Plant Circular RNA Database

Detail information of Os02g0529700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0529700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_014896
					
						Alias
						Os_ciR2870
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 19455780-19457056  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0529700						
					
						Parent gene annotation
						
							Similar to Acidic ribosomal protein P2a-4 (Fragment). (Os02t0529
700-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4/2
					
						Tissues
						root/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
						Os02t0529700-01:2

General Information
CircRNA Name	Os02g0529700_circ_g.1
ID in PlantcircBase	osa_circ_014896
Alias	Os_ciR2870
Organism	Oryza sativa
Position	chr2: 19455780-19457056 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0529700
Parent gene annotation	Similar to Acidic ribosomal protein P2a-4 (Fragment). (Os02t0529 700-01)
Parent gene strand	-
Alternative splicing	NA
Support reads	4/2
Tissues	root/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	Os02t0529700-01:2

			
						 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  
						
							AGTAAAACTACCTGACTCCAGAATAGTTGTAAGATCCTCCGCAGATGGGTTAGGGTTACCAGCA
AGAGTGGCAAGGAGATAGGCAGAAATGAACTTCATTatcatcagattcttctttctcctccacc
ttctcttctttcttagcctcagattgaggagcagctccaccaccagcagccggagcagctgctg
caacagct

									
								

					

						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: 316
Transcript exons: 19455780-19456006,19456968-19457056
ATCATCAGATTCTTCTTTCTCCTCCACCTTCTCTTCTTTCTTAGCCTCAGATTGAGGAGCAGCT
CCACCACCAGCAGCCGGAGCAGCTGCTGCAACAGCTACGCCACCTCCGCCACATGGAACAGAAG
CAAACTTCTCCCGACCGGAAGCAATAATCTCAGTGATATCCTTACCAGCCAGTTGAGACAAGAG
TAACTCCATCTTGCCATGGTCAACTTCAGCTCCAACTGACTCCAGAATAGTTGTAAGATCCTCC
GCAGATGGGTTAGGGTTACCAGCAAGAGTGGCAAGGAGATAGGCAGAAATGAACTTCATT
						
					

						Genomic sequence
						
							ATCATCAGATTCTTCTTTCTCCTCCACCTTCTCTTCTTTCTTAGCCTCAGATTGAGGAGCAGCT
CCACCACCAGCAGCCGGAGCAGCTGCTGCAACAGCTACGCCACCTCCGCCACATGGAACAGAAG
CAAACTTCTCCCGACCGGAAGCAATAATCTCAGTGATATCCTTACCAGCCAGTTGAGACAAGAG
TAACTCCATCTTGCCATGGTCAACTTCAGCTCCAACTGTTAACATCAGAAAAGAAGAAATAATC
ATGATTGTACATGCAGGCATGCAGCTACCTAACTTTATCTTTTATGCACATAAACTGGCATGCC
TAACATGACAAACACATAGTATAACCTATAGAATGTGAAATGCATATTAGACCACTGAAATTCT
CCAAGAAAAGGCCCTAACATACACACATTGGATAATTAGTATCAGCAAATTTTCTAGCATTCCA
AAAAAAAAGCTATTGTTACATGATCATGTCAGAAGAGCAAATAAATTTCAGACAATGCATCCTT
CATAGGACGCTACTGAAAGATATAAATTGTTGAAAGAAACGTCCAAATGGCAAAACTACATGAA
AATGTAAGGCCATAACAAAAGATACAAAATCCCCATGTAGAATGGTTAGAACTTAGAATTCATA
CTTATGATTGTATCATATCATAGGAAACAAAATAAAATTCGAACAATGCCACAAAACACATGAA
CACTTAGATAATACTCATATCAAGGCAGAACCCACTTATTTTTCAGACATCTCAGAGCAGCCAG
TTCTATTTCACTAATATCATTGATTGCATGCCCTTACTGCTGCAAGGACAGGACAGCATGTGGT
TCTTACATAGAATTTTCTACTGCATTACAGTTTTATACCTGCTGCAATATTTTTTTACCCTTTC
TGAAATACGTAGTTTCTTTAGTTCGAAAAAGGGTGTTACAAACCTCAAAATGTTCAACATTAAC
ACTAAACATTATCTGGAAAACGAAGACAACAACCTTTCATAAGCAAGCAAATCTTAGCCTCTTA
ACATATGACAAGGAGTAATGAATCCCTTGACATCACGGAAGCACCATCTAAAACCCCAAACCAC
TTTTGCAAGCAGGCTAAATATTCATGGGGGCATTACCATCATTTGAAAATAACGATCATGACAA
CATGTGACAATTGAGGGGATTATCCAGTAAAACTACCTGACTCCAGAATAGTTGTAAGATCCTC
CGCAGATGGGTTAGGGTTACCAGCAAGAGTGGCAAGGAGATAGGCAGAAATGAACTTCATT
						
					

			
		

