Plant Circular RNA Database

Detail information of Os08g0500300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0500300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_037520
					
						Alias
						Os08circ12414/Os_ciR2321
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 24701761-24702374  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os08g0500300						
					
						Parent gene annotation
						
							Protein phosphatase 2C domain containing protein. (Os08t0500300-
01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0500300_circ_g.2 Os08g0500300_circ_g.4 						
					
						Support reads
						2/5/2
					
						Tissues
						leaf/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
						Os08t0500300-01:2

General Information
CircRNA Name	Os08g0500300_circ_g.3
ID in PlantcircBase	osa_circ_037520
Alias	Os08circ12414/Os_ciR2321
Organism	Oryza sativa
Position	chr8: 24701761-24702374 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os08g0500300
Parent gene annotation	Protein phosphatase 2C domain containing protein. (Os08t0500300- 01)
Parent gene strand	-
Alternative splicing	Os08g0500300_circ_g.2 Os08g0500300_circ_g.4
Support reads	2/5/2
Tissues	leaf/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	Os08t0500300-01:2

			
						 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  
						
							TGACAGGAAGAGAATCTCTGACCTTCTTGGCAACAAAATGACCATATGGACCATGACCATCAAA
CACACCACAGAAGACACTATCACTTGTATTAAAGTTttggaaggttaggcttcaaatcaactgt
gagttgtacagcagttagattattggcagcatctcgtgtccccattattgctctcgagtcccca
aggttccc

									
								

					

						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: 168
Transcript exons: 24701761-24701881,24702328-24702374
TTGGAAGGTTAGGCTTCAAATCAACTGTGAGTTGTACAGCAGTTAGATTATTGGCAGCATCTCG
TGTCCCCATTATTGCTCTCGAGTCCCCAAGGTTCCCAACCACAAGATCCAATCCCTGTGACCAT
CAAACACACCACAGAAGACACTATCACTTGTATTAAAGTT
Transcript length: 205
Transcript exons: 24701761-24701876,24702286-24702374
TTGGAAGGTTAGGCTTCAAATCAACTGTGAGTTGTACAGCAGTTAGATTATTGGCAGCATCTCG
TGTCCCCATTATTGCTCTCGAGTCCCCAAGGTTCCCAACCACAAGATCCAATGAATCTCTGACC
TTCTTGGCAACAAAATGACCATATGGACCATGACCATCAAACACACCACAGAAGACACTATCAC
TTGTATTAAAGTT
Transcript length: 490
Transcript exons: 24701761-24701878,24702003-24702374
TTGGAAGGTTAGGCTTCAAATCAACTGTGAGTTGTACAGCAGTTAGATTATTGGCAGCATCTCG
TGTCCCCATTATTGCTCTCGAGTCCCCAAGGTTCCCAACCACAAGATCCAATCCCTGTTTTACT
AACGTGACTGCTGTTGATCCACTGCAAAAGCAATCAACTGTAGGGTGCATTTTGAGTTCCTTGT
CCATCAATTTGAAAGCCTTAAAATAAGACTGCTTAAGTGGAAGAAACATCTCAGGAAGCTTCTC
GCTGTCATCAGCATATTCACCCCATTCATCATCAACAACAGGTGACTCTTCTGAATTAACACTT
CCAGAAATGCTTCCATTTTGGTGGGAACTAGTGTCCTCGTTGGCACTGGTTTTCCATAGTGTGC
GTATTTTGACAGGAAGAGAATCTCTGACCTTCTTGGCAACAAAATGACCATATGGACCATGACC
ATCAAACACACCACAGAAGACACTATCACTTGTATTAAAGTT
						
					

						Genomic sequence
						
							TTGGAAGGTTAGGCTTCAAATCAACTGTGAGTTGTACAGCAGTTAGATTATTGGCAGCATCTCG
TGTCCCCATTATTGCTCTCGAGTCCCCAAGGTTCCCAACCACAAGATCCAATCCCTGGAAAATA
AGCCATGTCCAGTTCTTCTGTCATTTTGATTTCAATATCTACCACTATTTTTTTTGTTCCAAAT
GCTGGTCAGTTATCTACGAATACTAGAACAAGTTTAGAAGCATCCCTCACCTGTTTTACTAACG
TGACTGCTGTTGATCCACTGCAAAAGCAATCAACTGTAGGGTGCATTTTGAGTTCCTTGTCCAT
CAATTTGAAAGCCTTAAAATAAGACTGCTTAAGTGGAAGAAACATCTCAGGAAGCTTCTCGCTG
TCATCAGCATATTCACCCCATTCATCATCAACAACAGGTGACTCTTCTGAATTAACACTTCCAG
AAATGCTTCCATTTTGGTGGGAACTAGTGTCCTCGTTGGCACTGGTTTTCCATAGTGTGCGTAT
TTTGACAGGAAGAGAATCTCTGACCTTCTTGGCAACAAAATGACCATATGGACCATGACCATCA
AACACACCACAGAAGACACTATCACTTGTATTAAAGTT
						
