Plant Circular RNA Database

Detail information of Os08g0540300_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os08g0540300_circ_g.10
					
						ID in PlantcircBase
						osa_circ_037896
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 27051950-27053329  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0540300						
					
						Parent gene annotation
						
							Zinc finger, C6HC-type domain containing protein. (Os08t0540300-
01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0540300_circ_g.3 Os08g0540300_circ_g.4 Os08g0540300_circ_g.5 Os08g0540300_circ_g.6 Os08g0540300_circ_g.7 Os08g0540300_circ_g.8 Os08g0540300_circ_g.9 						
					
						Support reads
						1
					
						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
						Os08t0540300-01:5

General Information
CircRNA Name	Os08g0540300_circ_g.10
ID in PlantcircBase	osa_circ_037896
Alias	NA
Organism	Oryza sativa
Position	chr8: 27051950-27053329 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0540300
Parent gene annotation	Zinc finger, C6HC-type domain containing protein. (Os08t0540300- 01)
Parent gene strand	+
Alternative splicing	Os08g0540300_circ_g.3 Os08g0540300_circ_g.4 Os08g0540300_circ_g.5 Os08g0540300_circ_g.6 Os08g0540300_circ_g.7 Os08g0540300_circ_g.8 Os08g0540300_circ_g.9
Support reads	1
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	Os08t0540300-01:5

			
						 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  
						
							ACCTGCAATCATTTTTGACTGTGAGATCTGATAATACTGAACCTGCACCATCAATTGCTGAATT
CGGTGACTTCCGGGTGAAGCTTGCGGGGCTGACAAGtatgatgagactgaagcaaggagggaaa
gagccaaaaattcacttgagagatacatgcattactatgagcgctgggcatctaatcagacggt
atgttcaa

									
								

					

						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: 452
Transcript exons: 27051950-27052039,27052653-27052700,27052829-27052900,27
052998-27053091,27053182-27053329
TATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGATACATGCATTACT
ATGAGCGCTGGGCATCTAATCAGACGTCGAGGCAGAAGGCACAAGCAGATCTGCAAAAGGCAGA
AAAGGAACAACTTGCAAAATTAACAGATGTTTTTGGAATACCGGAGACCCAACTGAAGTTCATA
ATTGAAGCTTGGTCACAGATTATTGAATGCAGGCGGGTACTCAAATGGACATATGCTTATGGCT
ATTATCTGGACGACAAGGTCAAGAGCGAATTTTTCGAGTACCTGCAAGGTGAAGCTGAGTCTGG
TCTGGAGCGTCTTCACCAATGTGCTGAGAAAGACCTGCAATCATTTTTGACTGTGAGATCTGAT
AATACTGAACCTGCACCATCAATTGCTGAATTCGGTGACTTCCGGGTGAAGCTTGCGGGGCTGA
CAAG
						
					

