Plant Circular RNA Database

Detail information of Os04g0298600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0298600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_023341
					
						Alias
						Os_ciR9263
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 13203419-13205744  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os04g0298600						
					
						Parent gene annotation
						
							Uncharacterised protein family FPL domain containing protein. (O
s04t0298600-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0298600_circ_g.2 Os04g0298600_circ_g.3 						
					
						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  
						
							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
						Os04t0298600-00:9

General Information
CircRNA Name	Os04g0298600_circ_g.1
ID in PlantcircBase	osa_circ_023341
Alias	Os_ciR9263
Organism	Oryza sativa
Position	chr4: 13203419-13205744 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os04g0298600
Parent gene annotation	Uncharacterised protein family FPL domain containing protein. (O s04t0298600-00)
Parent gene strand	+
Alternative splicing	Os04g0298600_circ_g.2 Os04g0298600_circ_g.3
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	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	Os04t0298600-00:9

			
						 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  
						
							AGTCAAATGAAGACAAATCGGATATCTTGTCTTCATCAAACACGCATTGCTTGCCTGATGATCC
ATCATCAAGTGATTGTTGCCAAGGCAATACGCTTAGgtatctaacagatcagctacagaaggtt
catattgtttatgaagctaataaggtatagttgatgttcctggttatcgccagaatttttgtga
caatttta

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							GTATCTAACAGATCAGCTACAGAAGGTTCATATTGTTTATGAAGCTAATAAGGTATAGTTGATG
TTCCTGGTTATCGCCAGAATTTTTGTGACAATTTTAAGTTGATTGGCCTGACGATCTTTCTTTT
GAAGGATTTTGTTGTTGAAGCATTGAGATCAATTGCAGAATTGATGATCTATGGAGATCAGCAT
GATCCGTCATACTTCGAGTAAGTATTTAATGGGATGGTATCTTGGAGGTATTATCAGTTGATCT
ATTTGTTTAATTGGTATCTCTTTCAGATTTTTCATGGAGAAACAGATTATGGGTGAATTTGCTC
GTATTTTGAGAATTTCTAAGCTCTCAAGAGTGTCTCTACAGTTACTACAGACAATGAGCATCAT