					

			
		

Sequences
Splice junction sequence	TGACAGGAAGAGAATCTCTGACCTTCTTGGCAACAAAATGACCATATGGACCATGACCATCAAA CACACCACAGAAGACACTATCACTTGTATTAAAGTTttggaaggttaggcttcaaatcaactgt gagttgtacagcagttagattattggcagcatctcgtgtccccattattgctctcgagtcccca aggttccc
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: 168 Transcript exons: 24701761-24701881,24702328-24702374 TTGGAAGGTTAGGCTTCAAATCAACTGTGAGTTGTACAGCAGTTAGATTATTGGCAGCATCTCG TGTCCCCATTATTGCTCTCGAGTCCCCAAGGTTCCCAACCACAAGATCCAATCCCTGTGACCAT CAAACACACCACAGAAGACACTATCACTTGTATTAAAGTT Transcript length: 205 Transcript exons: 24701761-24701876,24702286-24702374 TTGGAAGGTTAGGCTTCAAATCAACTGTGAGTTGTACAGCAGTTAGATTATTGGCAGCATCTCG TGTCCCCATTATTGCTCTCGAGTCCCCAAGGTTCCCAACCACAAGATCCAATGAATCTCTGACC TTCTTGGCAACAAAATGACCATATGGACCATGACCATCAAACACACCACAGAAGACACTATCAC TTGTATTAAAGTT Transcript length: 490 Transcript exons: 24701761-24701878,24702003-24702374 TTGGAAGGTTAGGCTTCAAATCAACTGTGAGTTGTACAGCAGTTAGATTATTGGCAGCATCTCG TGTCCCCATTATTGCTCTCGAGTCCCCAAGGTTCCCAACCACAAGATCCAATCCCTGTTTTACT AACGTGACTGCTGTTGATCCACTGCAAAAGCAATCAACTGTAGGGTGCATTTTGAGTTCCTTGT CCATCAATTTGAAAGCCTTAAAATAAGACTGCTTAAGTGGAAGAAACATCTCAGGAAGCTTCTC GCTGTCATCAGCATATTCACCCCATTCATCATCAACAACAGGTGACTCTTCTGAATTAACACTT CCAGAAATGCTTCCATTTTGGTGGGAACTAGTGTCCTCGTTGGCACTGGTTTTCCATAGTGTGC GTATTTTGACAGGAAGAGAATCTCTGACCTTCTTGGCAACAAAATGACCATATGGACCATGACC ATCAAACACACCACAGAAGACACTATCACTTGTATTAAAGTT
Genomic sequence	TTGGAAGGTTAGGCTTCAAATCAACTGTGAGTTGTACAGCAGTTAGATTATTGGCAGCATCTCG TGTCCCCATTATTGCTCTCGAGTCCCCAAGGTTCCCAACCACAAGATCCAATCCCTGGAAAATA AGCCATGTCCAGTTCTTCTGTCATTTTGATTTCAATATCTACCACTATTTTTTTTGTTCCAAAT GCTGGTCAGTTATCTACGAATACTAGAACAAGTTTAGAAGCATCCCTCACCTGTTTTACTAACG TGACTGCTGTTGATCCACTGCAAAAGCAATCAACTGTAGGGTGCATTTTGAGTTCCTTGTCCAT CAATTTGAAAGCCTTAAAATAAGACTGCTTAAGTGGAAGAAACATCTCAGGAAGCTTCTCGCTG TCATCAGCATATTCACCCCATTCATCATCAACAACAGGTGACTCTTCTGAATTAACACTTCCAG AAATGCTTCCATTTTGGTGGGAACTAGTGTCCTCGTTGGCACTGGTTTTCCATAGTGTGCGTAT TTTGACAGGAAGAGAATCTCTGACCTTCTTGGCAACAAAATGACCATATGGACCATGACCATCA AACACACCACAGAAGACACTATCACTTGTATTAAAGTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007836* osi_circ_018029 						
					
						PMCS
						0.541989848

Conservation Information
Conserved circRNAs	osi_circ_007836* osi_circ_018029
PMCS	0.541989848

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24702313-24701769(+)
24702127-24702369(-)
						
						Potential amino acid sequence
						
							MTIWTMTIKHTTEDTITCIKVLEG*(+)
MFLPLKQSYFKAFKLMDKELKMHPTVDCFCSGSTAVTLVKQGLDLVVGNLGDSRAIMGTRDAAN
NLTAVQLTVDLKPNLPKL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24702313-24701769(+) 24702127-24702369(-)
Potential amino acid sequence	MTIWTMTIKHTTEDTITCIKVLEG(+) MFLPLKQSYFKAFKLMDKELKMHPTVDCFCSGSTAVTLVKQGLDLVVGNLGDSRAIMGTRDAAN NLTAVQLTVDLKPNLPKL(-)
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 Os08g0500300_circ_g.3

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