Plant Circular RNA Database

Detail information of Os11g0189600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os11g0189600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_008743
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 4526689-4528926  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0189600						
					
						Parent gene annotation
						
							Similar to Cycloartenol synthase. (Os11t0189600-01);Similar to c
DNA clone:J013062J12, full insert sequence. (Os11t0189600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0189600_circ_g.2 Os11g0189600_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os11t0189600-01:4
Os11t0189600-02:4

General Information
CircRNA Name	Os11g0189600_circ_g.1
ID in PlantcircBase	osa_circ_008743
Alias	NA
Organism	Oryza sativa
Position	chr11: 4526689-4528926 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0189600
Parent gene annotation	Similar to Cycloartenol synthase. (Os11t0189600-01);Similar to c DNA clone:J013062J12, full insert sequence. (Os11t0189600-02)
Parent gene strand	+
Alternative splicing	Os11g0189600_circ_g.2 Os11g0189600_circ_g.3
Support reads	1
Tissues	shoot
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	Os11t0189600-01:4 Os11t0189600-02:4

			
						 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  
						
							TGGCCCAGTAACACCAGTTGTGCTAGAGCTAAGAAGTGAACTATACAATGACCCCTATGATGAG
ATTGACTGGAACAAAGCTCGTACTCAGTGTGCAAAGattataacattgcatgtcagtggagttc
tgaacactgttttatcatcggaacatcagaaggagatgcgccggtacatctataatcaccaggc
aaggttac

									
								

					

						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: 537
Transcript exons: 4526689-4526775,4527223-4527420,4527529-4527613,4528760-
4528926
ATTATAACATTGCATGTCAGTGGAGTTCTGAACACTGTTTTATCATCGGAACATCAGAAGGAGA
TGCGCCGGTACATCTATAATCACCAGAATGAAGATGGAGGGTGGGGGTTGCACATTGAGGGCCA
CAGCACCATGCTTGGCTCATCCCTGAACTATGTTGCTTTGAGATTGCTTGGGGAGGGTCCAAAT
GGTGGAGATGGATGCATAGAGAATGGTCGAAACTGGATTTTAGATCATGGAGGAGCCACATTTA
CGACATCATGGGGGAAGTTCTGGCTCTCGGTACTTGGAGTATTTGATTGGTCCGGTAATAACCC
AGTGCCACCAGAGTTATTACTATTGCCGTATCAACTGCCGTTTCACCCAGGTCGAATGTCGAGC
TATATCCGAATGGTGTTTATACCCATGTCTTACATTTATGGAAAAAGGTTTGTTGGCCCAGTAA
CACCAGTTGTGCTAGAGCTAAGAAGTGAACTATACAATGACCCCTATGATGAGATTGACTGGAA
CAAAGCTCGTACTCAGTGTGCAAAG
						
					

