Plant Circular RNA Database

Detail information of Os11g0525600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os11g0525600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_009458
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 19059632-19061884  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0525600						
					
						Parent gene annotation
						
							Similar to Alpha-mannosidase. (Os11t0525600-01);Similar to Alpha
-mannosidase. (Os11t0525600-02);Similar to predicted protein. (O
s11t0525600-03);Similar to predicted protein. (Os11t0525600-04);
Similar to predicted protein. (Os11t0525600-05)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0525600_circ_g.2 Os11g0525600_circ_g.4 Os11g0525600_circ_g.5 Os11g0525600_circ_g.6 Os11g0525600_circ_g.7 Os11g0525600_circ_g.8 Os11g0525600_circ_g.9 Os11g0525600_circ_g.10 Os11g0525600_circ_g.11 Os11g0525600_circ_g.12 Os11g0525600_circ_g.13 Os11g0525600_circ_g.14 Os11g0525600_circ_g.15 Os11g0525600_circ_g.16 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os11t0525600-04:1
Os11t0525600-02:9
Os11t0525600-01:9
Os11t0525600-03:9

General Information
CircRNA Name	Os11g0525600_circ_g.3
ID in PlantcircBase	osa_circ_009458
Alias	NA
Organism	Oryza sativa
Position	chr11: 19059632-19061884 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0525600
Parent gene annotation	Similar to Alpha-mannosidase. (Os11t0525600-01);Similar to Alpha -mannosidase. (Os11t0525600-02);Similar to predicted protein. (O s11t0525600-03);Similar to predicted protein. (Os11t0525600-04); Similar to predicted protein. (Os11t0525600-05)
Parent gene strand	+
Alternative splicing	Os11g0525600_circ_g.2 Os11g0525600_circ_g.4 Os11g0525600_circ_g.5 Os11g0525600_circ_g.6 Os11g0525600_circ_g.7 Os11g0525600_circ_g.8 Os11g0525600_circ_g.9 Os11g0525600_circ_g.10 Os11g0525600_circ_g.11 Os11g0525600_circ_g.12 Os11g0525600_circ_g.13 Os11g0525600_circ_g.14 Os11g0525600_circ_g.15 Os11g0525600_circ_g.16
Support reads	1
Tissues	shoot
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	Os11t0525600-04:1 Os11t0525600-02:9 Os11t0525600-01:9 Os11t0525600-03:9

			
						 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  
						
							TGCTCTAGCTCTTGCTCAGCACCATGATGCTGTTACAGGAACGGAGAAGCAACATGTCGCAAAT
GACTATGCAAAGAGATTATCAATTGGCTATACACAAgcattcttccagagatggtggagacagc
agagcgacatgattaaggatatagtgaaggggctcatcagcactggacgattggaattaatgta
gggtttaa

									
								

					

