Plant Circular RNA Database

Detail information of Os02g0735200_circ_g.11

			
						 General Information
					
						CircRNA Name
						Os02g0735200_circ_g.11
					
						ID in PlantcircBase
						osa_circ_016425
					
						Alias
						NA, 
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 30676423-30677200  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder, CIRI-long
					
						Parent gene
						
							Os02g0735200						
					
						Parent gene annotation
						
							Glutamine synthetase shoot isozyme (EC 6.3.1.2) (Glutamate--ammo
nia ligase) (Clone lambda-GS28). (Os02t0735200-01);Glutamine syn
thetase shoot isozyme (EC 6.3.1.2) (Glutamate--ammonia ligase) (
Clone lambda-GS28). (Os02t0735200-02);Glutamine synthetase shoot
 isozyme (EC 6.3.1.2) (Glutamate--ammonia ligase) (Clone lambda-
GS28). (Os02t0735200-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0735200_circ_g.1 Os02g0735200_circ_g.2 Os02g0735200_circ_g.3 Os02g0735200_circ_g.4 Os02g0735200_circ_g.5 Os02g0735200_circ_g.6 Os02g0735200_circ_g.7 Os02g0735200_circ_g.8 Os02g0735200_circ_g.9 Os02g0735200_circ_g.10 Os02g0735200_circ_g.12 						
					
						Support reads
						1
					
						Tissues
						anther, 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
						Os02t0735200-02:3
Os02t0735200-03:3
Os02t0735200-01:3

General Information
CircRNA Name	Os02g0735200_circ_g.11
ID in PlantcircBase	osa_circ_016425
Alias	NA,
Organism	Oryza sativa
Position	chr2: 30676423-30677200 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	PcircRNA_finder, CIRI-long
Parent gene	Os02g0735200
Parent gene annotation	Glutamine synthetase shoot isozyme (EC 6.3.1.2) (Glutamate--ammo nia ligase) (Clone lambda-GS28). (Os02t0735200-01);Glutamine syn thetase shoot isozyme (EC 6.3.1.2) (Glutamate--ammonia ligase) ( Clone lambda-GS28). (Os02t0735200-02);Glutamine synthetase shoot isozyme (EC 6.3.1.2) (Glutamate--ammonia ligase) (Clone lambda- GS28). (Os02t0735200-03)
Parent gene strand	-
Alternative splicing	Os02g0735200_circ_g.1 Os02g0735200_circ_g.2 Os02g0735200_circ_g.3 Os02g0735200_circ_g.4 Os02g0735200_circ_g.5 Os02g0735200_circ_g.6 Os02g0735200_circ_g.7 Os02g0735200_circ_g.8 Os02g0735200_circ_g.9 Os02g0735200_circ_g.10 Os02g0735200_circ_g.12
Support reads	1
Tissues	anther, 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	Os02t0735200-02:3 Os02t0735200-03:3 Os02t0735200-01:3

			
						 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  
						
							GCAGAATATAAATCACATCCATGACAAACTGAAAAAGTGGTCACCACTTACAAGGATGTTGTTT
CCCTTCCTGAATGGGTCCTTGAAGATAGCCTGTGGGctgaggaccagggaagccaccaacaggc
cagccaaggggccagttgatgtccttctggaggagggtgtactcttgctcaataccgtacctat
aatttgca

						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: 244
Transcript exons: 30676423-30676510,30676625-30676731,30677152-30677200
CTGAGGACCAGGGAAGCCACCAACAGGCCAGCCAAGGGGCCAGTTGATGTCCTTCTGGAGGAGG
GTGTACTCTTGCTCAATACCGTACCAGGGCTCCTCAGAAGCAACCTCAGGGGAGCTGAAGATCT
TGGCAGCATTGTGCCTCTTGTTGGTGGGGATCGGTTCTCCGGCTGGCGTGTAGCAATCGCACAT
GACAAGGATGTTGTTTCCCTTCCTGAATGGGTCCTTGAAGATAGCCTGTGGG
						
						Genomic sequence
						
							CTGAGGACCAGGGAAGCCACCAACAGGCCAGCCAAGGGGCCAGTTGATGTCCTTCTGGAGGAGG
GTGTACTCTTGCTCAATACCGTACCTATAATTTGCAAGAACAAAGAAGATCAACTAACCATTAT
GAGAAAGGGAATTATGCTGAGATGGCTGTGACACGTTGCGATAATCATTCGGCAAAAAAGATTA
GTGGGCATACCAGGGCTCCTCAGAAGCAACCTCAGGGGAGCTGAAGATCTTGGCAGCATTGTGC
CTCTTGTTGGTGGGGATCGGTTCTCCGGCTGGCGTGTAGCAATCGCACATGACCTGTGAATTAC
GATAATTTAGAAAATAAAGTGCCAATTATTCGAGATGGTGACGAAACAACCCATTGGATTCATT
CCTCAACTAGCCATAAGGTTAGGTAGAACAGATGATCGCAGGAGTCAAAAATACAGTGAAAGCG
CTAATCAAGATCACATCCCATGACATCAGAAACAGGTAAAAAAAGAAAATTTAATGTTCAACAG
TGCAAAAAATAGTTCATCTTTTACACCTGAAGTGATTAAATTAAGTTTTTCCCCCCTTCAGTGG
TGCATCTACTAGTACATCCCATATGTAGTTTGAACCGAATAAATCAGCACACAGTTTTTATAGA
CATGTGCTGATCTGGATGAACAGAGATGGATGTACACTGCAGAATATAAATCACATCCATGACA
AACTGAAAAAGTGGTCACCACTTACAAGGATGTTGTTTCCCTTCCTGAATGGGTCCTTGAAGAT
AGCCTGTGGG

