Plant Circular RNA Database

Detail information of Os03g0288800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0288800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_019269
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 9995789-9996940  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os03g0288800						
					
						Parent gene annotation
						
							Cytochrome B561-related domain containing protein. (Os03t0288800
-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0288800_circ_g.1 Os03g0288800_circ_g.3 Os03g0288800_circ_g.4 Os03g0288800_circ_g.5 						
					
						Support reads
						2
					
						Tissues
						seed
					
						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
						Os03t0288800-01:2

General Information
CircRNA Name	Os03g0288800_circ_g.2
ID in PlantcircBase	osa_circ_019269
Alias	NA
Organism	Oryza sativa
Position	chr3: 9995789-9996940 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os03g0288800
Parent gene annotation	Cytochrome B561-related domain containing protein. (Os03t0288800 -01)
Parent gene strand	+
Alternative splicing	Os03g0288800_circ_g.1 Os03g0288800_circ_g.3 Os03g0288800_circ_g.4 Os03g0288800_circ_g.5
Support reads	2
Tissues	seed
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	Os03t0288800-01:2

			
						 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  
						
							GGTGGGACTAAAGATTGGCAACCGACTATCACGGTTGATGAAGATGGCATTCTTAATCAATTGC
GCACTGCACTTCTGCATTCCCGTGATACGCCTGTTGtgcttgtctttaggttgattgaggcagc
gctgggtctggtcgcactttttacactgccggctttcttcagggcggtgatgctctacaatggg
aagagggc

						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
						
							TGCTTGTCTTTAGGTTGATTGAGGCAGCGCTGGGTCTGGTCGCACTTTTTACACTGCCGGCTTT
CTTCAGGGCGGTGATGCTCTACAATGGGAAGAGGGCACTTGCCAAAGAGGACAAGGTTGTGTTA
TCTGAACGCCAACTGGGGCTTCTCGGGTTAAAGATGACAGGTTCAGAAGCAGGTGGCACCAGTG
AGAAAACCAAAAGGCCTCCCAAGGCAAAGCCATCGACTCCGTCAGAGCCAATTGTTCCGATTAG
GAGGTCTTCGTTCAGCTATACGCCATCTCGGTCTTTAGGGCAATCAAGGATTGGTTCCAGCAAT
TTGAGCCCTGGTGGTGAGAGACTGACCACATCAGTGCAAATATCACCTTCCACTCCACTACAAA
AGCCTATTTCTTCACCTTCAACCCCATGGTCTAGGAAAAGCTCAGGCAGTGCGAAGGGCATACA
GACAGAGGCGATGTTGGAGCAGTTCTTGGCTGGTTTGGACGAAAATATTGACACAATCACAGAT
TCAGCCAGTAAGATTGCAACACCTCCCGCAACCATTACGAGCTTTGGTGCTGCAAGCCCTGTAT
CAGTCATTACATCAACCACCCCTTCTGGTGCTGCAAGAAGCACACCTTTGAGGGCTGTGAGGAT
GTCTCCTGGCTCCCATCAGAAGTACAGCACGCCACCAAAAAAAGGCGAGGGTGAGCTTCCACCT
CCAATGTCATTAGAGCAGGCAGTGAATGCCTTTGAAAATTTGGGTGTATACCCTGAGATTGAGC
AATGGCGAGATAATCTCAGGCAGTGGTTCTCTTCTGTTTTGATGAACCCACTTGTCCAAAAGAT
CAAAACTAGCCATATTCAGGTGCTCTGCTTTTGGCAAATTTTGAGCTGAACTTATACCTCTAGT
CCAATTTCAGTGGCCAGTTGTCACCATTTTTTAAATTTGTTTTGCCCTACCTTGCAGGTTAAGC
AAACAACCGCTACTGTTGGGGCTTCAGTTACTGTTAGCCAGGTTGGAAGTGATCTTCCAAGCAC
AACAGCGCCGGTTGGCTTATCTCCACTTGGTGGGACTAAAGATTGGCAACCGACTATCACGGTT
GATGAAGATGGCATTCTTAATCAATTGCGCACTGCACTTCTGCATTCCCGTGATACGCCTGTTG