						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
						
							GCATTCTTCCAGAGATGGTGGAGACAGCAGAGCGACATGATTAAGGATATAGTGAAGGGGCTCA
TCAGCACTGGACGATTGGAATTAATGTAGGGTTTAAATCGAATATCGCTATGTATGCTGCATTG
GTAGTCATGTCTGTGTTGTATAGAGAATGACATGCTTCTTTTGCTGTTGCAGAAACGGGGGAAT
GTGCATGCATGATGAAGCGACCGTGCACTACATTGACATGATAGACCAGACTACGCTCGGGCAC
AGGTTCATCAAGGAGGAGTTTGGTCAGATTCCAAGGATTGGTTGGCAGATTGATCCGTTTGGGC
ACTCCGCAGTTCAGGCTTACCTCCTAGGCACAGAAGTAATCCACTGAACTCATTGATGCCGTCC
TTCCAGTGTTTAATTCGACTTAAATGTAAAATGCTGTTATCATAGTAACTAGTTATCAGCCCGG
CGATAGTAACTAGTTATCACCCATCATAGGTAGTTATGTGCTGAGATACAAAAATGTCATTATG
TATACCTTGCTATCCCCTAAAGAGTGATGCCACAGAGAGCTTTTGTTGACAACACAATGTAGCT
ACTGAATCTACACAATCCAATTGTTTAAGTGAAATTAGATTTACCAGAAAAGTAATTGCTCAGC
TAGCATTTTATTATGTTTCAGGTAGGATTCGATGCTTTTTATTTTTTCCGGATTGATTACCAAG
ACCGTGACACACGGAAGGGAACAAAAGAGCTCGAGGTTGTGTGGAGGGGCTCCAAGACCTTCGG
CTCATCAGCTGACGTAAGTGACCTCTTTTTTTCACGGTTAATGTTATGCCTCAATTTGATGTTC
TTAAACTCTGGGGATTCCATATTTCATATGAAACACACATTTTCTTACAGATCTTTGCTGGCAT
CTTCCCAAAAAATTATGAACCACCTCCTGGTCAGTTTTACTTCGAAGTTGATGATACTTCCCCA
ATCGTCCAGGTAAACTAATGAGTACTCTACTAATGCATATCATTCAACACCAGACATGAACTTA
TACATTCCTTGCCTCTATGCAGGATGATCCCCTTCTTTTTGATTATAATGTGGAGCAACGGGTG
GATGACTTTGTTGCTGCAGCTATAGCACAGGTACATTAAACTGTATGTTCACACTTTTTTCATG
CTGATGTAGACCCTCTATGGAGCCATATGCATTGCATGGAAATCCATTAGTCATGTTGATTGAT
GCTACTGCAAAGTGCAAACATCTTATTCAATTTAGACTGCCTTTCTGGATGTTGTAGTGTTAAG
TGTTTGTCACAAATTGAGAATGCAGTTTTGGTGTTCCGTATTCCATGATATGTCGATCATTCTG
CTCTTAATATTCAAAGATATTAGCTAAATGACAACGTTTTAACTTGAAGTTATTGTTCTACTCA
GCAATGAGTTGTTCATCCTAATTCATGCTCCTTTCTTTCTTTTCTCTAGGCAAATATTACAAGG
ACAAATCACGTTATGTTTACAATGGGCACAGACTTCAAATATCAATATGCAGAAAGTTGGTTCA
GACAGATGGACAAATTAATTCACTACGTTAATAAGGTTAAGATCAGCATGGATATTACAAATGC
TGACTATTGTTTAACTAATTTAGTTTCACCATGAAGTTGTAATGATGATGATTTCAACATGTTG
TTCCATTACCTCAGGATGGCCGTGTCAATGCTCTGTATTCCACACCTTCGATTTATACTGATGC
AAAACATGCTGAAAATGTGCCATGGCCTCTCAAGACTAATGATTTTTTCCCGTATGTTCTAACC
TTATATTTCATAATTGATATAATTAACTTCATTTTTGTTGCTTTCACATGCAAATGACTGTATT
TCTTCCATCAGGTATGCAGACAACCCAAATGCATATTGGACAGGTTACTTCACAAGCAGACCTG
CCTTAAAACGATACGTTCGTGTTATGAGTGGATATTACTTGGTAAATTTTCATCTTTCATTACT
CTAGCATTCAGATGTGCAGTTTCAGTATTATATATTTTCATGGTTACTTGGTACTTTGTGGTGT
TCATATGCTTAATATTTTATTTGTTTTCACTTTTCAGGCAGCTAGGCAGTTGGAATTCTTTAAA
GGGAGAAGCAACTCTGATCTCACAACAGATAGTTTAGCTGATGCTCTAGCTCTTGCTCAGCACC
ATGATGCTGTTACAGGAACGGAGAAGCAACATGTCGCAAATGACTATGCAAAGAGATTATCAAT
TGGCTATACACAA
						
					

			
		