Sequences
Splice junction sequence	GCAGAATATAAATCACATCCATGACAAACTGAAAAAGTGGTCACCACTTACAAGGATGTTGTTT CCCTTCCTGAATGGGTCCTTGAAGATAGCCTGTGGGctgaggaccagggaagccaccaacaggc cagccaaggggccagttgatgtccttctggaggagggtgtactcttgctcaataccgtacctat aatttgca
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: 244 Transcript exons: 30676423-30676510,30676625-30676731,30677152-30677200 CTGAGGACCAGGGAAGCCACCAACAGGCCAGCCAAGGGGCCAGTTGATGTCCTTCTGGAGGAGG GTGTACTCTTGCTCAATACCGTACCAGGGCTCCTCAGAAGCAACCTCAGGGGAGCTGAAGATCT TGGCAGCATTGTGCCTCTTGTTGGTGGGGATCGGTTCTCCGGCTGGCGTGTAGCAATCGCACAT GACAAGGATGTTGTTTCCCTTCCTGAATGGGTCCTTGAAGATAGCCTGTGGG
Genomic sequence	CTGAGGACCAGGGAAGCCACCAACAGGCCAGCCAAGGGGCCAGTTGATGTCCTTCTGGAGGAGG GTGTACTCTTGCTCAATACCGTACCTATAATTTGCAAGAACAAAGAAGATCAACTAACCATTAT GAGAAAGGGAATTATGCTGAGATGGCTGTGACACGTTGCGATAATCATTCGGCAAAAAAGATTA GTGGGCATACCAGGGCTCCTCAGAAGCAACCTCAGGGGAGCTGAAGATCTTGGCAGCATTGTGC CTCTTGTTGGTGGGGATCGGTTCTCCGGCTGGCGTGTAGCAATCGCACATGACCTGTGAATTAC GATAATTTAGAAAATAAAGTGCCAATTATTCGAGATGGTGACGAAACAACCCATTGGATTCATT CCTCAACTAGCCATAAGGTTAGGTAGAACAGATGATCGCAGGAGTCAAAAATACAGTGAAAGCG CTAATCAAGATCACATCCCATGACATCAGAAACAGGTAAAAAAAGAAAATTTAATGTTCAACAG TGCAAAAAATAGTTCATCTTTTACACCTGAAGTGATTAAATTAAGTTTTTCCCCCCTTCAGTGG TGCATCTACTAGTACATCCCATATGTAGTTTGAACCGAATAAATCAGCACACAGTTTTTATAGA CATGTGCTGATCTGGATGAACAGAGATGGATGTACACTGCAGAATATAAATCACATCCATGACA AACTGAAAAAGTGGTCACCACTTACAAGGATGTTGTTTCCCTTCCTGAATGGGTCCTTGAAGAT AGCCTGTGGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.186547558

Conservation Information
Conserved circRNAs	NA
PMCS	0.186547558

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							30676728-30676466(+)
30676730-30676648(-)
30676675-30676648(-)
						
						Potential amino acid sequence
						
							MTRMLFPFLNGSLKIACGLRTREATNRPAKGPVDVLLEEGVLLLNTVPGLLRSNLRGAEDLGSI
VPLVGGDRFSGWRVAIAHDKDVVSLPEWVLEDSLWAEDQGSHQQASQGAS*(+)
MCDCYTPAGEPIPTNKRHNAAKIFSSPEVASEEPWYGIEQEYTLLQKDINWPLGWPVGGFPGPQ
PTGYLQGPIQEGKQHPCHVRLLHASRRTDPHQQEAQCCQDLQLP*(-)
MLPRSSAPLRLLLRSPGTVLSKSTPSSRRTSTGPLAGLLVASLVLSPQAIFKDPFRKGNNILVM
CDCYTPAGEPIPTNKRHNAAKIFSSPEVASEEPWYGIEQEYTLLQKDINWPLGWPVGGFPGPQP
TGYLQGPIQEGKQHPCHVRLLHASRRTDPHQQEAQCCQDLQLP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	30676728-30676466(+) 30676730-30676648(-) 30676675-30676648(-)
Potential amino acid sequence	MTRMLFPFLNGSLKIACGLRTREATNRPAKGPVDVLLEEGVLLLNTVPGLLRSNLRGAEDLGSI VPLVGGDRFSGWRVAIAHDKDVVSLPEWVLEDSLWAEDQGSHQQASQGAS(+) MCDCYTPAGEPIPTNKRHNAAKIFSSPEVASEEPWYGIEQEYTLLQKDINWPLGWPVGGFPGPQ PTGYLQGPIQEGKQHPCHVRLLHASRRTDPHQQEAQCCQDLQLP(-) MLPRSSAPLRLLLRSPGTVLSKSTPSSRRTSTGPLAGLLVASLVLSPQAIFKDPFRKGNNILVM CDCYTPAGEPIPTNKRHNAAKIFSSPEVASEEPWYGIEQEYTLLQKDINWPLGWPVGGFPGPQP TGYLQGPIQEGKQHPCHVRLLHASRRTDPHQQEAQCCQDLQLP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017; this study

circRNA

Detail information of Os02g0735200_circ_g.11

Address

Any questions?

Supported by