Plant Circular RNA Database

Detail information of Os08g0130400_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os08g0130400_circ_g.2
					
						ID in PlantcircBase
						osa_circ_035743
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 1717505-1718495  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0130400						
					
						Parent gene annotation
						
							AMP-dependent synthetase/ligase domain containing protein. (Os08
t0130400-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Os08t0130400-01:3

General Information
CircRNA Name	Os08g0130400_circ_g.2
ID in PlantcircBase	osa_circ_035743
Alias	NA
Organism	Oryza sativa
Position	chr8: 1717505-1718495 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0130400
Parent gene annotation	AMP-dependent synthetase/ligase domain containing protein. (Os08 t0130400-01)
Parent gene strand	-
Alternative splicing	NA
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	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	Os08t0130400-01:3

			
						 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  
						
							CAAATTTAGGTATCAGGACATGACAGCCTCCAGCCATCAGGATTGCCAAGCATGAAGAGATCCC
TCCAATATGGCACAAAGGAGCTGTATGCAGGTAGATctcctctgggtacacattttcacctcca
gttttgattcttcccttttgtcgccccatgagccacagattaccagttttatccacccatccaa
tgtcgccg

									
								

					

						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: 689
Transcript exons: 1717505-1717878,1718089-1718209,1718302-1718495
CTCCTCTGGGTACACATTTTCACCTCCAGTTTTGATTCTTCCCTTTTGTCGCCCCATGAGCCAC
AGATTACCAGTTTTATCCACCCATCCAATGTCGCCGGTGTCGAGCCATCCATTCCTGACAGAAT
CTGATGTGTCTATGCTGTTGTTCACCCAGTATCCGGACATCGTATGTAAGCCTCTTGTCAAGAT
ATTCCCAATTGGTGAAGAAGAACTACTGTTACTTCCATTTCTGTTGATCTGTATCTCAATATGA
GGCGCTGGTTTGCCAACACACACACCTTCAGAAGAGCTGCCTAACTGGTCCTTAGGTTCTTGAA
TTTTTGGCCTGGTGAGAACCATGAATGTCAGAGATGAACAGGCCTCAGTCATCCCATAAGCTGA
GAAGATAGTGGCATTAGGAAATAAGTGAGAAGCTCCAGTTATCAATTCACTCGACAACCCGCCA
CCGCCATTGAGAATCTTTGTCACGGTCATCCCGTGGTTCAATATCTTCGAGCATAGGATAGTAG
GTCAGCCATGATTGCAGGAACAGTGATGAACGAAGTCACTCTGTGTTCTAGGATGGCGTCGAAA
GCCGATTTCACGTCAAATTTAGGTATCAGGACATGACAGCCTCCAGCCATCAGGATTGCCAAGC
ATGAAGAGATCCCTCCAATATGGCACAAAGGAGCTGTATGCAGGTAGAT
						
					