GATCCAGAATTTGCGGAATGAACATTCAATTTGTAAGTCACTACAGACAATGAATATTCACTCA
ATAATGCGGTATCTATCCTGTGTCTACACTATTTTGTTTTTGAAGGTTCTAATCTGTAAGCAAT
TATATTTTCTGCAGACTATATTTTCAGCAATGAGCACATCAACTTCTTGATAACGTATCCATTT
GATTTTCAAATCGATGAGATGCTATCATATTACATTTCCTTTCTACGGTTTGTAAACCAGTCCG
AACGTCACTGACATCATTCATTTTTTTTATATATATTGGCTTACTTGATTTTTGTTTCATGAAG
GGCAATAAGTGGGAAGTTGAACAAGAATACAATTTCTTTGCTCGTGAAGACAAAAAATGTACTC
ATCCAATCCCTTTTTATGCACTTTCGGTATTGTTTTCCTTGCTTCTTTTGTTTGGATAAATAAA
CTAGGATTCTATTCTGTATTTACTGATTTGTGTGTGTATACAATAGGAGTAGCTCACGACAAAT
TCCTAGCTGCCAATTACAAACAGACCTTCAGATTGAATCCGACAATATAATTCGCCATTATTGT
TATGTCATTCTTGACACCCCATCGAGGCCAGCAATATTATACGCATGCATTTCCTTCCAGTGCC
ATAGTTTCTCTTAGCTCCACTTAGTTCTGAAGACAGATCTATTGGATCTATTTTTCTGGTCTAT
TTACATTATTTGCTACATTATTTTTTTTGGATCAGTTGAGCTGTACATGTTATATGAAACACAG
TCTTGTAACAGATTTTCTCTATACTATATGCAGGATGAGGTCATTTCCTTTCCGCTGTATGTTG
AGGCCTTAAAGTTTGCTTTTCATGAGGACAGCATGATTAGAGTTGCTATACGTACTTTGACGCT
TAATGTGTACCATGGTAGGTTGGATAGCCTTGATGGCCATTGTATGTCTGTTATGCAAGTTCTT
AATTTGCATTTGTGCTGTTTCTTACCAGATCGTTCTTTTCTTTCAGTTGGAGATGAATCTGTTA
ACAGATTTGTCTCACGTGCACCACTGTCAGACTATTTTTCAGACATGGTCAATCATTTTCAGAA
ACAATGTATTGACTTGGATAAGTTGGTTGTTCGTTCTGTTCGGTAAGTGTGCCACTCATTTCGC
CATTCATGGATAAATCCAGAACATGTCACTAAGGTCCATCTGCATCCAGAATATGCCACTCATT
TGATGATAACACGTTGGCCTGTGTCCTCGTGCTGTTAAGACATCGATGTCATAAAAACGGCTTC
CTTCTGCATTGACAGTTATAGTAAATGTGCAAAAATAATTTATTTTCTTCCGTCTGTGTTCTAT
TCTACAGAAATGCAGATTCTGCTGTGCCAACAGCCTCTGTTGAGGATGCAATTGTGCAAATTGA
AGATACACTCTATTATTTCAGTGACGTTATGTCTTCTGGGATTCCTGATCTTGGAAGATTCATC
ACTGAAAATATCTTGCAACTTTTGGTGTTTCGGTTCTTACTCCCATCGTTGCAAAGGCAGAGCA
CTGTAAGTTTAGCGAGAAATATTTTTTGCATCCTATTTTTGATACCTAAGCTTCCTATTTGTTA
AAATTTATTATGTTCATGTTCTTTTGTCTAGGATTTGGGTATAAGTGTCACTACTTCCATGTAC
TTGATTTGCTGTATACTTCACATTTTTAAGAACAAGGATATGGCAAGCACTGTTGCTGCTGCCC
TTTTCCATCAACCTGATTGCCATGATAGGAAGCAAGGAACTCCAAACGGTTATACCTCTGAGCA
TGAGAATGGCATATCTGACAATCAGGGCACTAGCACCTCAGATATAGACCAGTCAAATGAAGAC
AAATCGGATATCTTGTCTTCATCAAACACGCATTGCTTGCCTGATGATCCATCATCAAGTGATT
GTTGCCAAGGCAATACGCTTAG
						