Sequences
Splice junction sequence	TGCTCTAGCTCTTGCTCAGCACCATGATGCTGTTACAGGAACGGAGAAGCAACATGTCGCAAAT GACTATGCAAAGAGATTATCAATTGGCTATACACAAgcattcttccagagatggtggagacagc agagcgacatgattaaggatatagtgaaggggctcatcagcactggacgattggaattaatgta gggtttaa
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	GCATTCTTCCAGAGATGGTGGAGACAGCAGAGCGACATGATTAAGGATATAGTGAAGGGGCTCA TCAGCACTGGACGATTGGAATTAATGTAGGGTTTAAATCGAATATCGCTATGTATGCTGCATTG GTAGTCATGTCTGTGTTGTATAGAGAATGACATGCTTCTTTTGCTGTTGCAGAAACGGGGGAAT GTGCATGCATGATGAAGCGACCGTGCACTACATTGACATGATAGACCAGACTACGCTCGGGCAC AGGTTCATCAAGGAGGAGTTTGGTCAGATTCCAAGGATTGGTTGGCAGATTGATCCGTTTGGGC ACTCCGCAGTTCAGGCTTACCTCCTAGGCACAGAAGTAATCCACTGAACTCATTGATGCCGTCC TTCCAGTGTTTAATTCGACTTAAATGTAAAATGCTGTTATCATAGTAACTAGTTATCAGCCCGG CGATAGTAACTAGTTATCACCCATCATAGGTAGTTATGTGCTGAGATACAAAAATGTCATTATG TATACCTTGCTATCCCCTAAAGAGTGATGCCACAGAGAGCTTTTGTTGACAACACAATGTAGCT ACTGAATCTACACAATCCAATTGTTTAAGTGAAATTAGATTTACCAGAAAAGTAATTGCTCAGC TAGCATTTTATTATGTTTCAGGTAGGATTCGATGCTTTTTATTTTTTCCGGATTGATTACCAAG ACCGTGACACACGGAAGGGAACAAAAGAGCTCGAGGTTGTGTGGAGGGGCTCCAAGACCTTCGG CTCATCAGCTGACGTAAGTGACCTCTTTTTTTCACGGTTAATGTTATGCCTCAATTTGATGTTC TTAAACTCTGGGGATTCCATATTTCATATGAAACACACATTTTCTTACAGATCTTTGCTGGCAT CTTCCCAAAAAATTATGAACCACCTCCTGGTCAGTTTTACTTCGAAGTTGATGATACTTCCCCA ATCGTCCAGGTAAACTAATGAGTACTCTACTAATGCATATCATTCAACACCAGACATGAACTTA TACATTCCTTGCCTCTATGCAGGATGATCCCCTTCTTTTTGATTATAATGTGGAGCAACGGGTG GATGACTTTGTTGCTGCAGCTATAGCACAGGTACATTAAACTGTATGTTCACACTTTTTTCATG CTGATGTAGACCCTCTATGGAGCCATATGCATTGCATGGAAATCCATTAGTCATGTTGATTGAT GCTACTGCAAAGTGCAAACATCTTATTCAATTTAGACTGCCTTTCTGGATGTTGTAGTGTTAAG TGTTTGTCACAAATTGAGAATGCAGTTTTGGTGTTCCGTATTCCATGATATGTCGATCATTCTG CTCTTAATATTCAAAGATATTAGCTAAATGACAACGTTTTAACTTGAAGTTATTGTTCTACTCA GCAATGAGTTGTTCATCCTAATTCATGCTCCTTTCTTTCTTTTCTCTAGGCAAATATTACAAGG ACAAATCACGTTATGTTTACAATGGGCACAGACTTCAAATATCAATATGCAGAAAGTTGGTTCA GACAGATGGACAAATTAATTCACTACGTTAATAAGGTTAAGATCAGCATGGATATTACAAATGC TGACTATTGTTTAACTAATTTAGTTTCACCATGAAGTTGTAATGATGATGATTTCAACATGTTG TTCCATTACCTCAGGATGGCCGTGTCAATGCTCTGTATTCCACACCTTCGATTTATACTGATGC AAAACATGCTGAAAATGTGCCATGGCCTCTCAAGACTAATGATTTTTTCCCGTATGTTCTAACC TTATATTTCATAATTGATATAATTAACTTCATTTTTGTTGCTTTCACATGCAAATGACTGTATT TCTTCCATCAGGTATGCAGACAACCCAAATGCATATTGGACAGGTTACTTCACAAGCAGACCTG CCTTAAAACGATACGTTCGTGTTATGAGTGGATATTACTTGGTAAATTTTCATCTTTCATTACT CTAGCATTCAGATGTGCAGTTTCAGTATTATATATTTTCATGGTTACTTGGTACTTTGTGGTGT TCATATGCTTAATATTTTATTTGTTTTCACTTTTCAGGCAGCTAGGCAGTTGGAATTCTTTAAA GGGAGAAGCAACTCTGATCTCACAACAGATAGTTTAGCTGATGCTCTAGCTCTTGCTCAGCACC ATGATGCTGTTACAGGAACGGAGAAGCAACATGTCGCAAATGACTATGCAAAGAGATTATCAAT TGGCTATACACAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.137725854