						Genomic sequence
						
							CTCCTCTGGGTACACATTTTCACCTCCAGTTTTGATTCTTCCCTTTTGTCGCCCCATGAGCCAC
AGATTACCAGTTTTATCCACCCATCCAATGTCGCCGGTGTCGAGCCATCCATTCCTGACAGAAT
CTGATGTGTCTATGCTGTTGTTCACCCAGTATCCGGACATCGTATGTAAGCCTCTTGTCAAGAT
ATTCCCAATTGGTGAAGAAGAACTACTGTTACTTCCATTTCTGTTGATCTGTATCTCAATATGA
GGCGCTGGTTTGCCAACACACACACCTTCAGAAGAGCTGCCTAACTGGTCCTTAGGTTCTTGAA
TTTTTGGCCTGGTGAGAACCATGAATGTCAGAGATGAACAGGCCTCAGTCATCCCTGATGAAAA
TTTTAAGCCAGTTAGTGAACTTTGCAGTAGGTAGCCAATAACATGATTCAGAGCTCATAGTAAC
AGTAACAGTGATGTCTCAGTTCAGTTTTTTGAGATATGTTACAACTTGCAAGAATCAAAATGAC
TCCTAATGGTACCTAACTTTAGGGAATTTTTGCAGGAAAAATGAACTTGAAATCAGTGGTAAGT
AGTTATACCATAAGCTGAGAAGATAGTGGCATTAGGAAATAAGTGAGAAGCTCCAGTTATCAAT
TCACTCGACAACCCGCCACCGCCATTGAGAATCTTTGTCACGGTCATCCCGTGGTTCAATATCT
TCTGTTTCCTGATGTACCAAAACTTTTAATCAGTCACCAACAAATTGTTCATTCCTAGGCTTCC
AGAATCATATTGTATCGCCGTTGTCATACCGAGCATAGGATAGTAGGTCAGCCATGATTGCAGG
AACAGTGATGAACGAAGTCACTCTGTGTTCTAGGATGGCGTCGAAAGCCGATTTCACGTCAAAT
TTAGGTATCAGGACATGACAGCCTCCAGCCATCAGGATTGCCAAGCATGAAGAGATCCCTCCAA
TATGGCACAAAGGAGCTGTATGCAGGTAGAT
						
					

			
		

Sequences
Splice junction sequence	CAAATTTAGGTATCAGGACATGACAGCCTCCAGCCATCAGGATTGCCAAGCATGAAGAGATCCC TCCAATATGGCACAAAGGAGCTGTATGCAGGTAGATctcctctgggtacacattttcacctcca gttttgattcttcccttttgtcgccccatgagccacagattaccagttttatccacccatccaa tgtcgccg
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: 689 Transcript exons: 1717505-1717878,1718089-1718209,1718302-1718495 CTCCTCTGGGTACACATTTTCACCTCCAGTTTTGATTCTTCCCTTTTGTCGCCCCATGAGCCAC AGATTACCAGTTTTATCCACCCATCCAATGTCGCCGGTGTCGAGCCATCCATTCCTGACAGAAT CTGATGTGTCTATGCTGTTGTTCACCCAGTATCCGGACATCGTATGTAAGCCTCTTGTCAAGAT ATTCCCAATTGGTGAAGAAGAACTACTGTTACTTCCATTTCTGTTGATCTGTATCTCAATATGA GGCGCTGGTTTGCCAACACACACACCTTCAGAAGAGCTGCCTAACTGGTCCTTAGGTTCTTGAA TTTTTGGCCTGGTGAGAACCATGAATGTCAGAGATGAACAGGCCTCAGTCATCCCATAAGCTGA GAAGATAGTGGCATTAGGAAATAAGTGAGAAGCTCCAGTTATCAATTCACTCGACAACCCGCCA CCGCCATTGAGAATCTTTGTCACGGTCATCCCGTGGTTCAATATCTTCGAGCATAGGATAGTAG GTCAGCCATGATTGCAGGAACAGTGATGAACGAAGTCACTCTGTGTTCTAGGATGGCGTCGAAA GCCGATTTCACGTCAAATTTAGGTATCAGGACATGACAGCCTCCAGCCATCAGGATTGCCAAGC ATGAAGAGATCCCTCCAATATGGCACAAAGGAGCTGTATGCAGGTAGAT
Genomic sequence	CTCCTCTGGGTACACATTTTCACCTCCAGTTTTGATTCTTCCCTTTTGTCGCCCCATGAGCCAC AGATTACCAGTTTTATCCACCCATCCAATGTCGCCGGTGTCGAGCCATCCATTCCTGACAGAAT CTGATGTGTCTATGCTGTTGTTCACCCAGTATCCGGACATCGTATGTAAGCCTCTTGTCAAGAT ATTCCCAATTGGTGAAGAAGAACTACTGTTACTTCCATTTCTGTTGATCTGTATCTCAATATGA GGCGCTGGTTTGCCAACACACACACCTTCAGAAGAGCTGCCTAACTGGTCCTTAGGTTCTTGAA TTTTTGGCCTGGTGAGAACCATGAATGTCAGAGATGAACAGGCCTCAGTCATCCCTGATGAAAA TTTTAAGCCAGTTAGTGAACTTTGCAGTAGGTAGCCAATAACATGATTCAGAGCTCATAGTAAC AGTAACAGTGATGTCTCAGTTCAGTTTTTTGAGATATGTTACAACTTGCAAGAATCAAAATGAC TCCTAATGGTACCTAACTTTAGGGAATTTTTGCAGGAAAAATGAACTTGAAATCAGTGGTAAGT AGTTATACCATAAGCTGAGAAGATAGTGGCATTAGGAAATAAGTGAGAAGCTCCAGTTATCAAT TCACTCGACAACCCGCCACCGCCATTGAGAATCTTTGTCACGGTCATCCCGTGGTTCAATATCT TCTGTTTCCTGATGTACCAAAACTTTTAATCAGTCACCAACAAATTGTTCATTCCTAGGCTTCC AGAATCATATTGTATCGCCGTTGTCATACCGAGCATAGGATAGTAGGTCAGCCATGATTGCAGG AACAGTGATGAACGAAGTCACTCTGTGTTCTAGGATGGCGTCGAAAGCCGATTTCACGTCAAAT TTAGGTATCAGGACATGACAGCCTCCAGCCATCAGGATTGCCAAGCATGAAGAGATCCCTCCAA TATGGCACAAAGGAGCTGTATGCAGGTAGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.244712681