Sequences
Splice junction sequence	GGTGGGACTAAAGATTGGCAACCGACTATCACGGTTGATGAAGATGGCATTCTTAATCAATTGC GCACTGCACTTCTGCATTCCCGTGATACGCCTGTTGtgcttgtctttaggttgattgaggcagc gctgggtctggtcgcactttttacactgccggctttcttcagggcggtgatgctctacaatggg aagagggc
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	TGCTTGTCTTTAGGTTGATTGAGGCAGCGCTGGGTCTGGTCGCACTTTTTACACTGCCGGCTTT CTTCAGGGCGGTGATGCTCTACAATGGGAAGAGGGCACTTGCCAAAGAGGACAAGGTTGTGTTA TCTGAACGCCAACTGGGGCTTCTCGGGTTAAAGATGACAGGTTCAGAAGCAGGTGGCACCAGTG AGAAAACCAAAAGGCCTCCCAAGGCAAAGCCATCGACTCCGTCAGAGCCAATTGTTCCGATTAG GAGGTCTTCGTTCAGCTATACGCCATCTCGGTCTTTAGGGCAATCAAGGATTGGTTCCAGCAAT TTGAGCCCTGGTGGTGAGAGACTGACCACATCAGTGCAAATATCACCTTCCACTCCACTACAAA AGCCTATTTCTTCACCTTCAACCCCATGGTCTAGGAAAAGCTCAGGCAGTGCGAAGGGCATACA GACAGAGGCGATGTTGGAGCAGTTCTTGGCTGGTTTGGACGAAAATATTGACACAATCACAGAT TCAGCCAGTAAGATTGCAACACCTCCCGCAACCATTACGAGCTTTGGTGCTGCAAGCCCTGTAT CAGTCATTACATCAACCACCCCTTCTGGTGCTGCAAGAAGCACACCTTTGAGGGCTGTGAGGAT GTCTCCTGGCTCCCATCAGAAGTACAGCACGCCACCAAAAAAAGGCGAGGGTGAGCTTCCACCT CCAATGTCATTAGAGCAGGCAGTGAATGCCTTTGAAAATTTGGGTGTATACCCTGAGATTGAGC AATGGCGAGATAATCTCAGGCAGTGGTTCTCTTCTGTTTTGATGAACCCACTTGTCCAAAAGAT CAAAACTAGCCATATTCAGGTGCTCTGCTTTTGGCAAATTTTGAGCTGAACTTATACCTCTAGT CCAATTTCAGTGGCCAGTTGTCACCATTTTTTAAATTTGTTTTGCCCTACCTTGCAGGTTAAGC AAACAACCGCTACTGTTGGGGCTTCAGTTACTGTTAGCCAGGTTGGAAGTGATCTTCCAAGCAC AACAGCGCCGGTTGGCTTATCTCCACTTGGTGGGACTAAAGATTGGCAACCGACTATCACGGTT GATGAAGATGGCATTCTTAATCAATTGCGCACTGCACTTCTGCATTCCCGTGATACGCCTGTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.299403168

Conservation Information
Conserved circRNAs	NA
PMCS	0.299403168

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							9996879-9995803(+)
9995867-9996937(+)
						
					

