Plant Circular RNA Database

Detail information of Os02g0276200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0276200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_014253
					
						Alias
						Os_ciR441
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 10139318-10139943  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, circseq_cup, find_circ
					
						Parent gene
						
							Os02g0276200						
					
						Parent gene annotation
						
							Similar to Isochorismatase family protein rutB. (Os02t0276200-01
)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0276200_circ_g.1 Os02g0276200_circ_ag.1 Os02g0276200_circ_g.2 Os02g0276200_circ_ag.3 Os02g0276200_circ_ag.4 Os02g0276200_circ_g.5 Os02g0276400_circ_g.1 						
					
						Support reads
						85/27/33
					
						Tissues
						root/root/shoot, root, seed
					
						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
						Os02t0276200-01:2

General Information
CircRNA Name	Os02g0276200_circ_g.2
ID in PlantcircBase	osa_circ_014253
Alias	Os_ciR441
Organism	Oryza sativa
Position	chr2: 10139318-10139943 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, circseq_cup, find_circ
Parent gene	Os02g0276200
Parent gene annotation	Similar to Isochorismatase family protein rutB. (Os02t0276200-01 )
Parent gene strand	-
Alternative splicing	Os02g0276200_circ_g.1 Os02g0276200_circ_ag.1 Os02g0276200_circ_g.2 Os02g0276200_circ_ag.3 Os02g0276200_circ_ag.4 Os02g0276200_circ_g.5 Os02g0276400_circ_g.1
Support reads	85/27/33
Tissues	root/root/shoot, root, seed
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	Os02t0276200-01:2

			
						 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: CTTGGTTATTGTTGGGGTTCAA
 R: GTCTCTCCCAGAAGGGTCAT
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: CTTGGTTATTGTTGGGGTTCAA R: GTCTCTCCCAGAAGGGTCAT 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  
						
							CACCTTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTC
AACGTCTCTCCCAGAAGGGTCATGCTCTCTGACCACataaatggatctccggcttagcagcagc
tgttgcatcaataatgacagcaactttgtcgtagtccagtgctacagcatcaaagactgtctgt
cgaatgca

									
								

					

						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: 312
Transcript exons: 10139318-10139345,10139385-10139435,10139711-10139943
ATAAATGGATCTCCGGCTTAGCAGCAGCTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATT
TGGTGTTTGAACCCCCCAACAATAACCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAA
GGTGCGTTGCAAAGAAAGCACTGAACCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGT
AAGCCCATCAGCGAGCTCAGCACCTTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAG
AAGTGCCTGCGAAAAAGTTCAACGTCTCTCCCAGAAGGGTCATGCTCTCTGACCAC
Transcript length: 347
Transcript exons: 10139318-10139376,10139382-10139435,10139710-10139943
ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGCAGTG
CTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCACCAACAATAACCAA
GTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTGAACCTA
GTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCACCTTTGG
AACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAACGTCTCT
CCCAGAAGGGTCATGCTCTCTGACCAC
Transcript length: 349
Transcript exons: 10139318-10139434,10139712-10139943
ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC
CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCAACAATAACC
AAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTGAACC
TAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCACCTTT
GGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAACGTCT
CTCCCAGAAGGGTCATGCTCTCTGACCAC
Transcript length: 351
Transcript exons: 10139318-10139435,10139711-10139943
ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC
CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCCCAACAATAA
CCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTGAA
CCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCACCT
TTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAACGT
CTCTCCCAGAAGGGTCATGCTCTCTGACCAC
Transcript length: 352
Transcript exons: 10139318-10139435,10139710-10139943
ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC
CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCACCAACAATA
ACCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTGA
ACCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCACC
TTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAACG
TCTCTCCCAGAAGGGTCATGCTCTCTGACCAC
Transcript length: 353
Transcript exons: 10139318-10139436,10139710-10139943
ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC
CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCTACCAACAAT
AACCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTG
AACCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCAC
CTTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAAC
GTCTCTCCCAGAAGGGTCATGCTCTCTGACCAC
						
					

						Genomic sequence
						
							ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC
CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCTGAAATTCAA
AAGCAAATTAATAAATATATAAGCTGTAACGTTAGTGATGTGCAATGTGGTACTGAAGTACTGA
ACTCTCAAGCACAAAAGAAATGCAAGGTATGATATATGATTTGTTCAAGATATGGTTTTCCCAT
GGATACATATGTGTATATATATATTTTAATAATAGAATTTATTTCTGGCCTTTGCTACAGCCAA
TTATTATAGGTTGCAGGACAAATGACCGCAAATTACAAAATCATAGCTTGATTAAATATATATT
TTGTGCTTACCAACAATAACCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCG
TTGCAAAGAAAGCACTGAACCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCC
ATCAGCGAGCTCAGCACCTTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGC
CTGCGAAAAAGTTCAACGTCTCTCCCAGAAGGGTCATGCTCTCTGACCAC
						