Conservation Information
Conserved circRNAs	NA
PMCS	0.137725854

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							19059669-19061881(+)
19061809-19059668(+)
19059831-19061877(-)
19059637-19061819(-)
						
					

						Potential amino acid sequence
						
							MIKDIVKGLISTGRLELINGGMCMHDEATVHYIDMIDQTTLGHRFIKEEFGQIPRIGWQIDPFG
HSAVQAYLLGTEVGFDAFYFFRIDYQDRDTRKGTKELEVVWRGSKTFGSSADIFAGIFPKNYEP
PPGQFYFEVDDTSPIVQDDPLLFDYNVEQRVDDFVAAAIAQANITRTNHVMFTMGTDFKYQYAE
SWFRQMDKLIHYVNKDGRVNALYSTPSIYTDAKHAENVPWPLKTNDFFPYADNPNAYWTGYFTS
RPALKRYVRVMSGYYLAARQLEFFKGRSNSDLTTDSLADALALAQHHDAVTGTEKQHVANDYAK
RLSIGYTQAFFQRWWRQQSDMIKDIVKGLISTGRLELINGGMCMHDEATVHYIDMIDQTTLGHR
FIKEEFGQIPRIGWQIDPFGHSAVQAYLLGTEVGFDAFYFFRIDYQDRDTRKGTKELEVVWRGS
KTFGSSADIFAGIFPKNYEPPPGQFYFEVDDTSPIVQDDPLLFDYNVEQRVDDFVAAAIAQANI
TRTNHVMFTMGTDFKYQYAESWFRQMDKLIHYVNKDGRVNALYSTPSIYTDAKHAENVPWPLKT
NDFFPYADNPNAYWTGYFTSRPALKRYVRVMSGYYLAARQLEFFKGRSNSDLTTDSLADALALA
QHHDAVTGTEKQHVANDYAKRLSIGYTQAFFQRWWRQQSDMIKDIVKGLISTGRLELINGGMCM
HDEATVHYIDMIDQTTLGHRFIKEEFGQIPRIGWQIDPFGHSAVQAYLLGTEVGFDAFYFFRID
YQDRDTRKGTKELEVVWRGSKTFGSSADIFAGIFPKNYEPPPGQFYFEVDDTSPIVQDDPLLFD
YNVEQRVDDFVAAAIAQANITRTNHVMFTMGTDFKYQYAESWFRQMDKLIHYVNKDGRVNALYS
TPSIYTDAKHAENVPWPLKTNDFFPYADNPNAYWTGYFTSRPALKRYVRVMSGYYLAARQLEFF
KGRSNSDLTTDSLADALALAQHHDAVTGTEKQHVANDYAKRLSIGYTQAFFQRWWRQQSDMIKD
IVKGLISTGRLELINGGMCMHDEATVHYIDMIDQTTLGHRFIKEEFGQIPRIGWQIDPFGHSAV
QAYLLGTEVGFDAFYFFRIDYQDRDTRKGTKELEVVWRGSKTFGSSADIFAGIFPKNYEPPPGQ
FYFEVDDTSPIVQDDPLLFDYNVEQRVDDFVAAAIAQANITRTNHVMFTMGTDFKYQYAESWFR
QMDKLIHYVNKDGRVNALYSTPSIYTDAKHAENVPWPLKTNDFFPYADNPNAYWTGYFTSRPAL
KRYVRVMSGYYLAARQLEFFKGRSNSDLTTDSLADALALAQHHDAVTGTEKQHVANDYAKRLSI
GYTQ(+)
MMLLQERRSNMSQMTMQRDYQLAIHKHSSRDGGDSRAT*(+)
MHIPPFINSNRPVLMSPFTISLIMSLCCLHHLWKNACV*(-)
