Plant Circular RNA Database

Detail information of Os02g0273000_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os02g0273000_circ_g.7
					
						ID in PlantcircBase
						osa_circ_014217
					
						Alias
						Os_ciR2396, 
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 9933497-9936744  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ, CIRI-long
					
						Parent gene
						
							Os02g0273000						
					
						Parent gene annotation
						
							Similar to Uridine kinase-like protein. (Os02t0273000-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0273000_circ_g.2 Os02g0273000_circ_g.3 Os02g0273000_circ_g.4 Os02g0273000_circ_g.5 Os02g0273000_circ_g.6 Os02g0273000_circ_g.8 Os02g0273000_circ_g.9 						
					
						Support reads
						4
					
						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  
						
							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
						Os02t0273000-01:5

General Information
CircRNA Name	Os02g0273000_circ_g.7
ID in PlantcircBase	osa_circ_014217
Alias	Os_ciR2396,
Organism	Oryza sativa
Position	chr2: 9933497-9936744 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ, CIRI-long
Parent gene	Os02g0273000
Parent gene annotation	Similar to Uridine kinase-like protein. (Os02t0273000-01)
Parent gene strand	-
Alternative splicing	Os02g0273000_circ_g.2 Os02g0273000_circ_g.3 Os02g0273000_circ_g.4 Os02g0273000_circ_g.5 Os02g0273000_circ_g.6 Os02g0273000_circ_g.8 Os02g0273000_circ_g.9
Support reads	4
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	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	Os02t0273000-01:5

			
						 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  
						
							AAGCTCATCCAAACGGAGCGTGGAGTAGTGGACCCCAGCCGCGGCAGCATCAAGAACCTCATCA
ACTGGTCTTGAACCCATATATTGTTCCAAGAACCTGctgtgtcaacaaagatcttcatgttcat
caaatcccggacacgtgaatcatggaaaaccagaattccttccaaaataattacatctgaagga
ttgacctg

									
								

					

						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: 557
Transcript exons: 9933497-9933593,9935100-9935215,9935309-9935378,9936341-
9936432,9936563-9936744
CTGTGTCAACAAAGATCTTCATGTTCATCAAATCCCGGACACGTGAATCATGGAAAACCAGAAT
TCCTTCCAAAATAATTACATCTGAAGGATTGACCTTTCTTGCACTTGCAACACTCTTATATGTT
TTGAAGTTGTAATTAGGAATGTCCACAGCCTTGCCATGTTTCAAGTTCTCCATACAAGAGAGTA
GTAACTCCGTATCAAATGCATCTGGATGATCAAAGTTATAATCATGAACATGGACCAATTCCTC
ATCAGACAACCCATAATAAAAAGACTCCTGAGTAACAACAACTACACGCTGATCACGTAGCTGA
TCGATTATCATTTTGCATACAGTACTTTTGCCTGAAGATGCACCCCCGGCAACACCAATGACAA
ATGGCTCCTGGTGCCCATTCTCCACCCCTGAGGTCGTTGGTTGTTCCTCCCCTGTCATGGAGCC
ATTGATGTTAAGCTCATCCAAACGGAGCGTGGAGTAGTGGACCCCAGCCGCGGCAGCATCAAGA
ACCTCATCAACTGGTCTTGAACCCATATATTGTTCCAAGAACCTG
						
					