					

			
		

Sequences
Splice junction sequence	AGTCAAATGAAGACAAATCGGATATCTTGTCTTCATCAAACACGCATTGCTTGCCTGATGATCC ATCATCAAGTGATTGTTGCCAAGGCAATACGCTTAGgtatctaacagatcagctacagaaggtt catattgtttatgaagctaataaggtatagttgatgttcctggttatcgccagaatttttgtga caatttta
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GTATCTAACAGATCAGCTACAGAAGGTTCATATTGTTTATGAAGCTAATAAGGTATAGTTGATG TTCCTGGTTATCGCCAGAATTTTTGTGACAATTTTAAGTTGATTGGCCTGACGATCTTTCTTTT GAAGGATTTTGTTGTTGAAGCATTGAGATCAATTGCAGAATTGATGATCTATGGAGATCAGCAT GATCCGTCATACTTCGAGTAAGTATTTAATGGGATGGTATCTTGGAGGTATTATCAGTTGATCT ATTTGTTTAATTGGTATCTCTTTCAGATTTTTCATGGAGAAACAGATTATGGGTGAATTTGCTC GTATTTTGAGAATTTCTAAGCTCTCAAGAGTGTCTCTACAGTTACTACAGACAATGAGCATCAT GATCCAGAATTTGCGGAATGAACATTCAATTTGTAAGTCACTACAGACAATGAATATTCACTCA ATAATGCGGTATCTATCCTGTGTCTACACTATTTTGTTTTTGAAGGTTCTAATCTGTAAGCAAT TATATTTTCTGCAGACTATATTTTCAGCAATGAGCACATCAACTTCTTGATAACGTATCCATTT GATTTTCAAATCGATGAGATGCTATCATATTACATTTCCTTTCTACGGTTTGTAAACCAGTCCG AACGTCACTGACATCATTCATTTTTTTTATATATATTGGCTTACTTGATTTTTGTTTCATGAAG GGCAATAAGTGGGAAGTTGAACAAGAATACAATTTCTTTGCTCGTGAAGACAAAAAATGTACTC ATCCAATCCCTTTTTATGCACTTTCGGTATTGTTTTCCTTGCTTCTTTTGTTTGGATAAATAAA CTAGGATTCTATTCTGTATTTACTGATTTGTGTGTGTATACAATAGGAGTAGCTCACGACAAAT TCCTAGCTGCCAATTACAAACAGACCTTCAGATTGAATCCGACAATATAATTCGCCATTATTGT TATGTCATTCTTGACACCCCATCGAGGCCAGCAATATTATACGCATGCATTTCCTTCCAGTGCC ATAGTTTCTCTTAGCTCCACTTAGTTCTGAAGACAGATCTATTGGATCTATTTTTCTGGTCTAT TTACATTATTTGCTACATTATTTTTTTTGGATCAGTTGAGCTGTACATGTTATATGAAACACAG TCTTGTAACAGATTTTCTCTATACTATATGCAGGATGAGGTCATTTCCTTTCCGCTGTATGTTG AGGCCTTAAAGTTTGCTTTTCATGAGGACAGCATGATTAGAGTTGCTATACGTACTTTGACGCT TAATGTGTACCATGGTAGGTTGGATAGCCTTGATGGCCATTGTATGTCTGTTATGCAAGTTCTT AATTTGCATTTGTGCTGTTTCTTACCAGATCGTTCTTTTCTTTCAGTTGGAGATGAATCTGTTA ACAGATTTGTCTCACGTGCACCACTGTCAGACTATTTTTCAGACATGGTCAATCATTTTCAGAA ACAATGTATTGACTTGGATAAGTTGGTTGTTCGTTCTGTTCGGTAAGTGTGCCACTCATTTCGC CATTCATGGATAAATCCAGAACATGTCACTAAGGTCCATCTGCATCCAGAATATGCCACTCATT TGATGATAACACGTTGGCCTGTGTCCTCGTGCTGTTAAGACATCGATGTCATAAAAACGGCTTC CTTCTGCATTGACAGTTATAGTAAATGTGCAAAAATAATTTATTTTCTTCCGTCTGTGTTCTAT TCTACAGAAATGCAGATTCTGCTGTGCCAACAGCCTCTGTTGAGGATGCAATTGTGCAAATTGA AGATACACTCTATTATTTCAGTGACGTTATGTCTTCTGGGATTCCTGATCTTGGAAGATTCATC ACTGAAAATATCTTGCAACTTTTGGTGTTTCGGTTCTTACTCCCATCGTTGCAAAGGCAGAGCA CTGTAAGTTTAGCGAGAAATATTTTTTGCATCCTATTTTTGATACCTAAGCTTCCTATTTGTTA AAATTTATTATGTTCATGTTCTTTTGTCTAGGATTTGGGTATAAGTGTCACTACTTCCATGTAC TTGATTTGCTGTATACTTCACATTTTTAAGAACAAGGATATGGCAAGCACTGTTGCTGCTGCCC TTTTCCATCAACCTGATTGCCATGATAGGAAGCAAGGAACTCCAAACGGTTATACCTCTGAGCA TGAGAATGGCATATCTGACAATCAGGGCACTAGCACCTCAGATATAGACCAGTCAAATGAAGAC AAATCGGATATCTTGTCTTCATCAAACACGCATTGCTTGCCTGATGATCCATCATCAAGTGATT GTTGCCAAGGCAATACGCTTAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.130557581

