Plant Circular RNA Database

Detail information of Os10g0556700_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os10g0556700_circ_g.7
					
						ID in PlantcircBase
						osa_circ_007967
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 21891997-21893141  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os10g0556700						
					
						Parent gene annotation
						
							CCR4-Not1 complex component, mRNA deadenylation (Os10t0556700-01
)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0556700_circ_g.8 Os10g0556700_circ_g.9 Os10g0556700_circ_g.10 Os10g0556700_circ_g.11 Os10g0556700_circ_g.12 Os10g0556700_circ_g.13 Os10g0556700_circ_g.14 						
					
						Support reads
						2
					
						Tissues
						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
						Os10t0556700-01:5

General Information
CircRNA Name	Os10g0556700_circ_g.7
ID in PlantcircBase	osa_circ_007967
Alias	NA
Organism	Oryza sativa
Position	chr10: 21891997-21893141 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os10g0556700
Parent gene annotation	CCR4-Not1 complex component, mRNA deadenylation (Os10t0556700-01 )
Parent gene strand	-
Alternative splicing	Os10g0556700_circ_g.8 Os10g0556700_circ_g.9 Os10g0556700_circ_g.10 Os10g0556700_circ_g.11 Os10g0556700_circ_g.12 Os10g0556700_circ_g.13 Os10g0556700_circ_g.14
Support reads	2
Tissues	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	Os10t0556700-01:5

			
						 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  
						
							TGGAAGGTCATTGGGAACCATAGGCGGAAAAACAGATGCAACATTTGTGGTTCCAATAACTTGG
GTAGATGTGTCACTCGCGCCAATTTTTGAAGAAAGGccagctcgttaactccttgacgacaagt
ttgcaaacatcacgtattgcgaccaaagctgctaggagccatgtgacataattactgtttgatg
cattgtca

									
								

					

						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: 487
Transcript exons: 21891997-21892113,21892206-21892283,21892417-21892461,21
892814-21892933,21893015-21893141
CCAGCTCGTTAACTCCTTGACGACAAGTTTGCAAACATCACGTATTGCGACCAAAGCTGCTAGG
AGCCATGTGACATAATTACTGTTTGATGCATTGTCATACAAACTTCTGAAAACCTTCTGTGCAA
TAGCCAAGGCAGCTTCATCTCGACTGACACATCTGAGTAAGATGTCGGGAACCTCCGCAATGAC
AGACTGAATTTCTGCATCTTTGCCATCCTTTGCGATCAAAGTATCCAGCTTTTGTGAAACTTGT
TGGTACATCTCCAGCGCATCACTAGTATTCAAAGGTTCCACAAAAACAGATCCCATCCGATCAA
CAGCAGTTGTAGGTGAAAGTGGTGCCGAAGTAACAAGATCTTTATTCGTGGTTGTTGGTTCACC
CACTGGAAGGTCATTGGGAACCATAGGCGGAAAAACAGATGCAACATTTGTGGTTCCAATAACT
TGGGTAGATGTGTCACTCGCGCCAATTTTTGAAGAAAGG
						
					

						Genomic sequence
						
							CCAGCTCGTTAACTCCTTGACGACAAGTTTGCAAACATCACGTATTGCGACCAAAGCTGCTAGG
AGCCATGTGACATAATTACTGTTTGATGCATTGTCATACAAACTTCTGAAAACCTGGAACCAAA
ATATCCAAATATTCAATAGAGGGAGGGAGGGAGGGAGAGACTGAAACAAGTGCTTATTACAAAT
AGGAAATGATGGCAAACCTTCTGTGCAATAGCCAAGGCAGCTTCATCTCGACTGACACATCTGA
GTAAGATGTCGGGAACCTCCGCAATGACAGACTGAATACAGCAATAAATGTTAGCATTATGTTG
AGAAAGGGTAATGTACTGCAGATGAATCTATAGCAAAAAAATAAATAACTAAAAGGAAAATAAG
AACAAATCCCTGGAAGAAAATGGCAACAAAGCTAACCTGAATTTCTGCATCTTTGCCATCCTTT
GCGATCAAAGTATCCAGCTGTAAGGCAAAAAAAAAAATAGAATGTAAAACTTGCATAATGACAG
AATCACCCAAAAGGTCTAAGAGACCGTAAGTGTAGAAAATATATTTAACAAAGGCAAATGACAT
TTTACCACAAGTAAAAACACTATCTAGATTTGGCTGAAAAGTATGTACCAGTGAAAAAAAATCA
CACTTTTCATATGCAAAGCATGAACTATCAATAGGGACCACTGGACAAAGACCGCAATAAGTAA
TTCATTTTCAGGTGCACTTTAGATGGTACTAACATGCTAACACATGCAATAATTCCACCATGCT
ACTAGATAAATTTCAAAAAATCCACACGCTATATAAAACATATTTGTACCTTTTGTGAAACTTG
TTGGTACATCTCCAGCGCATCACTAGTATTCAAAGGTTCCACAAAAACAGATCCCATCCGATCA
ACAGCAGTTGTAGGTGAAAGTGGTGCCGAAGTAACAAGATCCTGGTAACAGAGTTTGGCAGGTA
TAAGAGAACGCATTCAGCACCATTTCCTCATTTAAATACAAGAGTAAAAGATACTGACTTTATT
CGTGGTTGTTGGTTCACCCACTGGAAGGTCATTGGGAACCATAGGCGGAAAAACAGATGCAACA
TTTGTGGTTCCAATAACTTGGGTAGATGTGTCACTCGCGCCAATTTTTGAAGAAAGG
						
