Plant Circular RNA Database

Detail information of Os02g0297600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0297600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_014353
					
						Alias
						Os_ciR4638
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 11400373-11400992  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0297600						
					
						Parent gene annotation
						
							Protein of unknown function DUF707 family protein. (Os02t0297600
-01);Protein of unknown function DUF707 family protein. (Os02t02
97600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0297600_circ_g.2 Os02g0297600_circ_g.3 Os02g0297600_circ_g.4 Os02g0297600_circ_g.5 						
					
						Support reads
						4/3
					
						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  
						
							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
						Os02t0297600-01:3
Os02t0297600-02:3

General Information
CircRNA Name	Os02g0297600_circ_g.1
ID in PlantcircBase	osa_circ_014353
Alias	Os_ciR4638
Organism	Oryza sativa
Position	chr2: 11400373-11400992 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0297600
Parent gene annotation	Protein of unknown function DUF707 family protein. (Os02t0297600 -01);Protein of unknown function DUF707 family protein. (Os02t02 97600-02)
Parent gene strand	+
Alternative splicing	Os02g0297600_circ_g.2 Os02g0297600_circ_g.3 Os02g0297600_circ_g.4 Os02g0297600_circ_g.5
Support reads	4/3
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	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	Os02t0297600-01:3 Os02t0297600-02:3

			
						 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  
						
							CTCTGGCATCACAACCCAGACATTGTTAAATCATGCGTGGGCATCTGCAAATCGTCATAACAAA
AACAATTCCGATTCAACCTCTGAAGAAGTTCCTAAGctgcagctctacaggtttcttcggcagc
aactgtagtagaaaagaaagaggggaagattcgcagttcatatggcaaaacctgctaatagcat
tggccgta

						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: 131
Transcript exons: 11400373-11400449,11400939-11400992
CTGCAGCTCTACAGGTTTCTTCGGCAGCAACTGTAGTAGAAAAGAAAGAGGGGAAGATTCGCAG
TTCATATGGCAAAGCAAATCGTCATAACAAAAACAATTCCGATTCAACCTCTGAAGAAGTTCCT
AAG
Transcript length: 351
Transcript exons: 11400373-11400473,11400651-11400756,11400849-11400992
CTGCAGCTCTACAGGTTTCTTCGGCAGCAACTGTAGTAGAAAAGAAAGAGGGGAAGATTCGCAG
TTCATATGGCAAAACCTGCTAATAGCATTGGCCGTAGCACGCCAAGATCAAATGAGGGGATGAG
GCTCATATTCTCGGCAGTTGTTGGTGTTATGTTGGGATACTTGTTTGGGGTTTCCTTCCCTACA
GTAAATATAACCAAGCTTCACTTCCCTTCCAGTATTATCTCCTATATAGAAGATAGGAACTCTG
GCATCACAACCCAGACATTGTTAAATCATGCGTGGGCATCTGCAAATCGTCATAACAAAAACAA
TTCCGATTCAACCTCTGAAGAAGTTCCTAAG
						
						Genomic sequence
						
							CTGCAGCTCTACAGGTTTCTTCGGCAGCAACTGTAGTAGAAAAGAAAGAGGGGAAGATTCGCAG
TTCATATGGCAAAACCTGCTAATAGCATTGGCCGTAGGTAGGTTTGATACTGCAGCTACTGTTT
ATTCTTAACTGTTTCTTTTCCGTTTCTAGCGCTGATTGATAATTTATCTGTTGCCCACTTGTCT
AGTAACACCAACCAAGTGTTCTTTTTCTTTCTACGGTGCTCATGGTTGCACATTGTAATTTAAT
TGTGAACATTCATCATCAACAGCACGCCAAGATCAAATGAGGGGATGAGGCTCATATTCTCGGC
AGTTGTTGGTGTTATGTTGGGATACTTGTTTGGGGTTTCCTTCCCTACAGTAAATATAACCAAG
GTGAAGTAGATCGTTTGCTTCTCTTGTTTTTTCTCATCATGTATTTTGTTTAGGAAAATAATCT
TTACTTTCTACATTACTGCATTTCGCAGCTTCACTTCCCTTCCAGTATTATCTCCTATATAGAA
GATAGGAACTCTGGCATCACAACCCAGACATTGTTAAATCATGCGTGGGCATCTGCAAATCGTC
ATAACAAAAACAATTCCGATTCAACCTCTGAAGAAGTTCCTAAG