					

			
		

Sequences
Splice junction sequence	CACCTTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTC AACGTCTCTCCCAGAAGGGTCATGCTCTCTGACCACataaatggatctccggcttagcagcagc tgttgcatcaataatgacagcaactttgtcgtagtccagtgctacagcatcaaagactgtctgt cgaatgca
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: 312 Transcript exons: 10139318-10139345,10139385-10139435,10139711-10139943 ATAAATGGATCTCCGGCTTAGCAGCAGCTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATT TGGTGTTTGAACCCCCCAACAATAACCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAA GGTGCGTTGCAAAGAAAGCACTGAACCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGT AAGCCCATCAGCGAGCTCAGCACCTTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAG AAGTGCCTGCGAAAAAGTTCAACGTCTCTCCCAGAAGGGTCATGCTCTCTGACCAC Transcript length: 347 Transcript exons: 10139318-10139376,10139382-10139435,10139710-10139943 ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGCAGTG CTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCACCAACAATAACCAA GTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTGAACCTA GTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCACCTTTGG AACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAACGTCTCT CCCAGAAGGGTCATGCTCTCTGACCAC Transcript length: 349 Transcript exons: 10139318-10139434,10139712-10139943 ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCAACAATAACC AAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTGAACC TAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCACCTTT GGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAACGTCT CTCCCAGAAGGGTCATGCTCTCTGACCAC Transcript length: 351 Transcript exons: 10139318-10139435,10139711-10139943 ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCCCAACAATAA CCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTGAA CCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCACCT TTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAACGT CTCTCCCAGAAGGGTCATGCTCTCTGACCAC Transcript length: 352 Transcript exons: 10139318-10139435,10139710-10139943 ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCACCAACAATA ACCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTGA ACCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCACC TTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAACG TCTCTCCCAGAAGGGTCATGCTCTCTGACCAC Transcript length: 353 Transcript exons: 10139318-10139436,10139710-10139943 ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCTACCAACAAT AACCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCGTTGCAAAGAAAGCACTG AACCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCCATCAGCGAGCTCAGCAC CTTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGCCTGCGAAAAAGTTCAAC GTCTCTCCCAGAAGGGTCATGCTCTCTGACCAC
Genomic sequence	ATAAATGGATCTCCGGCTTAGCAGCAGCTGTTGCATCAATAATGACAGCAACTTTGTCGTAGTC CAGTGCTACAGCATCAAAGACTGTCTGTCGAATGCAATTTGGTGTTTGAACCCCTGAAATTCAA AAGCAAATTAATAAATATATAAGCTGTAACGTTAGTGATGTGCAATGTGGTACTGAAGTACTGA ACTCTCAAGCACAAAAGAAATGCAAGGTATGATATATGATTTGTTCAAGATATGGTTTTCCCAT GGATACATATGTGTATATATATATTTTAATAATAGAATTTATTTCTGGCCTTTGCTACAGCCAA TTATTATAGGTTGCAGGACAAATGACCGCAAATTACAAAATCATAGCTTGATTAAATATATATT TTGTGCTTACCAACAATAACCAAGTTCTTTATTCCAGAGGTCTTGAGGACAGAATCAAGGTGCG TTGCAAAGAAAGCACTGAACCTAGTCTTCACCAACTTGTAATCCCCATCTTTGATAGTAAGCCC ATCAGCGAGCTCAGCACCTTTGGAACCTTCCACCCCTAGGCCCTTGCCACTAGAATAGAAGTGC CTGCGAAAAAGTTCAACGTCTCTCCCAGAAGGGTCATGCTCTCTGACCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_011541 						
					
						PMCS
						0.486906643

Conservation Information
Conserved circRNAs	osi_circ_011541
PMCS	0.486906643

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10139355-10139929(-)
10139321-10139867(-)
						
						Potential amino acid sequence
						
							MQQLLLSRRSIYVVREHDPSGRDVELFRRHFYSSGKGLGVEGSKGAELADGLTIKDGDYKLVKT
RFSAFFATHLDSVLKTSGIKNLVIVGVQTPNCIRQTVFDAVALDYDKVAVIIDATAAAKPEIHL
CGQRA*(-)
MWSESMTLLGETLNFFAGTSILVARA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10139355-10139929(-) 10139321-10139867(-)
Potential amino acid sequence	MQQLLLSRRSIYVVREHDPSGRDVELFRRHFYSSGKGLGVEGSKGAELADGLTIKDGDYKLVKT RFSAFFATHLDSVLKTSGIKNLVIVGVQTPNCIRQTVFDAVALDYDKVAVIIDATAAAKPEIHL CGQRA(-) MWSESMTLLGETLNFFAGTSILVARA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os02g0276200_circ_g.2

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