Conservation Information
Conserved circRNAs	NA
PMCS	0.130557581

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							13203591-13205741(+)
13205652-13203423(+)
						
					

						Potential amino acid sequence
						
							MIYGDQHDPSYFEFFMEKQIMGEFARILRISKLSRVSLQLLQTMSIMIQNLRNEHSIYYIFSNE
HINFLITYPFDFQIDEMLSYYISFLRAISGKLNKNTISLLVKTKNDEVISFPLYVEALKFAFHE
DSMIRVAIRTLTLNVYHVGDESVNRFVSRAPLSDYFSDMVNHFQKQCIDLDKLVVRSVRNADSA
VPTASVEDAIVQIEDTLYYFSDVMSSGIPDLGRFITENILQLLVFRFLLPSLQRQSTDLGISVT
TSMYLICCILHIFKNKDMASTVAAALFHQPDCHDRKQGTPNGYTSEHENGISDNQGTSTSDIDQ
SNEDKSDILSSSNTHCLPDDPSSSDCCQGNTLRYLTDQLQKVHIVYEANKDFVVEALRSIAELM
IYGDQHDPSYFEFFMEKQIMGEFARILRISKLSRVSLQLLQTMSIMIQNLRNEHSIYYIFSNEH
INFLITYPFDFQIDEMLSYYISFLRAISGKLNKNTISLLVKTKNDEVISFPLYVEALKFAFHED
SMIRVAIRTLTLNVYHVGDESVNRFVSRAPLSDYFSDMVNHFQKQCIDLDKLVVRSVRNADSAV
PTASVEDAIVQIEDTLYYFSDVMSSGIPDLGRFITENILQLLVFRFLLPSLQRQSTDLGISVTT
SMYLICCILHIFKNKDMASTVAAALFHQPDCHDRKQGTPNGYTSEHENGISDNQGTSTSDIDQS
NEDKSDILSSSNTHCLPDDPSSSDCCQGNTLRYLTDQLQKVHIVYEANKDFVVEALRSIAELMI
YGDQHDPSYFEFFMEKQIMGEFARILRISKLSRVSLQLLQTMSIMIQNLRNEHSIYYIFSNEHI
NFLITYPFDFQIDEMLSYYISFLRAISGKLNKNTISLLVKTKNDEVISFPLYVEALKFAFHEDS
MIRVAIRTLTLNVYHVGDESVNRFVSRAPLSDYFSDMVNHFQKQCIDLDKLVVRSVRNADSAVP
TASVEDAIVQIEDTLYYFSDVMSSGIPDLGRFITENILQLLVFRFLLPSLQRQSTDLGISVTTS
MYLICCILHIFKNKDMASTVAAALFHQPDCHDRKQGTPNGYTSEHENGISDNQGTSTSDIDQSN
EDKSDILSSSNTHCLPDDPSSSDCCQGNTLRYLTDQLQKVHIVYEANKDFVVEALRSIAELMIY
GDQHDPSYFEFFMEKQIMGEFARILRISKLSRVSLQLLQTMSIMIQNLRNEHSIYYIFSNEHIN
FLITYPFDFQIDEMLSYYISFLRAISGKLNKNTISLLVKTKNDEVISFPLYVEALKFAFHEDSM
IRVAIRTLTLNVYHVGDESVNRFVSRAPLSDYFSDMVNHFQKQCIDLDKLVVRSVRNADSAVPT
ASVEDAIVQIEDTLYYFSDVMSSGIPDLGRFITENILQLLVFRFLLPSLQRQSTDLGISVTTSM
YLICCILHIFKNKDMASTVAAALFHQPDCHDRKQGTPNGYTSEHENGISDNQGTSTSDIDQSNE
DKSDILSSSNTHCLPDDPSSSDCCQGNTL(+)
