Plant Circular RNA Database

Detail information of Os03g0707300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0707300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_021177
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 28477396-28481112  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0707300						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os03t0707300-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0707300_circ_g.1 Os03g0707300_circ_g.2 Os03g0707300_circ_g.3 Os03g0707300_circ_g.5 Os03g0707300_circ_g.6 Os03g0707300_circ_g.7 Os03g0707300_circ_g.8 						
					
						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  
						
							CT-AC							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
						Os03t0707300-01:9

General Information
CircRNA Name	Os03g0707300_circ_g.4
ID in PlantcircBase	osa_circ_021177
Alias	NA
Organism	Oryza sativa
Position	chr3: 28477396-28481112 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0707300
Parent gene annotation	Conserved hypothetical protein. (Os03t0707300-01)
Parent gene strand	-
Alternative splicing	Os03g0707300_circ_g.1 Os03g0707300_circ_g.2 Os03g0707300_circ_g.3 Os03g0707300_circ_g.5 Os03g0707300_circ_g.6 Os03g0707300_circ_g.7 Os03g0707300_circ_g.8
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	CT-AC 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	Os03t0707300-01:9

			
						 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  
						
							CTGTAATGGCTGAAGCATTTATTTGAGGTGGGCGAACATTGTATTCTGCTAACATACTAAGCAA
TGAAGAAGTGAAGAAGTATAGCTCTTCTTCCTCACCcgcaagttatcttgctcccgttgttagc
atactctgtaaccaattcaccctacaatgaagaagagcaactcatcaaattgacatgcatagtt
tctaggtg

									
								

					