						Genomic sequence
						
							CTGTGTCAACAAAGATCTTCATGTTCATCAAATCCCGGACACGTGAATCATGGAAAACCAGAAT
TCCTTCCAAAATAATTACATCTGAAGGATTGACCTGACAGAAGTCAAAATATTAGGGTTTCTCT
GAAACATAAAGTAAAACAGATATGGATAAACAAAGAGAAGAATAAACTGTAATCAGTGATCCAA
TTTTCATGGATAAAATAATACTATTTGAAATTGTGAAACAATAAGGTGCTTAGTGTTTACTAGA
AACTGCGCCAATTAAAACTAACTACAATATATTTTAACGAGGTTTATTTAAATATGTGCAACCA
TAGAGTTACTACATTTCAGATATACCACTACAAGGTGGACTTCGATATGCCACTGCTAAGTAGG
AAAATTCTGACATATGCCATTATGAAACAAACTGGACACAATGTCCTTGTCCTCTCCCTTCGTC
CGTTCCATATCTACCGTCCCCAACTTCTCCCTCATCAGCCATATCTACCATCCCCAACTTCTGC
CTCATCGACAGGAAAGGTTGCTTTGCTGAAGGGATGTACTACTTCAGTGACTAGAACTTTCACC
AATAATGGTGTACCCAGCCATGGCCTGTACAATTGGCTTGTCGCCTTGGATAAGTTCTTTTGAG
TATTTGTTGTTAGATATATGCAGTAATGTTATGTGACATAGTTACATGCTTCACAGAGCCCGAC
AAAAACCATGCAGATAAGCTACGAATTTTACTGGAATATACTATCTCCATCCCAAAATATAAGG
GATTTTGCCGATGTAATTATTGGATGGGCAAAATCCCTTATAATCACTCCCATGTCTTCACATT
TCCCTTATATTTTGGGACGGAGTAAATATCAAATTATTGGATCTTTCGGCATTTCAAAACCATC
ACTTTTTAATGGAAAACTTCTGGTGGCAGATTGTATTAATAGGCATATATGAGTTCCTAACCAA
AGCTTAAGCACCTACAAAAGGGAAATGAAACTTCTGTGTTCTGACTCCCTAGCTATCCAGCAGA
CCAGCACACAATTTTCAGCTACATTTCTCTTGGACAACTCACAAGATCTGAACGAAGACAAAAT
GATAGTATGATACTCATGAACAATGAAGGTTAGCTCAGGATTACTGCTATGACAATCCTTGTTC
TTATGCTCATTTTTTTATAGAATACTTTTTTTATAGTTGTCGAGAGTTCAGTCATACTACCACT
GTAGTGGTGGCTTAGATTCCAAGAGGGAATTCAAGCTGTGAAGCCTCACCAGGATGAGACTGTG
CTACTCCAACAATCACAGCAGCTACGGGAGATGGTGAAGTAGATGAGATATCTCTAATTTTACC
TACTCGCTAGTGTCATATAATAAAGCAACAACTTTGTACTGGCATATCCCAAAAATTAGTAATT
ATGTAGCATGTATCTAAATAACCCTTTCTACAAATATAGCTGCTATTTTAAGGAGAGTTCCTAC
TAACTTATAGATCACTCAGTTCATACAGCAGGCATAGATTAGAATCTTAAGGCTTTATTAGAAA
CTCAGGACGAGGAAACCTTCAGTTTACCAGGTGAGTAAATTATGATAGCACTGTAAAATAGTAG
TACCTTTCTTGCACTTGCAACACTCTTATATGTTTTGAAGTTGTAATTAGGAATGTCCACAGCC
TTGCCATGTTTCAAGTTCTCCATACAAGAGAGTAGTAACTCCGTATCAAATGCATCTGAAATAA
GGACAGCAGCAGTAGCACCAAAATCAGTGCACAGCTCTAGTCACCAGCATACTTAGGCAAACTT
CTTAGGAATATGCATCATACCTGGATGATCAAAGTTATAATCATGAACATGGACCAATTCCTCA
TCAGACAACCCATAATAAAAAGACTCCTGCAAAGAAAGATTGTAAACAAAATATGGCGGCAATA
TGATATTTAGCATAAAGGGGGCACATTCTGGTGTCTAGCAATACAGCACGATATACTAATTTGT
ACAATCTGTAACAAGCATGTTCGTAGAAAAGTTATCTTGTCATATTTGACACAGTATAAGTAAT
TAATGGAAATAGTATACAATAAACACATAATGCTGGCTTTAAATAGAGCAAATTTTCAGATGCA
CGATCACAAAAGTAACAAGATAATAAGGTTAACAGTGCCAATACAGAAAAATAAAGTAGGAGCA
ACTAGAAACTTGCTATGGAAAGCAGGGGGTACTATTCGATCACAATCAGACAGTCATGCCTGCA
AGCCTACCACTTACAGCAGAAATGAATTATGTGAAGCAGTTAGCAATATAAGTATTATGATCAT
GGTTCATTGAAAGAGTGACAAGAAAAATCACTTTTATAACATTAAGAGTTTCGCGATTGAAAAA
CTAAAAATACCAAAAAAGAAACAGTATATATCAAGTATGATGTTACACAATATATCTAAGGCAG
AGCAACAATTTCAGAAAACAGATACTAGGCACTGTGCCTTAACTGTATTAGCAAAGGTAAAGGT
TGTACACTTGAAATATCATCTCGTGTGCATGATGCTAAACCATGAAATCAGGGAAAACATAATC
CCATTTAGAGGATAAAATGATGTGTACTATATAACTATAGTATCCTAGATCCATGTAATGGATC
CAAACATACCAATATCTAGGTTCTATTAACGACGAAAATACAAGGTTATTTTATTTGTGATGCG
TGAAATATGGAACAAAGTAACTAAAAAAATGACAGTTCCATGGATGTATTTCACCTTAATACCA
CATATATTGAACTAAGAAATATACTATTAGTGGCATATGGTATTCAAAAGAAATTCGGATGACA
CAAATACCACAAGGCAAAAGGGACAAACCTGAGTAACAACAACTACACGCTGATCACGTAGCTG
ATCGATTATCATTTTGCATACAGTACTTTTGCCTGAAGATGCACCCCCGGCAACACCTGTAATC
CAAACCAAATCAGGGAATGAAACATCGGGAGGCAAAAGGGCTACATTATGTACAACAGTCGATA
TTTACTGATTACTTGCAAAATAAACAGACAAAAACAGCACTGAGCAAGTACTACTAACCAATGA
CAAATGGCTCCTGGTGCCCATTCTCCACCCCTGAGGTCGTTGGTTGTTCCTCCCCTGTCATGGA
GCCATTGATGTTAAGCTCATCCAAACGGAGCGTGGAGTAGTGGACCCCAGCCGCGGCAGCATCA
AGAACCTCATCAACTGGTCTTGAACCCATATATTGTTCCAAGAACCTG
						