Conservation Information
Conserved circRNAs	NA
PMCS	0.244712681

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1718448-1717536(+)
1718467-1717633(+)
1717622-1718434(-)
1718193-1718202(-)
						
						Potential amino acid sequence
						
							MKRSLQYGTKELYAGRSPLGTHFHLQF*(+)
MAQRSCMQVDLLWVHIFTSSFDSSLLSPHEPQITSFIHPSNVAGVEPSIPDRI*(+)
MDGSTPATLDGWIKLVICGSWGDKREESKLEVKMCTQRRSTCIQLLCAILEGSLHAWQS*(-)
MTVTKILNGGGGLSSELITGASHLFPNATIFSAYGMTEACSSLTFMVLTRPKIQEPKDQLGSSS
EGVCVGKPAPHIEIQINRNGSNSSSSSPIGNILTRGLHTMSGYWVNNSIDTSDSVRNGWLDTGD
IGWVDKTGNLWLMGRQKGRIKTGGENVYPEEIYLHTAPLCHIGGISSCLAILMAGGCHVLIPKF
DVKSAFDAILEHRVTSFITVPAIMADLLSYARRY*(-)
						
						Sponge-miRNAs
						
							osa-miR2095-3p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1718448-1717536(+) 1718467-1717633(+) 1717622-1718434(-) 1718193-1718202(-)
Potential amino acid sequence	MKRSLQYGTKELYAGRSPLGTHFHLQF(+) MAQRSCMQVDLLWVHIFTSSFDSSLLSPHEPQITSFIHPSNVAGVEPSIPDRI(+) MDGSTPATLDGWIKLVICGSWGDKREESKLEVKMCTQRRSTCIQLLCAILEGSLHAWQS(-) MTVTKILNGGGGLSSELITGASHLFPNATIFSAYGMTEACSSLTFMVLTRPKIQEPKDQLGSSS EGVCVGKPAPHIEIQINRNGSNSSSSSPIGNILTRGLHTMSGYWVNNSIDTSDSVRNGWLDTGD IGWVDKTGNLWLMGRQKGRIKTGGENVYPEEIYLHTAPLCHIGGISSCLAILMAGGCHVLIPKF DVKSAFDAILEHRVTSFITVPAIMADLLSYARRY(-)
Sponge-miRNAs	osa-miR2095-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0130400_circ_g.2

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