GATGAATGAATGATCATGGGAAGCGCGTCCATTTACACTGTGTAGCTGCTGTTGCTGCCTCATT
GGCCATGAAGGGAAGATCTCCAGCGTGGGGGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCG
CTGCCGCCG
						
					

			
		

Sequences
Splice junction sequence	CTGTGTAGCTGCTGTTGCTGCCTCATTGGCCATGAAGGGAAGATCTCCAGCGTGGGGGGCCTGG CCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCGcttgtcatggtctcctcctccgtgcagc tgctgctgctggtggtgctggagctgatgctgctgctgaaagcttggggaggcagcagcgaggc ctggcttg
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: 194 Transcript exons: 37186147-37186316,37186772-37186795 CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGCTGCCGTCGCTGCCGCTGCCGC CG Transcript length: 210 Transcript exons: 37186147-37186275,37186715-37186795 CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA TGCCTCATTGGCCATGAAGGGAAGATCTCCAGCGTGGGGGGCCTGGCCGCGAGATATCCTGCCG TCGCTGCCGCTGCCGCCG Transcript length: 224 Transcript exons: 37186147-37186235,37186258-37186358,37186762-37186795 CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAATCAGTGGTCACCATCATGACCTCCTGCCCCGGCTGCTG CTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGGGGACACCAACTCCATCTGCGGC GAGATATCCTGCCGTCGCTGCCGCTGCCGCCG Transcript length: 241 Transcript exons: 37186147-37186324,37186733-37186795 CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCGGAAGATCTCCAGC GTGGGGGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCG Transcript length: 245 Transcript exons: 37186147-37186289,37186694-37186795 CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA TGACCTCCTGCCCCGCACTGTGTAGCTGCTGTTGCTGCCTCATTGGCCATGAAGGGAAGATCTC CAGCGTGGGGGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCG Transcript length: 300 Transcript exons: 37186147-37186249,37186252-37186358,37186706-37186795 CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGGTAATCATCAGTGGTCACCATCATG ACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGGGG ACACCAACTCCATCTGCGGCTGTTGCTGCCTCATTGGCCATGAAGGGAAGATCTCCAGCGTGGG GGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCG Transcript length: 338 Transcript exons: 37186147-37186346,37186658-37186795 CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGG GGACACCACGATGAATGAATGATCATGGGAAGCGCGTCCATTTACACTGTGTAGCTGCTGTTGC TGCCTCATTGGCCATGAAGGGAAGATCTCCAGCGTGGGGGGCCTGGCCGCGAGATATCCTGCCG TCGCTGCCGCTGCCGCCG Transcript length: 371 Transcript exons: 37186147-37186416,37186695-37186795 CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGG GGACACCAACTCCATCTGCGGCATTGTGTTCTGGGCTGAGCTCGAGTCAGTGGTGCTCCCGACT GACTGCGAATTCCCACTGTGTAGCTGCTGTTGCTGCCTCATTGGCCATGAAGGGAAGATCTCCA GCGTGGGGGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCGCTGCCGCCG
Genomic sequence	CTTGTCATGGTCTCCTCCTCCGTGCAGCTGCTGCTGCTGGTGGTGCTGGAGCTGATGCTGCTGC TGAAAGCTTGGGGAGGCAGCAGCGAGGCCTGGCTTGTAGCTGTAATCATCAGTGGTCACCATCA TGACCTCCTGCCCCGGCTGCTGCTGCTGGTGCTGGTGCTCGGAGGAGGCCCTGATACTCGCTGG GGACACCAACTCCATCTGCGGCATTGTGTTCTGGGCTGAGCTCGAGTCAGTGGTGCTCCCGACT GACTGCGAATTCCCCTGTTCAGCCATTAATTGAGGCAGCGAGAGACAACAGTGAGCGGTCGGTA AGCATGAGATTAATGTGCTCTGAATCATCTCTCAGTCTCTCTCTCTCTTTCTCTCTCTGCTCGT GGTGATGCGAACCAAGAGCCAAGAACAACAGCGGCAACAGTGTCGTCTCGATCTCTTTTCTTGG GTTCAGCGATGAGCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGGGAAGAAGAAGAC GATGAATGAATGATCATGGGAAGCGCGTCCATTTACACTGTGTAGCTGCTGTTGCTGCCTCATT GGCCATGAAGGGAAGATCTCCAGCGTGGGGGGCCTGGCCGCGAGATATCCTGCCGTCGCTGCCG CTGCCGCCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002548* osi_circ_010951 zma_circ_007731 zma_circ_001452 
						
						PMCS
						0.379723883

Conservation Information
Conserved circRNAs	osi_circ_002548* osi_circ_010951 zma_circ_007731 zma_circ_001452
PMCS	0.379723883

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							37186275-37186274(+)
37186728-37186374(+)
37186261-37186387(-)
37186723-37186720(-)
						
						Potential amino acid sequence
						
							MTSCPGCCCWCWCSEEALILAGDTNSICGIVFWAELESVVLPTDCEFPLCSCCCCLIGHEGKIS
SVGGLAARYPAVAAAAAACHGLLLRAAAAAGGAGADAAAESLGRQQRGLACSCNHQWSPS*(+)
MKGRSPAWGAWPRDILPSLPLPPLVMVSSSVQLLLLVVLELMLLLKAWGGSSEAWLVAVIISGH
HHDLLPRLLLLVLVLGGGPDTRWGHQLHLRHCVLG*(+)
MITATSQASLLPPQAFSSSISSSTTSSSSCTEEETMTSGGSGSDGRISRGQAPHAGDLPFMANE
AATAATQWEFAVSREHH*(-)
MRQQQQLHSGNSQSVGSTTDSSSAQNTMPQMELVSPASIRASSEHQHQQQQPGQEVMMVTTDDY
SYKPGLAAASPSFQQQHQLQHHQQQQLHGGGDHDKRRQRQRRQDISRPGPPRWRSSLHGQ*(-)
						
						Sponge-miRNAs
						
							osa-miR444a-3p.1 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to Pi-starvation

Functional Information
Coding potential	Y
Potential coding position	37186275-37186274(+) 37186728-37186374(+) 37186261-37186387(-) 37186723-37186720(-)
Potential amino acid sequence	MTSCPGCCCWCWCSEEALILAGDTNSICGIVFWAELESVVLPTDCEFPLCSCCCCLIGHEGKIS SVGGLAARYPAVAAAAAACHGLLLRAAAAAGGAGADAAAESLGRQQRGLACSCNHQWSPS(+) MKGRSPAWGAWPRDILPSLPLPPLVMVSSSVQLLLLVVLELMLLLKAWGGSSEAWLVAVIISGH HHDLLPRLLLLVLVLGGGPDTRWGHQLHLRHCVLG(+) MITATSQASLLPPQAFSSSISSSTTSSSSCTEEETMTSGGSGSDGRISRGQAPHAGDLPFMANE AATAATQWEFAVSREHH(-) MRQQQQLHSGNSQSVGSTTDSSSAQNTMPQMELVSPASIRASSEHQHQQQQPGQEVMMVTTDDY SYKPGLAAASPSFQQQHQLQHHQQQQLHGGGDHDKRRQRQRRQDISRPGPPRWRSSLHGQ(-)
Sponge-miRNAs	osa-miR444a-3p.1
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to Pi-starvation

			
						 Other Information
					
						References
						Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os01g0859500_circ_g.5

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