					

			
		

Sequences
Splice junction sequence	AAGCTCATCCAAACGGAGCGTGGAGTAGTGGACCCCAGCCGCGGCAGCATCAAGAACCTCATCA ACTGGTCTTGAACCCATATATTGTTCCAAGAACCTGctgtgtcaacaaagatcttcatgttcat caaatcccggacacgtgaatcatggaaaaccagaattccttccaaaataattacatctgaagga ttgacctg
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: 557 Transcript exons: 9933497-9933593,9935100-9935215,9935309-9935378,9936341- 9936432,9936563-9936744 CTGTGTCAACAAAGATCTTCATGTTCATCAAATCCCGGACACGTGAATCATGGAAAACCAGAAT TCCTTCCAAAATAATTACATCTGAAGGATTGACCTTTCTTGCACTTGCAACACTCTTATATGTT TTGAAGTTGTAATTAGGAATGTCCACAGCCTTGCCATGTTTCAAGTTCTCCATACAAGAGAGTA GTAACTCCGTATCAAATGCATCTGGATGATCAAAGTTATAATCATGAACATGGACCAATTCCTC ATCAGACAACCCATAATAAAAAGACTCCTGAGTAACAACAACTACACGCTGATCACGTAGCTGA TCGATTATCATTTTGCATACAGTACTTTTGCCTGAAGATGCACCCCCGGCAACACCAATGACAA ATGGCTCCTGGTGCCCATTCTCCACCCCTGAGGTCGTTGGTTGTTCCTCCCCTGTCATGGAGCC ATTGATGTTAAGCTCATCCAAACGGAGCGTGGAGTAGTGGACCCCAGCCGCGGCAGCATCAAGA ACCTCATCAACTGGTCTTGAACCCATATATTGTTCCAAGAACCTG
Genomic sequence	CTGTGTCAACAAAGATCTTCATGTTCATCAAATCCCGGACACGTGAATCATGGAAAACCAGAAT TCCTTCCAAAATAATTACATCTGAAGGATTGACCTGACAGAAGTCAAAATATTAGGGTTTCTCT GAAACATAAAGTAAAACAGATATGGATAAACAAAGAGAAGAATAAACTGTAATCAGTGATCCAA TTTTCATGGATAAAATAATACTATTTGAAATTGTGAAACAATAAGGTGCTTAGTGTTTACTAGA AACTGCGCCAATTAAAACTAACTACAATATATTTTAACGAGGTTTATTTAAATATGTGCAACCA TAGAGTTACTACATTTCAGATATACCACTACAAGGTGGACTTCGATATGCCACTGCTAAGTAGG AAAATTCTGACATATGCCATTATGAAACAAACTGGACACAATGTCCTTGTCCTCTCCCTTCGTC CGTTCCATATCTACCGTCCCCAACTTCTCCCTCATCAGCCATATCTACCATCCCCAACTTCTGC CTCATCGACAGGAAAGGTTGCTTTGCTGAAGGGATGTACTACTTCAGTGACTAGAACTTTCACC AATAATGGTGTACCCAGCCATGGCCTGTACAATTGGCTTGTCGCCTTGGATAAGTTCTTTTGAG TATTTGTTGTTAGATATATGCAGTAATGTTATGTGACATAGTTACATGCTTCACAGAGCCCGAC AAAAACCATGCAGATAAGCTACGAATTTTACTGGAATATACTATCTCCATCCCAAAATATAAGG GATTTTGCCGATGTAATTATTGGATGGGCAAAATCCCTTATAATCACTCCCATGTCTTCACATT TCCCTTATATTTTGGGACGGAGTAAATATCAAATTATTGGATCTTTCGGCATTTCAAAACCATC ACTTTTTAATGGAAAACTTCTGGTGGCAGATTGTATTAATAGGCATATATGAGTTCCTAACCAA AGCTTAAGCACCTACAAAAGGGAAATGAAACTTCTGTGTTCTGACTCCCTAGCTATCCAGCAGA CCAGCACACAATTTTCAGCTACATTTCTCTTGGACAACTCACAAGATCTGAACGAAGACAAAAT GATAGTATGATACTCATGAACAATGAAGGTTAGCTCAGGATTACTGCTATGACAATCCTTGTTC