MLVYSQLIISLHSHLRHVASPFL*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	19059669-19061881(+) 19061809-19059668(+) 19059831-19061877(-) 19059637-19061819(-)
Potential amino acid sequence	MIKDIVKGLISTGRLELINGGMCMHDEATVHYIDMIDQTTLGHRFIKEEFGQIPRIGWQIDPFG HSAVQAYLLGTEVGFDAFYFFRIDYQDRDTRKGTKELEVVWRGSKTFGSSADIFAGIFPKNYEP PPGQFYFEVDDTSPIVQDDPLLFDYNVEQRVDDFVAAAIAQANITRTNHVMFTMGTDFKYQYAE SWFRQMDKLIHYVNKDGRVNALYSTPSIYTDAKHAENVPWPLKTNDFFPYADNPNAYWTGYFTS RPALKRYVRVMSGYYLAARQLEFFKGRSNSDLTTDSLADALALAQHHDAVTGTEKQHVANDYAK RLSIGYTQAFFQRWWRQQSDMIKDIVKGLISTGRLELINGGMCMHDEATVHYIDMIDQTTLGHR FIKEEFGQIPRIGWQIDPFGHSAVQAYLLGTEVGFDAFYFFRIDYQDRDTRKGTKELEVVWRGS KTFGSSADIFAGIFPKNYEPPPGQFYFEVDDTSPIVQDDPLLFDYNVEQRVDDFVAAAIAQANI TRTNHVMFTMGTDFKYQYAESWFRQMDKLIHYVNKDGRVNALYSTPSIYTDAKHAENVPWPLKT NDFFPYADNPNAYWTGYFTSRPALKRYVRVMSGYYLAARQLEFFKGRSNSDLTTDSLADALALA QHHDAVTGTEKQHVANDYAKRLSIGYTQAFFQRWWRQQSDMIKDIVKGLISTGRLELINGGMCM HDEATVHYIDMIDQTTLGHRFIKEEFGQIPRIGWQIDPFGHSAVQAYLLGTEVGFDAFYFFRID YQDRDTRKGTKELEVVWRGSKTFGSSADIFAGIFPKNYEPPPGQFYFEVDDTSPIVQDDPLLFD YNVEQRVDDFVAAAIAQANITRTNHVMFTMGTDFKYQYAESWFRQMDKLIHYVNKDGRVNALYS TPSIYTDAKHAENVPWPLKTNDFFPYADNPNAYWTGYFTSRPALKRYVRVMSGYYLAARQLEFF KGRSNSDLTTDSLADALALAQHHDAVTGTEKQHVANDYAKRLSIGYTQAFFQRWWRQQSDMIKD IVKGLISTGRLELINGGMCMHDEATVHYIDMIDQTTLGHRFIKEEFGQIPRIGWQIDPFGHSAV QAYLLGTEVGFDAFYFFRIDYQDRDTRKGTKELEVVWRGSKTFGSSADIFAGIFPKNYEPPPGQ FYFEVDDTSPIVQDDPLLFDYNVEQRVDDFVAAAIAQANITRTNHVMFTMGTDFKYQYAESWFR QMDKLIHYVNKDGRVNALYSTPSIYTDAKHAENVPWPLKTNDFFPYADNPNAYWTGYFTSRPAL KRYVRVMSGYYLAARQLEFFKGRSNSDLTTDSLADALALAQHHDAVTGTEKQHVANDYAKRLSI GYTQ(+) MMLLQERRSNMSQMTMQRDYQLAIHKHSSRDGGDSRAT(+) MHIPPFINSNRPVLMSPFTISLIMSLCCLHHLWKNACV(-) MLVYSQLIISLHSHLRHVASPFL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0525600_circ_g.3

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