					

			
		

Sequences
Splice junction sequence	TGGAAGGTCATTGGGAACCATAGGCGGAAAAACAGATGCAACATTTGTGGTTCCAATAACTTGG GTAGATGTGTCACTCGCGCCAATTTTTGAAGAAAGGccagctcgttaactccttgacgacaagt ttgcaaacatcacgtattgcgaccaaagctgctaggagccatgtgacataattactgtttgatg cattgtca
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: 487 Transcript exons: 21891997-21892113,21892206-21892283,21892417-21892461,21 892814-21892933,21893015-21893141 CCAGCTCGTTAACTCCTTGACGACAAGTTTGCAAACATCACGTATTGCGACCAAAGCTGCTAGG AGCCATGTGACATAATTACTGTTTGATGCATTGTCATACAAACTTCTGAAAACCTTCTGTGCAA TAGCCAAGGCAGCTTCATCTCGACTGACACATCTGAGTAAGATGTCGGGAACCTCCGCAATGAC AGACTGAATTTCTGCATCTTTGCCATCCTTTGCGATCAAAGTATCCAGCTTTTGTGAAACTTGT TGGTACATCTCCAGCGCATCACTAGTATTCAAAGGTTCCACAAAAACAGATCCCATCCGATCAA CAGCAGTTGTAGGTGAAAGTGGTGCCGAAGTAACAAGATCTTTATTCGTGGTTGTTGGTTCACC CACTGGAAGGTCATTGGGAACCATAGGCGGAAAAACAGATGCAACATTTGTGGTTCCAATAACT TGGGTAGATGTGTCACTCGCGCCAATTTTTGAAGAAAGG
Genomic sequence	CCAGCTCGTTAACTCCTTGACGACAAGTTTGCAAACATCACGTATTGCGACCAAAGCTGCTAGG AGCCATGTGACATAATTACTGTTTGATGCATTGTCATACAAACTTCTGAAAACCTGGAACCAAA ATATCCAAATATTCAATAGAGGGAGGGAGGGAGGGAGAGACTGAAACAAGTGCTTATTACAAAT AGGAAATGATGGCAAACCTTCTGTGCAATAGCCAAGGCAGCTTCATCTCGACTGACACATCTGA GTAAGATGTCGGGAACCTCCGCAATGACAGACTGAATACAGCAATAAATGTTAGCATTATGTTG AGAAAGGGTAATGTACTGCAGATGAATCTATAGCAAAAAAATAAATAACTAAAAGGAAAATAAG AACAAATCCCTGGAAGAAAATGGCAACAAAGCTAACCTGAATTTCTGCATCTTTGCCATCCTTT GCGATCAAAGTATCCAGCTGTAAGGCAAAAAAAAAAATAGAATGTAAAACTTGCATAATGACAG AATCACCCAAAAGGTCTAAGAGACCGTAAGTGTAGAAAATATATTTAACAAAGGCAAATGACAT TTTACCACAAGTAAAAACACTATCTAGATTTGGCTGAAAAGTATGTACCAGTGAAAAAAAATCA CACTTTTCATATGCAAAGCATGAACTATCAATAGGGACCACTGGACAAAGACCGCAATAAGTAA TTCATTTTCAGGTGCACTTTAGATGGTACTAACATGCTAACACATGCAATAATTCCACCATGCT ACTAGATAAATTTCAAAAAATCCACACGCTATATAAAACATATTTGTACCTTTTGTGAAACTTG TTGGTACATCTCCAGCGCATCACTAGTATTCAAAGGTTCCACAAAAACAGATCCCATCCGATCA ACAGCAGTTGTAGGTGAAAGTGGTGCCGAAGTAACAAGATCCTGGTAACAGAGTTTGGCAGGTA TAAGAGAACGCATTCAGCACCATTTCCTCATTTAAATACAAGAGTAAAAGATACTGACTTTATT CGTGGTTGTTGGTTCACCCACTGGAAGGTCATTGGGAACCATAGGCGGAAAAACAGATGCAACA TTTGTGGTTCCAATAACTTGGGTAGATGTGTCACTCGCGCCAATTTTTGAAGAAAGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.22424917

Conservation Information
Conserved circRNAs	NA
PMCS	0.22424917

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21893111-21892072(+)
21893064-21893117(-)
						
						Potential amino acid sequence
						
							MCHSRQFLKKGQLVNSLTTSLQTSRIATKAARSHVT*(+)
MVPNDLPVGEPTTTNKDLVTSAPLSPTTAVDRMGSVFVEPLNTSDALEMYQQVSQKLDTLIAKD
GKDAEIQSVIAEVPDILLRCVSRDEAALAIAQKVFRSLYDNASNSNYVTWLLAALVAIRDVCKL
VVKELTSWPFFKNWRE*(-)
						
						Sponge-miRNAs
						
							osa-miR2919 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21893111-21892072(+) 21893064-21893117(-)
Potential amino acid sequence	MCHSRQFLKKGQLVNSLTTSLQTSRIATKAARSHVT(+) MVPNDLPVGEPTTTNKDLVTSAPLSPTTAVDRMGSVFVEPLNTSDALEMYQQVSQKLDTLIAKD GKDAEIQSVIAEVPDILLRCVSRDEAALAIAQKVFRSLYDNASNSNYVTWLLAALVAIRDVCKL VVKELTSWPFFKNWRE(-)
Sponge-miRNAs	osa-miR2919
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os10g0556700_circ_g.7

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