TTATGCTCATTTTTTTATAGAATACTTTTTTTATAGTTGTCGAGAGTTCAGTCATACTACCACT GTAGTGGTGGCTTAGATTCCAAGAGGGAATTCAAGCTGTGAAGCCTCACCAGGATGAGACTGTG CTACTCCAACAATCACAGCAGCTACGGGAGATGGTGAAGTAGATGAGATATCTCTAATTTTACC TACTCGCTAGTGTCATATAATAAAGCAACAACTTTGTACTGGCATATCCCAAAAATTAGTAATT ATGTAGCATGTATCTAAATAACCCTTTCTACAAATATAGCTGCTATTTTAAGGAGAGTTCCTAC TAACTTATAGATCACTCAGTTCATACAGCAGGCATAGATTAGAATCTTAAGGCTTTATTAGAAA CTCAGGACGAGGAAACCTTCAGTTTACCAGGTGAGTAAATTATGATAGCACTGTAAAATAGTAG TACCTTTCTTGCACTTGCAACACTCTTATATGTTTTGAAGTTGTAATTAGGAATGTCCACAGCC TTGCCATGTTTCAAGTTCTCCATACAAGAGAGTAGTAACTCCGTATCAAATGCATCTGAAATAA GGACAGCAGCAGTAGCACCAAAATCAGTGCACAGCTCTAGTCACCAGCATACTTAGGCAAACTT CTTAGGAATATGCATCATACCTGGATGATCAAAGTTATAATCATGAACATGGACCAATTCCTCA TCAGACAACCCATAATAAAAAGACTCCTGCAAAGAAAGATTGTAAACAAAATATGGCGGCAATA TGATATTTAGCATAAAGGGGGCACATTCTGGTGTCTAGCAATACAGCACGATATACTAATTTGT ACAATCTGTAACAAGCATGTTCGTAGAAAAGTTATCTTGTCATATTTGACACAGTATAAGTAAT TAATGGAAATAGTATACAATAAACACATAATGCTGGCTTTAAATAGAGCAAATTTTCAGATGCA CGATCACAAAAGTAACAAGATAATAAGGTTAACAGTGCCAATACAGAAAAATAAAGTAGGAGCA ACTAGAAACTTGCTATGGAAAGCAGGGGGTACTATTCGATCACAATCAGACAGTCATGCCTGCA AGCCTACCACTTACAGCAGAAATGAATTATGTGAAGCAGTTAGCAATATAAGTATTATGATCAT GGTTCATTGAAAGAGTGACAAGAAAAATCACTTTTATAACATTAAGAGTTTCGCGATTGAAAAA CTAAAAATACCAAAAAAGAAACAGTATATATCAAGTATGATGTTACACAATATATCTAAGGCAG AGCAACAATTTCAGAAAACAGATACTAGGCACTGTGCCTTAACTGTATTAGCAAAGGTAAAGGT TGTACACTTGAAATATCATCTCGTGTGCATGATGCTAAACCATGAAATCAGGGAAAACATAATC CCATTTAGAGGATAAAATGATGTGTACTATATAACTATAGTATCCTAGATCCATGTAATGGATC CAAACATACCAATATCTAGGTTCTATTAACGACGAAAATACAAGGTTATTTTATTTGTGATGCG TGAAATATGGAACAAAGTAACTAAAAAAATGACAGTTCCATGGATGTATTTCACCTTAATACCA CATATATTGAACTAAGAAATATACTATTAGTGGCATATGGTATTCAAAAGAAATTCGGATGACA CAAATACCACAAGGCAAAAGGGACAAACCTGAGTAACAACAACTACACGCTGATCACGTAGCTG ATCGATTATCATTTTGCATACAGTACTTTTGCCTGAAGATGCACCCCCGGCAACACCTGTAATC CAAACCAAATCAGGGAATGAAACATCGGGAGGCAAAAGGGCTACATTATGTACAACAGTCGATA TTTACTGATTACTTGCAAAATAAACAGACAAAAACAGCACTGAGCAAGTACTACTAACCAATGA CAAATGGCTCCTGGTGCCCATTCTCCACCCCTGAGGTCGTTGGTTGTTCCTCCCCTGTCATGGA GCCATTGATGTTAAGCTCATCCAAACGGAGCGTGGAGTAGTGGACCCCAGCCGCGGCAGCATCA AGAACCTCATCAACTGGTCTTGAACCCATATATTGTTCCAAGAACCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_011530 						
					