						Genomic sequence
						
							TATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGATACATGCATTACT
ATGAGCGCTGGGCATCTAATCAGACGGTATGTTCAACATGCTCAAGTTTGATGTCTCTTTGAGT
TTTTTTTTCTTTCTACAACAACTATACGTGCAGCTTTAGTCATTCTTGTGCTCATAACTTACTC
TGTGTTTTTGAACCTTCTGGTTTACTTGGCAAGTGTTGTGTTGGCCATATGCTTGGGCAGATAC
TAATTTTGACTTAAATTCTTACCTACCGAGTGTAGCCCAACTAGCTGCAGCTTTATTTGAAGAT
TACTTGCCAAGTTTATCTCTTACTCCCTCCGTCCTAGAATGTAGCAACCTAGGATAGGATGAGA
CCCATCCTAGGACAACGAATTTGGACATTCCTCATGTCCAGATTCGTTGTTCTAAGATGGGTCA
TCCTATCAACATTATGGGATGAAGGTAGTAAGTGCTAATAAATGCTCTTTTTTAATTTTTATGT
TGTATTACCTTATCAGTTCATGATATAAAAAAATACAGTTCCAGATGTTTTTCTATACCTGATG
GGTATATAGTTTCTAATCTACTGTACATGCTTGGGATGAATGTTCTGCATTGTTCTATTCTGAA
CTTGGAATTTTTTCTGCTGTAGTATGCAAGTTTCTGTACTGACATATTCACTTATATTGCCAGT
CGAGGCAGAAGGCACAAGCAGATCTGCAAAAGGCAGAAAAGGAACAAGTAAGCATTCGCATCAT
GTTAGGTTGGGGGCGTTGCATTTAGGGCAAGACATAATTGTTTATCTTCGCCATTCATTCGTAT
TTTATATTTGATAGCTGCTAACTCTATTTCTTCTCTATGTGCTACAGCTTGCAAAATTAACAGA
TGTTTTTGGAATACCGGAGACCCAACTGAAGTTCATAATTGAAGCTTGGTCACAGGTTTGATAT
CATAAATATGTCATGACCCAAATGACACTCCATACTATACAATTCACCTGCGTCTGATGCATGC
ACCATTCCACTATGTCTATTTCAGATTATTGAATGCAGGCGGGTACTCAAATGGACATATGCTT
ATGGCTATTATCTGGACGACAAGGTCAAGAGCGAATTTTTCGAGTACCTGCAAGGTAGTTGTTT
GTTGCATTCCAAAATAAAATCCTAAGTTCTACCACGTGCTTGCCAAAAATCATGTGGTATGTAT
ATTATATCTTTTATAGGTGAAGCTGAGTCTGGTCTGGAGCGTCTTCACCAATGTGCTGAGAAAG
ACCTGCAATCATTTTTGACTGTGAGATCTGATAATACTGAACCTGCACCATCAATTGCTGAATT
CGGTGACTTCCGGGTGAAGCTTGCGGGGCTGACAAG
						
					

			
		

Sequences
Splice junction sequence	ACCTGCAATCATTTTTGACTGTGAGATCTGATAATACTGAACCTGCACCATCAATTGCTGAATT CGGTGACTTCCGGGTGAAGCTTGCGGGGCTGACAAGtatgatgagactgaagcaaggagggaaa gagccaaaaattcacttgagagatacatgcattactatgagcgctgggcatctaatcagacggt atgttcaa
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: 452 Transcript exons: 27051950-27052039,27052653-27052700,27052829-27052900,27 052998-27053091,27053182-27053329 TATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGATACATGCATTACT ATGAGCGCTGGGCATCTAATCAGACGTCGAGGCAGAAGGCACAAGCAGATCTGCAAAAGGCAGA AAAGGAACAACTTGCAAAATTAACAGATGTTTTTGGAATACCGGAGACCCAACTGAAGTTCATA ATTGAAGCTTGGTCACAGATTATTGAATGCAGGCGGGTACTCAAATGGACATATGCTTATGGCT ATTATCTGGACGACAAGGTCAAGAGCGAATTTTTCGAGTACCTGCAAGGTGAAGCTGAGTCTGG TCTGGAGCGTCTTCACCAATGTGCTGAGAAAGACCTGCAATCATTTTTGACTGTGAGATCTGAT AATACTGAACCTGCACCATCAATTGCTGAATTCGGTGACTTCCGGGTGAAGCTTGCGGGGCTGA CAAG
Genomic sequence	TATGATGAGACTGAAGCAAGGAGGGAAAGAGCCAAAAATTCACTTGAGAGATACATGCATTACT ATGAGCGCTGGGCATCTAATCAGACGGTATGTTCAACATGCTCAAGTTTGATGTCTCTTTGAGT TTTTTTTTCTTTCTACAACAACTATACGTGCAGCTTTAGTCATTCTTGTGCTCATAACTTACTC TGTGTTTTTGAACCTTCTGGTTTACTTGGCAAGTGTTGTGTTGGCCATATGCTTGGGCAGATAC TAATTTTGACTTAAATTCTTACCTACCGAGTGTAGCCCAACTAGCTGCAGCTTTATTTGAAGAT TACTTGCCAAGTTTATCTCTTACTCCCTCCGTCCTAGAATGTAGCAACCTAGGATAGGATGAGA CCCATCCTAGGACAACGAATTTGGACATTCCTCATGTCCAGATTCGTTGTTCTAAGATGGGTCA TCCTATCAACATTATGGGATGAAGGTAGTAAGTGCTAATAAATGCTCTTTTTTAATTTTTATGT TGTATTACCTTATCAGTTCATGATATAAAAAAATACAGTTCCAGATGTTTTTCTATACCTGATG GGTATATAGTTTCTAATCTACTGTACATGCTTGGGATGAATGTTCTGCATTGTTCTATTCTGAA CTTGGAATTTTTTCTGCTGTAGTATGCAAGTTTCTGTACTGACATATTCACTTATATTGCCAGT CGAGGCAGAAGGCACAAGCAGATCTGCAAAAGGCAGAAAAGGAACAAGTAAGCATTCGCATCAT GTTAGGTTGGGGGCGTTGCATTTAGGGCAAGACATAATTGTTTATCTTCGCCATTCATTCGTAT TTTATATTTGATAGCTGCTAACTCTATTTCTTCTCTATGTGCTACAGCTTGCAAAATTAACAGA TGTTTTTGGAATACCGGAGACCCAACTGAAGTTCATAATTGAAGCTTGGTCACAGGTTTGATAT CATAAATATGTCATGACCCAAATGACACTCCATACTATACAATTCACCTGCGTCTGATGCATGC ACCATTCCACTATGTCTATTTCAGATTATTGAATGCAGGCGGGTACTCAAATGGACATATGCTT ATGGCTATTATCTGGACGACAAGGTCAAGAGCGAATTTTTCGAGTACCTGCAAGGTAGTTGTTT GTTGCATTCCAAAATAAAATCCTAAGTTCTACCACGTGCTTGCCAAAAATCATGTGGTATGTAT ATTATATCTTTTATAGGTGAAGCTGAGTCTGGTCTGGAGCGTCTTCACCAATGTGCTGAGAAAG ACCTGCAATCATTTTTGACTGTGAGATCTGATAATACTGAACCTGCACCATCAATTGCTGAATT CGGTGACTTCCGGGTGAAGCTTGCGGGGCTGACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.227112748