						Genomic sequence
						
							ATTATAACATTGCATGTCAGTGGAGTTCTGAACACTGTTTTATCATCGGAACATCAGAAGGAGA
TGCGCCGGTACATCTATAATCACCAGGCAAGGTTACTTTAATTAATTTGTTGATAAACTTTACA
AATTCTATGCTGCGAGAAAGCAAATTCATTACTTTTCGTGAATATATGTTGGAAATTGAACTTA
CCACAGCATCAATGTGAACAGATCTCGTTTGTGCCACATGCTAATGCAACCACATTAAACAAAT
TAATGTGACTAGCTAGAACATCTCCACCTAAGGTTGTTCTCAGCTGCCCCTCTTTCCAACACCT
CTCTCGTTTTTCACGCGTACGCTTTTTAAACTGCTAAACGATGTGTTTTTTTGCAAAAAAGTTT
CCATACGAAAGTTGCTTAAGAATGGAATTAATCCATTTTTTAAAAAAATAGTAAATACTTAATT
AATCACCCACTAATCGCTGCTCCGTTTTTACAAGATTCAAACATGCATGCATAAGTCTAGATTA
TTCCTAACAATATATATAATTGCAGAATGAAGATGGAGGGTGGGGGTTGCACATTGAGGGCCAC
AGCACCATGCTTGGCTCATCCCTGAACTATGTTGCTTTGAGATTGCTTGGGGAGGGTCCAAATG
GTGGAGATGGATGCATAGAGAATGGTCGAAACTGGATTTTAGATCATGGAGGAGCCACATTTAC
GACATCATGGGGGAAGTTCTGGCTCTCGGTATGGGATTAATACACTTCTTTGTTTATGGCATTT
ATGCCATTTCAAACTTTTTCAAATTGGTTTTATAGAGAAGCTTCCGTAGTTTCATTTCACTTAT
TATCTCAGGTACTTGGAGTATTTGATTGGTCCGGTAATAACCCAGTGCCACCAGAGTTATTACT
ATTGCCGTATCAACTGCCGTTTCACCCAGGTAGTACTGCTTGCTTTCTTGAGGCATCATATTCA
TGCACGTGTTGTATAGGGAATGTGTTTGGGGTTAGCCCCAAAAAATCTTAGTCGCAACTTAAAT
TTAGGAAAACCTGGGGTGTTTGGATTGTAGCTATGCCAACACTATCAGTATATACCATATATAT
GGGCCTTATGTCAGCTCTATGGACAGCCACCATGTACGAGTAGTCTAATTCGCGACTAGTCGCG
CTAGCTCTCCCGCGCGACTGACGGCGTGTCGCACGCAGAGAGGAGGCGGCGAATGCGCGTACGG
TTTTGTTTTTTTTTTTCTGTTTTTTCTCTTCCGTATCCTCTCCAGTTTTCTTTTTTTCTTTTTT
TTCTTTTCCGTATATTTTTCCGTTTTCTCGGTTTTGTAATACGTATGTATGTAAACTTTGTATA
CACGTATTTTTTGGTTTTTTATACGTAAGCCCACAAACTTTATATACATATGTATATTTTTATA
CATTAAAAGTGTATACATATGTACGTATACAAAGTTTGTGTACGAGTATACAAACTTTGTATAT
GTGTACAAACTTTATATACGTGATGTATTTTTTTATTTTTAATATGTACATATATAAAGTTTGT
ACGTCGTATATAAACTTTGTATACATATGCAACATATACAAAGTTTATATACATGTATATATTT
TTTATAGTAGTAGTACTAGTAGGACTATAGTATAGTAGCAGTAATACTGGTAGTAGTACCGTTG
TAGTAGCACTGCATGAGAAGGTAGTACGGTATTTAGGGGTGGCCGCGCGCCTAACACCACCCCC
CCCTAAAAAAACCATGTACACCCTCTCTCCATAGTACACGCGCGCGCAAACACATATCCGTATG
GCACCTCTAAACACTGTACGTTGTGCACATGTCATCTGAATTTCACAATGCGTATCACCACTAT
AGCTCATGTACAGATCAACACATAAGAGAGGAAATTAATCTTATTAGCTACGACTAGAGATCAA
TGAATGAGCCTCCATCTAGGGTGAAAATTAAATTATCTTAATACGGCAGATTATTCAACTGCAA
TACACCGAATTGATAAATGCTGAAGTTTCTATGTTGTTGGCCATTCATTGATAATATGATGTAT
TACTGATTCATAACATAATGCAGGTCGAATGTCGAGCTATATCCGAATGGTGTTTATACCCATG
TCTTACATTTATGGAAAAAGGTTTGTTGGCCCAGTAACACCAGTTGTGCTAGAGCTAAGAAGTG
AACTATACAATGACCCCTATGATGAGATTGACTGGAACAAAGCTCGTACTCAGTGTGCAAAG
						
					

			
		