						PMCS
						0.111517685

Conservation Information
Conserved circRNAs	osi_circ_011530
PMCS	0.111517685

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9936727-9936628(-)
						
						Potential amino acid sequence
						
							MGSRPVDEVLDAAAAGVHYSTLRLDELNINGSMTGEEQPTTSGVENGHQEPFVIGVAGGASSGK
STVCKMIIDQLRDQRVVVVTQESFYYGLSDEELVHVHDYNFDHPDAFDTELLLSCMENLKHGKA
VDIPNYNFKTYKSVASARKVNPSDVIILEGILVFHDSRVRDLMNMKIFVDTAGSWNNIWVQDQL
MRFLMLPRLGSTTPRSVWMSLTSMAP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9936727-9936628(-)
Potential amino acid sequence	MGSRPVDEVLDAAAAGVHYSTLRLDELNINGSMTGEEQPTTSGVENGHQEPFVIGVAGGASSGK STVCKMIIDQLRDQRVVVVTQESFYYGLSDEELVHVHDYNFDHPDAFDTELLLSCMENLKHGKA VDIPNYNFKTYKSVASARKVNPSDVIILEGILVFHDSRVRDLMNMKIFVDTAGSWNNIWVQDQL MRFLMLPRLGSTTPRSVWMSLTSMAP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os02g0273000_circ_g.7

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