Sequences
Splice junction sequence	CTCTGGCATCACAACCCAGACATTGTTAAATCATGCGTGGGCATCTGCAAATCGTCATAACAAA AACAATTCCGATTCAACCTCTGAAGAAGTTCCTAAGctgcagctctacaggtttcttcggcagc aactgtagtagaaaagaaagaggggaagattcgcagttcatatggcaaaacctgctaatagcat tggccgta
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: 131 Transcript exons: 11400373-11400449,11400939-11400992 CTGCAGCTCTACAGGTTTCTTCGGCAGCAACTGTAGTAGAAAAGAAAGAGGGGAAGATTCGCAG TTCATATGGCAAAGCAAATCGTCATAACAAAAACAATTCCGATTCAACCTCTGAAGAAGTTCCT AAG Transcript length: 351 Transcript exons: 11400373-11400473,11400651-11400756,11400849-11400992 CTGCAGCTCTACAGGTTTCTTCGGCAGCAACTGTAGTAGAAAAGAAAGAGGGGAAGATTCGCAG TTCATATGGCAAAACCTGCTAATAGCATTGGCCGTAGCACGCCAAGATCAAATGAGGGGATGAG GCTCATATTCTCGGCAGTTGTTGGTGTTATGTTGGGATACTTGTTTGGGGTTTCCTTCCCTACA GTAAATATAACCAAGCTTCACTTCCCTTCCAGTATTATCTCCTATATAGAAGATAGGAACTCTG GCATCACAACCCAGACATTGTTAAATCATGCGTGGGCATCTGCAAATCGTCATAACAAAAACAA TTCCGATTCAACCTCTGAAGAAGTTCCTAAG
Genomic sequence	CTGCAGCTCTACAGGTTTCTTCGGCAGCAACTGTAGTAGAAAAGAAAGAGGGGAAGATTCGCAG TTCATATGGCAAAACCTGCTAATAGCATTGGCCGTAGGTAGGTTTGATACTGCAGCTACTGTTT ATTCTTAACTGTTTCTTTTCCGTTTCTAGCGCTGATTGATAATTTATCTGTTGCCCACTTGTCT AGTAACACCAACCAAGTGTTCTTTTTCTTTCTACGGTGCTCATGGTTGCACATTGTAATTTAAT TGTGAACATTCATCATCAACAGCACGCCAAGATCAAATGAGGGGATGAGGCTCATATTCTCGGC AGTTGTTGGTGTTATGTTGGGATACTTGTTTGGGGTTTCCTTCCCTACAGTAAATATAACCAAG GTGAAGTAGATCGTTTGCTTCTCTTGTTTTTTCTCATCATGTATTTTGTTTAGGAAAATAATCT TTACTTTCTACATTACTGCATTTCGCAGCTTCACTTCCCTTCCAGTATTATCTCCTATATAGAA GATAGGAACTCTGGCATCACAACCCAGACATTGTTAAATCATGCGTGGGCATCTGCAAATCGTC ATAACAAAAACAATTCCGATTCAACCTCTGAAGAAGTTCCTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.326175995

Conservation Information
Conserved circRNAs	NA
PMCS	0.326175995

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11400443-11400405(+)
11400926-11400673(+)
11400443-11400971(-)
						
						Potential amino acid sequence
						
							MAKPANSIGRSTPRSNEGMRLIFSAVVGVMLGYLFGVSFPTVNITKLHFPSSIISYIEDRNSGI
TTQTLLNHAWASANRHNKNNSDSTSEEVPKLQLYRFLRQQL*(+)
MRGHLQIVITKTIPIQPLKKFLSCSSTGFFGSNCSRKERGEDSQFIWQNLLIALAVARQDQMRG
*(+)
MNCESSPLSFLLQLLPKKPVELQLRNFFRG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11400443-11400405(+) 11400926-11400673(+) 11400443-11400971(-)
Potential amino acid sequence	MAKPANSIGRSTPRSNEGMRLIFSAVVGVMLGYLFGVSFPTVNITKLHFPSSIISYIEDRNSGI TTQTLLNHAWASANRHNKNNSDSTSEEVPKLQLYRFLRQQL(+) MRGHLQIVITKTIPIQPLKKFLSCSSTGFFGSNCSRKERGEDSQFIWQNLLIALAVARQDQMRG (+) MNCESSPLSFLLQLLPKKPVELQLRNFFRG*(-)
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 Os02g0297600_circ_g.1

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