MKTNRISCLHQTRIACLMIHHQVIVAKAIRLGI*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	13203591-13205741(+) 13205652-13203423(+)
Potential amino acid sequence	MIYGDQHDPSYFEFFMEKQIMGEFARILRISKLSRVSLQLLQTMSIMIQNLRNEHSIYYIFSNE HINFLITYPFDFQIDEMLSYYISFLRAISGKLNKNTISLLVKTKNDEVISFPLYVEALKFAFHE DSMIRVAIRTLTLNVYHVGDESVNRFVSRAPLSDYFSDMVNHFQKQCIDLDKLVVRSVRNADSA VPTASVEDAIVQIEDTLYYFSDVMSSGIPDLGRFITENILQLLVFRFLLPSLQRQSTDLGISVT TSMYLICCILHIFKNKDMASTVAAALFHQPDCHDRKQGTPNGYTSEHENGISDNQGTSTSDIDQ SNEDKSDILSSSNTHCLPDDPSSSDCCQGNTLRYLTDQLQKVHIVYEANKDFVVEALRSIAELM IYGDQHDPSYFEFFMEKQIMGEFARILRISKLSRVSLQLLQTMSIMIQNLRNEHSIYYIFSNEH INFLITYPFDFQIDEMLSYYISFLRAISGKLNKNTISLLVKTKNDEVISFPLYVEALKFAFHED SMIRVAIRTLTLNVYHVGDESVNRFVSRAPLSDYFSDMVNHFQKQCIDLDKLVVRSVRNADSAV PTASVEDAIVQIEDTLYYFSDVMSSGIPDLGRFITENILQLLVFRFLLPSLQRQSTDLGISVTT SMYLICCILHIFKNKDMASTVAAALFHQPDCHDRKQGTPNGYTSEHENGISDNQGTSTSDIDQS NEDKSDILSSSNTHCLPDDPSSSDCCQGNTLRYLTDQLQKVHIVYEANKDFVVEALRSIAELMI YGDQHDPSYFEFFMEKQIMGEFARILRISKLSRVSLQLLQTMSIMIQNLRNEHSIYYIFSNEHI NFLITYPFDFQIDEMLSYYISFLRAISGKLNKNTISLLVKTKNDEVISFPLYVEALKFAFHEDS MIRVAIRTLTLNVYHVGDESVNRFVSRAPLSDYFSDMVNHFQKQCIDLDKLVVRSVRNADSAVP TASVEDAIVQIEDTLYYFSDVMSSGIPDLGRFITENILQLLVFRFLLPSLQRQSTDLGISVTTS MYLICCILHIFKNKDMASTVAAALFHQPDCHDRKQGTPNGYTSEHENGISDNQGTSTSDIDQSN EDKSDILSSSNTHCLPDDPSSSDCCQGNTLRYLTDQLQKVHIVYEANKDFVVEALRSIAELMIY GDQHDPSYFEFFMEKQIMGEFARILRISKLSRVSLQLLQTMSIMIQNLRNEHSIYYIFSNEHIN FLITYPFDFQIDEMLSYYISFLRAISGKLNKNTISLLVKTKNDEVISFPLYVEALKFAFHEDSM IRVAIRTLTLNVYHVGDESVNRFVSRAPLSDYFSDMVNHFQKQCIDLDKLVVRSVRNADSAVPT ASVEDAIVQIEDTLYYFSDVMSSGIPDLGRFITENILQLLVFRFLLPSLQRQSTDLGISVTTSM YLICCILHIFKNKDMASTVAAALFHQPDCHDRKQGTPNGYTSEHENGISDNQGTSTSDIDQSNE DKSDILSSSNTHCLPDDPSSSDCCQGNTL(+) MKTNRISCLHQTRIACLMIHHQVIVAKAIRLGI*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os04g0298600_circ_g.1

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