Sequences
Splice junction sequence	TGGCCCAGTAACACCAGTTGTGCTAGAGCTAAGAAGTGAACTATACAATGACCCCTATGATGAG ATTGACTGGAACAAAGCTCGTACTCAGTGTGCAAAGattataacattgcatgtcagtggagttc tgaacactgttttatcatcggaacatcagaaggagatgcgccggtacatctataatcaccaggc aaggttac
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: 537 Transcript exons: 4526689-4526775,4527223-4527420,4527529-4527613,4528760- 4528926 ATTATAACATTGCATGTCAGTGGAGTTCTGAACACTGTTTTATCATCGGAACATCAGAAGGAGA TGCGCCGGTACATCTATAATCACCAGAATGAAGATGGAGGGTGGGGGTTGCACATTGAGGGCCA CAGCACCATGCTTGGCTCATCCCTGAACTATGTTGCTTTGAGATTGCTTGGGGAGGGTCCAAAT GGTGGAGATGGATGCATAGAGAATGGTCGAAACTGGATTTTAGATCATGGAGGAGCCACATTTA CGACATCATGGGGGAAGTTCTGGCTCTCGGTACTTGGAGTATTTGATTGGTCCGGTAATAACCC AGTGCCACCAGAGTTATTACTATTGCCGTATCAACTGCCGTTTCACCCAGGTCGAATGTCGAGC TATATCCGAATGGTGTTTATACCCATGTCTTACATTTATGGAAAAAGGTTTGTTGGCCCAGTAA CACCAGTTGTGCTAGAGCTAAGAAGTGAACTATACAATGACCCCTATGATGAGATTGACTGGAA CAAAGCTCGTACTCAGTGTGCAAAG
Genomic sequence	ATTATAACATTGCATGTCAGTGGAGTTCTGAACACTGTTTTATCATCGGAACATCAGAAGGAGA TGCGCCGGTACATCTATAATCACCAGGCAAGGTTACTTTAATTAATTTGTTGATAAACTTTACA AATTCTATGCTGCGAGAAAGCAAATTCATTACTTTTCGTGAATATATGTTGGAAATTGAACTTA CCACAGCATCAATGTGAACAGATCTCGTTTGTGCCACATGCTAATGCAACCACATTAAACAAAT TAATGTGACTAGCTAGAACATCTCCACCTAAGGTTGTTCTCAGCTGCCCCTCTTTCCAACACCT CTCTCGTTTTTCACGCGTACGCTTTTTAAACTGCTAAACGATGTGTTTTTTTGCAAAAAAGTTT CCATACGAAAGTTGCTTAAGAATGGAATTAATCCATTTTTTAAAAAAATAGTAAATACTTAATT AATCACCCACTAATCGCTGCTCCGTTTTTACAAGATTCAAACATGCATGCATAAGTCTAGATTA TTCCTAACAATATATATAATTGCAGAATGAAGATGGAGGGTGGGGGTTGCACATTGAGGGCCAC AGCACCATGCTTGGCTCATCCCTGAACTATGTTGCTTTGAGATTGCTTGGGGAGGGTCCAAATG GTGGAGATGGATGCATAGAGAATGGTCGAAACTGGATTTTAGATCATGGAGGAGCCACATTTAC GACATCATGGGGGAAGTTCTGGCTCTCGGTATGGGATTAATACACTTCTTTGTTTATGGCATTT ATGCCATTTCAAACTTTTTCAAATTGGTTTTATAGAGAAGCTTCCGTAGTTTCATTTCACTTAT TATCTCAGGTACTTGGAGTATTTGATTGGTCCGGTAATAACCCAGTGCCACCAGAGTTATTACT ATTGCCGTATCAACTGCCGTTTCACCCAGGTAGTACTGCTTGCTTTCTTGAGGCATCATATTCA TGCACGTGTTGTATAGGGAATGTGTTTGGGGTTAGCCCCAAAAAATCTTAGTCGCAACTTAAAT TTAGGAAAACCTGGGGTGTTTGGATTGTAGCTATGCCAACACTATCAGTATATACCATATATAT GGGCCTTATGTCAGCTCTATGGACAGCCACCATGTACGAGTAGTCTAATTCGCGACTAGTCGCG CTAGCTCTCCCGCGCGACTGACGGCGTGTCGCACGCAGAGAGGAGGCGGCGAATGCGCGTACGG TTTTGTTTTTTTTTTTCTGTTTTTTCTCTTCCGTATCCTCTCCAGTTTTCTTTTTTTCTTTTTT TTCTTTTCCGTATATTTTTCCGTTTTCTCGGTTTTGTAATACGTATGTATGTAAACTTTGTATA CACGTATTTTTTGGTTTTTTATACGTAAGCCCACAAACTTTATATACATATGTATATTTTTATA CATTAAAAGTGTATACATATGTACGTATACAAAGTTTGTGTACGAGTATACAAACTTTGTATAT GTGTACAAACTTTATATACGTGATGTATTTTTTTATTTTTAATATGTACATATATAAAGTTTGT ACGTCGTATATAAACTTTGTATACATATGCAACATATACAAAGTTTATATACATGTATATATTT TTTATAGTAGTAGTACTAGTAGGACTATAGTATAGTAGCAGTAATACTGGTAGTAGTACCGTTG TAGTAGCACTGCATGAGAAGGTAGTACGGTATTTAGGGGTGGCCGCGCGCCTAACACCACCCCC CCCTAAAAAAACCATGTACACCCTCTCTCCATAGTACACGCGCGCGCAAACACATATCCGTATG GCACCTCTAAACACTGTACGTTGTGCACATGTCATCTGAATTTCACAATGCGTATCACCACTAT AGCTCATGTACAGATCAACACATAAGAGAGGAAATTAATCTTATTAGCTACGACTAGAGATCAA TGAATGAGCCTCCATCTAGGGTGAAAATTAAATTATCTTAATACGGCAGATTATTCAACTGCAA TACACCGAATTGATAAATGCTGAAGTTTCTATGTTGTTGGCCATTCATTGATAATATGATGTAT TACTGATTCATAACATAATGCAGGTCGAATGTCGAGCTATATCCGAATGGTGTTTATACCCATG TCTTACATTTATGGAAAAAGGTTTGTTGGCCCAGTAACACCAGTTGTGCTAGAGCTAAGAAGTG AACTATACAATGACCCCTATGATGAGATTGACTGGAACAAAGCTCGTACTCAGTGTGCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.249103511