Conservation Information
Conserved circRNAs	NA
PMCS	0.227112748

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27052005-27052838(+)
27052007-27053064(-)
27052030-27053282(-)
						
						Potential amino acid sequence
						
							MHYYERWASNQTSRQKAQADLQKAEKEQLAKLTDVFGIPETQLKFIIEAWSQIIECRRVLKWTY
AYGYYLDDKVKSEFFEYLQGEAESGLERLHQCAEKDLQSFLTVRSDNTEPAPSIAEFGDFRVKL
AGLTSMMRLKQGGKEPKIHLRDTCITMSAGHLIRRRGRRHKQICKRQKRNNLQN*(+)
MYLSSEFLALSLLASVSSYLSAPQASPGSHRIQQLMVQVQYYQISQSKMIAGLSQHIGEDAPDQ
TQLHLAGTRKIRS*(-)
MPSAHSNACISQVNFWLFPSLLQSHHTCQPRKLHPEVTEFSN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27052005-27052838(+) 27052007-27053064(-) 27052030-27053282(-)
Potential amino acid sequence	MHYYERWASNQTSRQKAQADLQKAEKEQLAKLTDVFGIPETQLKFIIEAWSQIIECRRVLKWTY AYGYYLDDKVKSEFFEYLQGEAESGLERLHQCAEKDLQSFLTVRSDNTEPAPSIAEFGDFRVKL AGLTSMMRLKQGGKEPKIHLRDTCITMSAGHLIRRRGRRHKQICKRQKRNNLQN(+) MYLSSEFLALSLLASVSSYLSAPQASPGSHRIQQLMVQVQYYQISQSKMIAGLSQHIGEDAPDQ TQLHLAGTRKIRS(-) MPSAHSNACISQVNFWLFPSLLQSHHTCQPRKLHPEVTEFSN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0540300_circ_g.10

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