						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
						
							CGCAAGTTATCTTGCTCCCGTTGTTAGCATACTCTGTAACCAATTCACCCTACAATGAAGAAGA
GCAACTCATCAAATTGACATGCATAGTTTCTAGGTGTAATTACTGCCATAGTAAAATAACCATG
TGTCAATGGTGTGGATAATTCTGTTTAGAAGTTCAAGCCCATGAATTAACAACAGATTTCAAGC
ACACTCATATTATCAGTGCACAAGCACGTCTTTGCTCAAAAAGGAAAGCCGATGTGCCAACCTT
TATGTACACTTATTGCATATCAGATATATCTAAAAACGAATACCAACAAATACACAAAGGGACA
GTTATTTATGACTCAGTTTTTTTTCTGGCTGATGCAATAAAGAAATAGCATCCAAAAATGGGTT
GTACTCTGTAAACTACCCAATTGATGCAGTAAAGGATGGAAAAGATACAACAGAACAAGATCAG
CCTATCAGAATGCCAAGAAGATTCCAATACCCAAAATAATAATGCAAACCATATAGTTAACAAG
TAGTTGAAGAGCCAAAATGGATGTAAGCCTCTAGAGAATACCAATAATGAGAAGCCACCGAAAG
CCTCACAAAAAATTGAGGATGGCACACTCCCAGTAAAAGAACACATTCAGACTAAAGCAATTAA
TGGGGTTAATATGCAATACCATGTACAGGACACAGGACCAAAATTTGAACAGCTAGGCACAGAA
AAAAGTTTTAACCCCCTCTGAACGAGAGATGGCTCCCAAGTCAGTTGATGGATTTCCTTCCCTG
GGATCACAGCTTTACGTCTAAAAGTTTACACTCCCTCCAGTTAGCAAAGAGATAAGTTCCAAAA
TGCATGTTGCCAAACTCTTTAGACTTAGCCACTATGCTATGATTGACCACATGAAATAACCGCA
TTGCACTGCAGTTTACAGCAGATAAGTGAATAACCTGACGGGTATTATCATCCATAGGCGTGCA
GTCTACAGCCAGAAGAGTGTCAACATCATCAGCAGTAACAACGTAGTCATACATCGTAGCACCT
GAATTGCAAAATATAGAGAGCTAATCAATACAATCAAATTATTTCTAAGCAGCAACAAATAGAA
TGAGCAATAATCTCTTATTTACCTTCAATAGACTGCCTGGTGCCATTATCAAGATATCTAACCC
ACTAAAACAACAACGTTTCGTAATGAGAGGTTTTATTTGCAGAAGTTAACAATTAATAGAGAAG
ATAAGTAATTGCAATCTGGAATCAGAACTCAGAACACAACACACCTGGAAATTACAAAGGGTGG
TACCATTGGTAGGGAAACCACATGCTGTTAATGTAAATCCTGGTCTAGGCTCCCCAACAATTTG
AAACCCCTCAATACCAGGCAAAGGATCATCTAGATAATAAATACAAAAAATTCAATAGATATGA
TGTGGAATATTTTCTAGTTACTTGATTTGCTCTTTATTTACCATCAGCTGAATACTCTTGATTA
TCCTGCCTATAAAACTGTGAGTCGTCTAATCTTACTTCTCTAGGACCATTATTTTCTTCAAAAT
AATTAGAGGGGGTAGCAGCTACTATTTCCCTGAAAGGAAGGCCAGTTAAACATCAGATGAAGGA
TCTTTTCACTCAGATGACAGATTAATTGGACAGCCAATAACTGTAATTCGTAAAAGAATCTCTG
AAACAAAACTTTGGCATACTGATGATAATTGGATCCATGGTACATCTGTCCAGTATTTCGGTCA
TTTGGATCTTGAGCATACTGATGAAAATTGTTCCTAGTTGCATCCTGCAGATATGATCAGGTCA
TGCATGGTGCTACATTATTACACAAGCTAGCTAGAGGGCCATGTATTCTATACCGTATTGTAAG
ATGAGGAAGGTTCATGCCTCAACGGCGTTGCTTGTTGATGATTGGGATTATTATATATGTGTCC
AGGTTGAGTTATCTCACCTAAACTGTCCTGAATCAGTAAAATAAACTGAGTGTCTAAAACAAAT
CTTTTGAAATATCAATTCATTAGCGACAGTATCTTACAATATAACATGTAAAATGGCTGGTGTA
ACATGCAAACATGCAGAGGGCATGATCAACTATATGATATTCAAGCTATTCAATTGACATTTGA
CCTTCCATAAGCAAATATTCGAAACTGTCATAATTGTGCTGTGAGCTTGTGCCCTTCTGCACCA
AGTTGAAATGGCATTGCTTTGACGTAACTCTAAAACAAGTGAAATTGTGTATGAATCTATCACT
CTTGGGGCATGCATATTCATCACTCATTTTAAAGAACAACGAAACAATTATCATTGTTCAATCA
CCCCATCTAAAACTGATTATATGATCAAACCAGCCAATTTTACAAGAACAAGGGACCATTCCTT
GTATGTGGCCTAGCTGCCTACTACAGCTGATTAAAACAGGGTGCGTACAATGTCAATGAGCAGC
CATGCCAACAGATATACAAAATCCACCTGCACCAATGTCTCCAGCACATAAATAATAAAGTCCA
ACAGCACCCCATATCTCATTGTATTGGATTACTTGCATGCAAGATATTATTTTTCCATTAAAAA
GTAAAAGCAAGTGTGAACATATTTTACATGAATTTTCCACCACAAACACACACTCATGCACAGC
CAACAAGGCAACAACATGCTTATCCTGATTGGACACAGGAATTTCAGAGATGTTGAATAACAGC
ATGAAAGTTTCATATCTCTATTTTTTGCGGTCGATATTTACTTCTAGAAACAACATTAACTGGG
CTGCAGTCACCCAAAATATGAGCCTCTATGATTACTTTCATCCAAACACACTGTCATCATGTGA
TCATTTTTAAGTCACAGAATCCTGGCAGATGCCCTGATGACCACCCATAAAAGCAAACAGAGAG
TGCAGCATTCAATACTTTCAATATCTAGAGTTCACATAACTATGGTCACTTACATTTAAATATT
TGATCTTCCATTGCATTTGGTGGTACAAACGCTGAAAATTATGGCCAATAGAAATGTATTACTT
CCTCATATCAGACAGGGCAAAAATATCAAAAAGAATTTACTAAATATGTCCGGTTTTAAATATT
AATCTAGGTAAGTAAATGAACCAACTCCACCACCAGAGATTTCAAGAAAAGAATGCCAAAATAA
TTGACATGATAGCTATAGTAGCAAAAATAAGTAACATGTTAGTTTATTTTGCAGCTTTTTAAGC
CTAAGTAAACTGCATAAACAGTTGGTTGCCCAAGCAACAAATATGCTAAGTGGAAACCATGTAA
TAATCTTATTGTAAACAACATAGAAGGCAACATATATTAGACTAATCTGTAGCTTATTGATAAG
GAGTGACATAGTAACATTGTGCAGAGGTGGCTGTTAAGCAGAAGTTAAATCAGTAAGTCTTATT
TCCCCTCACTTTCAGTCTTCATTATTGATTATACTTTATATTAGGCGGTTAGCAAAACATAGGT
AAACAAATTGTGAGCTCATATACAACAGTCTATGGAAAAACTCACCACTATTACCATAAGAGCA
TCCAAAGGGTGTAAGTTGAGATAATACTATGATAAATATTCCCAGATTATGGACAATTCAACTG
ATAATGATCAAGAAAGAGTTACCTTTGTACCAGCTGTAATGGCTGAAGCATTTATTTGAGGTGG
GCGAACATTGTATTCTGCTAACATACTAAGCAATGAAGAAGTGAAGAAGTATAGCTCTTCTTCC
TCACC
						