Sequences
Splice junction sequence	AGTAAAACTACCTGACTCCAGAATAGTTGTAAGATCCTCCGCAGATGGGTTAGGGTTACCAGCA AGAGTGGCAAGGAGATAGGCAGAAATGAACTTCATTatcatcagattcttctttctcctccacc ttctcttctttcttagcctcagattgaggagcagctccaccaccagcagccggagcagctgctg caacagct
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: 316 Transcript exons: 19455780-19456006,19456968-19457056 ATCATCAGATTCTTCTTTCTCCTCCACCTTCTCTTCTTTCTTAGCCTCAGATTGAGGAGCAGCT CCACCACCAGCAGCCGGAGCAGCTGCTGCAACAGCTACGCCACCTCCGCCACATGGAACAGAAG CAAACTTCTCCCGACCGGAAGCAATAATCTCAGTGATATCCTTACCAGCCAGTTGAGACAAGAG TAACTCCATCTTGCCATGGTCAACTTCAGCTCCAACTGACTCCAGAATAGTTGTAAGATCCTCC GCAGATGGGTTAGGGTTACCAGCAAGAGTGGCAAGGAGATAGGCAGAAATGAACTTCATT
Genomic sequence	ATCATCAGATTCTTCTTTCTCCTCCACCTTCTCTTCTTTCTTAGCCTCAGATTGAGGAGCAGCT CCACCACCAGCAGCCGGAGCAGCTGCTGCAACAGCTACGCCACCTCCGCCACATGGAACAGAAG CAAACTTCTCCCGACCGGAAGCAATAATCTCAGTGATATCCTTACCAGCCAGTTGAGACAAGAG TAACTCCATCTTGCCATGGTCAACTTCAGCTCCAACTGTTAACATCAGAAAAGAAGAAATAATC ATGATTGTACATGCAGGCATGCAGCTACCTAACTTTATCTTTTATGCACATAAACTGGCATGCC TAACATGACAAACACATAGTATAACCTATAGAATGTGAAATGCATATTAGACCACTGAAATTCT CCAAGAAAAGGCCCTAACATACACACATTGGATAATTAGTATCAGCAAATTTTCTAGCATTCCA AAAAAAAAGCTATTGTTACATGATCATGTCAGAAGAGCAAATAAATTTCAGACAATGCATCCTT CATAGGACGCTACTGAAAGATATAAATTGTTGAAAGAAACGTCCAAATGGCAAAACTACATGAA AATGTAAGGCCATAACAAAAGATACAAAATCCCCATGTAGAATGGTTAGAACTTAGAATTCATA CTTATGATTGTATCATATCATAGGAAACAAAATAAAATTCGAACAATGCCACAAAACACATGAA CACTTAGATAATACTCATATCAAGGCAGAACCCACTTATTTTTCAGACATCTCAGAGCAGCCAG TTCTATTTCACTAATATCATTGATTGCATGCCCTTACTGCTGCAAGGACAGGACAGCATGTGGT TCTTACATAGAATTTTCTACTGCATTACAGTTTTATACCTGCTGCAATATTTTTTTACCCTTTC TGAAATACGTAGTTTCTTTAGTTCGAAAAAGGGTGTTACAAACCTCAAAATGTTCAACATTAAC ACTAAACATTATCTGGAAAACGAAGACAACAACCTTTCATAAGCAAGCAAATCTTAGCCTCTTA ACATATGACAAGGAGTAATGAATCCCTTGACATCACGGAAGCACCATCTAAAACCCCAAACCAC TTTTGCAAGCAGGCTAAATATTCATGGGGGCATTACCATCATTTGAAAATAACGATCATGACAA CATGTGACAATTGAGGGGATTATCCAGTAAAACTACCTGACTCCAGAATAGTTGTAAGATCCTC CGCAGATGGGTTAGGGTTACCAGCAAGAGTGGCAAGGAGATAGGCAGAAATGAACTTCATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_011824 						
					
						PMCS
						0.214037693

Conservation Information
Conserved circRNAs	osi_circ_011824
PMCS	0.214037693

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19457046-19455971(+)
19457057-19457014(-)
19455786-19457014(-)
						
						Potential amino acid sequence
						
							MNFIIIRFFFLLHLLFFLSLRLRSSSTTSSRSSCCNSYATSATWNRSKLLPTGSNNLSDILTSQ
LRQE*(+)
MKFISAYLLATLAGNPNPSAEDLTTILESVGAEVDHGKMELLLSQLAGKDITEIIASGREKFAS
VPCGGGGVAVAAAAPAAGGGAAPQSEAKKEEKVEEKEESDDNEVHFCLSPCHSCW*(-)
MIMKFISAYLLATLAGNPNPSAEDLTTILESVGAEVDHGKMELLLSQLAGKDITEIIASGREKF
ASVPCGGGGVAVAAAAPAAGGGAAPQSEAKKEEKVEEKEESDDNEVHFCLSPCHSCW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19457046-19455971(+) 19457057-19457014(-) 19455786-19457014(-)
Potential amino acid sequence	MNFIIIRFFFLLHLLFFLSLRLRSSSTTSSRSSCCNSYATSATWNRSKLLPTGSNNLSDILTSQ LRQE(+) MKFISAYLLATLAGNPNPSAEDLTTILESVGAEVDHGKMELLLSQLAGKDITEIIASGREKFAS VPCGGGGVAVAAAAPAAGGGAAPQSEAKKEEKVEEKEESDDNEVHFCLSPCHSCW(-) MIMKFISAYLLATLAGNPNPSAEDLTTILESVGAEVDHGKMELLLSQLAGKDITEIIASGREKF ASVPCGGGGVAVAAAAPAAGGGAAPQSEAKKEEKVEEKEESDDNEVHFCLSPCHSCW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os02g0529700_circ_g.1

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