						Potential amino acid sequence
						
							MKMAFLINCALHFCIPVIRLLCLSLG*(+)
MLYNGKRALAKEDKVVLSERQLGLLGLKMTGSEAGGTSEKTKRPPKAKPSTPSEPIVPIRRSSF
SYTPSRSLGQSRIGSSNLSPGGERLTTSVQISPSTPLQKPISSPSTPWSRKSSGSAKGIQTEAM
LEQFLAGLDENIDTITDSASKIATPPATITSFGAASPVSVITSTTPSGAARSTPLRAVRMSPGS
HQKYSTPPKKGEGELPPPMSLEQAVNAFENLGVYPEIEQWRDNLRQWFSSVLMNPLVQKIKTSH
IQVKQTTATVGASVTVSQVGSDLPSTTAPVGLSPLGGTKDWQPTITVDEDGILNQLRTALLHSR
DTPVVLVFRLIEAALGLVALFTLPAFFRAVMLYNGKRALAKEDKVVLSERQLGLLGLKMTGSEA
GGTSEKTKRPPKAKPSTPSEPIVPIRRSSFSYTPSRSLGQSRIGSSNLSPGGERLTTSVQISPS
TPLQKPISSPSTPWSRKSSGSAKGIQTEAMLEQFLAGLDENIDTITDSASKIATPPATITSFGA
ASPVSVITSTTPSGAARSTPLRAVRMSPGSHQKYSTPPKKGEGELPPPMSLEQAVNAFENLGVY
PEIEQWRDNLRQWFSSVLMNPLVQKIKTSHIQVKQTTATVGASVTVSQVGSDLPSTTAPVGLSP
LGGTKDWQPTITVDEDGILNQLRTALLHSRDTPVVLVFRLIEAALGLVALFTLPAFFRAVMLYN
GKRALAKEDKVVLSERQLGLLGLKMTGSEAGGTSEKTKRPPKAKPSTPSEPIVPIRRSSFSYTP
SRSLGQSRIGSSNLSPGGERLTTSVQISPSTPLQKPISSPSTPWSRKSSGSAKGIQTEAMLEQF
LAGLDENIDTITDSASKIATPPATITSFGAASPVSVITSTTPSGAARSTPLRAVRMSPGSHQKY
STPPKKGEGELPPPMSLEQAVNAFENLGVYPEIEQWRDNLRQWFSSVLMNPLVQKIKTSHIQVK
QTTATVGASVTVSQVGSDLPSTTAPVGLSPLGGTKDWQPTITVDEDGILNQLRTALLHSRDTPV
VLVFRLIEAALGLVALFTLPAFFRAVMLYNGKRALAKEDKVVLSERQLGLLGLKMTGSEAGGTS
EKTKRPPKAKPSTPSEPIVPIRRSSFSYTPSRSLGQSRIGSSNLSPGGERLTTSVQISPSTPLQ
KPISSPSTPWSRKSSGSAKGIQTEAMLEQFLAGLDENIDTITDSASKIATPPATITSFGAASPV
SVITSTTPSGAARSTPLRAVRMSPGSHQKYSTPPKKGEGELPPPMSLEQAVNAFENLGVYPEIE
QWRDNLRQWFSSVLMNPLVQKIKTSHIQVKQTTATVGASVTVSQVGSDLPSTTAPVGLSPLGGT
KDWQPTITVDEDGILNQLRTALLHSRDTPV(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	9996879-9995803(+) 9995867-9996937(+)
Potential amino acid sequence	MKMAFLINCALHFCIPVIRLLCLSLG*(+) MLYNGKRALAKEDKVVLSERQLGLLGLKMTGSEAGGTSEKTKRPPKAKPSTPSEPIVPIRRSSF SYTPSRSLGQSRIGSSNLSPGGERLTTSVQISPSTPLQKPISSPSTPWSRKSSGSAKGIQTEAM LEQFLAGLDENIDTITDSASKIATPPATITSFGAASPVSVITSTTPSGAARSTPLRAVRMSPGS HQKYSTPPKKGEGELPPPMSLEQAVNAFENLGVYPEIEQWRDNLRQWFSSVLMNPLVQKIKTSH IQVKQTTATVGASVTVSQVGSDLPSTTAPVGLSPLGGTKDWQPTITVDEDGILNQLRTALLHSR DTPVVLVFRLIEAALGLVALFTLPAFFRAVMLYNGKRALAKEDKVVLSERQLGLLGLKMTGSEA GGTSEKTKRPPKAKPSTPSEPIVPIRRSSFSYTPSRSLGQSRIGSSNLSPGGERLTTSVQISPS TPLQKPISSPSTPWSRKSSGSAKGIQTEAMLEQFLAGLDENIDTITDSASKIATPPATITSFGA ASPVSVITSTTPSGAARSTPLRAVRMSPGSHQKYSTPPKKGEGELPPPMSLEQAVNAFENLGVY PEIEQWRDNLRQWFSSVLMNPLVQKIKTSHIQVKQTTATVGASVTVSQVGSDLPSTTAPVGLSP LGGTKDWQPTITVDEDGILNQLRTALLHSRDTPVVLVFRLIEAALGLVALFTLPAFFRAVMLYN GKRALAKEDKVVLSERQLGLLGLKMTGSEAGGTSEKTKRPPKAKPSTPSEPIVPIRRSSFSYTP SRSLGQSRIGSSNLSPGGERLTTSVQISPSTPLQKPISSPSTPWSRKSSGSAKGIQTEAMLEQF LAGLDENIDTITDSASKIATPPATITSFGAASPVSVITSTTPSGAARSTPLRAVRMSPGSHQKY STPPKKGEGELPPPMSLEQAVNAFENLGVYPEIEQWRDNLRQWFSSVLMNPLVQKIKTSHIQVK QTTATVGASVTVSQVGSDLPSTTAPVGLSPLGGTKDWQPTITVDEDGILNQLRTALLHSRDTPV VLVFRLIEAALGLVALFTLPAFFRAVMLYNGKRALAKEDKVVLSERQLGLLGLKMTGSEAGGTS EKTKRPPKAKPSTPSEPIVPIRRSSFSYTPSRSLGQSRIGSSNLSPGGERLTTSVQISPSTPLQ KPISSPSTPWSRKSSGSAKGIQTEAMLEQFLAGLDENIDTITDSASKIATPPATITSFGAASPV SVITSTTPSGAARSTPLRAVRMSPGSHQKYSTPPKKGEGELPPPMSLEQAVNAFENLGVYPEIE QWRDNLRQWFSSVLMNPLVQKIKTSHIQVKQTTATVGASVTVSQVGSDLPSTTAPVGLSPLGGT KDWQPTITVDEDGILNQLRTALLHSRDTPV(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0288800_circ_g.2

Address

Any questions?

Supported by