Conservation Information
Conserved circRNAs	NA
PMCS	0.249103511

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4526753-4528923(+)
4526705-4528869(-)
						
						Potential amino acid sequence
						
							MRRYIYNHQNEDGGWGLHIEGHSTMLGSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATF
TTSWGKFWLSVLGVFDWSGNNPVPPELLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPV
TPVVLELRSELYNDPYDEIDWNKARTQCAKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDG
GWGLHIEGHSTMLGSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLG
VFDWSGNNPVPPELLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYN
DPYDEIDWNKARTQCAKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGGWGLHIEGHSTML
GSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGVFDWSGNNPVPPE
LLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYNDPYDEIDWNKART
QCAKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGGWGLHIEGHSTMLGSSLNYVALRLLG
EGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGVFDWSGNNPVPPELLLLPYQLPFHPG
RMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYNDPYDEIDWNKARTQCAK(+)
MQCYNLCTLSTSFVPVNLIIGVIV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4526753-4528923(+) 4526705-4528869(-)
Potential amino acid sequence	MRRYIYNHQNEDGGWGLHIEGHSTMLGSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATF TTSWGKFWLSVLGVFDWSGNNPVPPELLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPV TPVVLELRSELYNDPYDEIDWNKARTQCAKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDG GWGLHIEGHSTMLGSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLG VFDWSGNNPVPPELLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYN DPYDEIDWNKARTQCAKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGGWGLHIEGHSTML GSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGVFDWSGNNPVPPE LLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYNDPYDEIDWNKART QCAKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGGWGLHIEGHSTMLGSSLNYVALRLLG EGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGVFDWSGNNPVPPELLLLPYQLPFHPG RMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYNDPYDEIDWNKARTQCAK(+) MQCYNLCTLSTSFVPVNLIIGVIV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0189600_circ_g.1

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