					

			
		

Sequences
Splice junction sequence	CTGTAATGGCTGAAGCATTTATTTGAGGTGGGCGAACATTGTATTCTGCTAACATACTAAGCAA TGAAGAAGTGAAGAAGTATAGCTCTTCTTCCTCACCcgcaagttatcttgctcccgttgttagc atactctgtaaccaattcaccctacaatgaagaagagcaactcatcaaattgacatgcatagtt tctaggtg
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	CGCAAGTTATCTTGCTCCCGTTGTTAGCATACTCTGTAACCAATTCACCCTACAATGAAGAAGA GCAACTCATCAAATTGACATGCATAGTTTCTAGGTGTAATTACTGCCATAGTAAAATAACCATG TGTCAATGGTGTGGATAATTCTGTTTAGAAGTTCAAGCCCATGAATTAACAACAGATTTCAAGC ACACTCATATTATCAGTGCACAAGCACGTCTTTGCTCAAAAAGGAAAGCCGATGTGCCAACCTT TATGTACACTTATTGCATATCAGATATATCTAAAAACGAATACCAACAAATACACAAAGGGACA GTTATTTATGACTCAGTTTTTTTTCTGGCTGATGCAATAAAGAAATAGCATCCAAAAATGGGTT GTACTCTGTAAACTACCCAATTGATGCAGTAAAGGATGGAAAAGATACAACAGAACAAGATCAG CCTATCAGAATGCCAAGAAGATTCCAATACCCAAAATAATAATGCAAACCATATAGTTAACAAG TAGTTGAAGAGCCAAAATGGATGTAAGCCTCTAGAGAATACCAATAATGAGAAGCCACCGAAAG CCTCACAAAAAATTGAGGATGGCACACTCCCAGTAAAAGAACACATTCAGACTAAAGCAATTAA TGGGGTTAATATGCAATACCATGTACAGGACACAGGACCAAAATTTGAACAGCTAGGCACAGAA AAAAGTTTTAACCCCCTCTGAACGAGAGATGGCTCCCAAGTCAGTTGATGGATTTCCTTCCCTG GGATCACAGCTTTACGTCTAAAAGTTTACACTCCCTCCAGTTAGCAAAGAGATAAGTTCCAAAA TGCATGTTGCCAAACTCTTTAGACTTAGCCACTATGCTATGATTGACCACATGAAATAACCGCA TTGCACTGCAGTTTACAGCAGATAAGTGAATAACCTGACGGGTATTATCATCCATAGGCGTGCA GTCTACAGCCAGAAGAGTGTCAACATCATCAGCAGTAACAACGTAGTCATACATCGTAGCACCT GAATTGCAAAATATAGAGAGCTAATCAATACAATCAAATTATTTCTAAGCAGCAACAAATAGAA TGAGCAATAATCTCTTATTTACCTTCAATAGACTGCCTGGTGCCATTATCAAGATATCTAACCC ACTAAAACAACAACGTTTCGTAATGAGAGGTTTTATTTGCAGAAGTTAACAATTAATAGAGAAG ATAAGTAATTGCAATCTGGAATCAGAACTCAGAACACAACACACCTGGAAATTACAAAGGGTGG TACCATTGGTAGGGAAACCACATGCTGTTAATGTAAATCCTGGTCTAGGCTCCCCAACAATTTG AAACCCCTCAATACCAGGCAAAGGATCATCTAGATAATAAATACAAAAAATTCAATAGATATGA TGTGGAATATTTTCTAGTTACTTGATTTGCTCTTTATTTACCATCAGCTGAATACTCTTGATTA TCCTGCCTATAAAACTGTGAGTCGTCTAATCTTACTTCTCTAGGACCATTATTTTCTTCAAAAT AATTAGAGGGGGTAGCAGCTACTATTTCCCTGAAAGGAAGGCCAGTTAAACATCAGATGAAGGA TCTTTTCACTCAGATGACAGATTAATTGGACAGCCAATAACTGTAATTCGTAAAAGAATCTCTG AAACAAAACTTTGGCATACTGATGATAATTGGATCCATGGTACATCTGTCCAGTATTTCGGTCA TTTGGATCTTGAGCATACTGATGAAAATTGTTCCTAGTTGCATCCTGCAGATATGATCAGGTCA TGCATGGTGCTACATTATTACACAAGCTAGCTAGAGGGCCATGTATTCTATACCGTATTGTAAG ATGAGGAAGGTTCATGCCTCAACGGCGTTGCTTGTTGATGATTGGGATTATTATATATGTGTCC AGGTTGAGTTATCTCACCTAAACTGTCCTGAATCAGTAAAATAAACTGAGTGTCTAAAACAAAT CTTTTGAAATATCAATTCATTAGCGACAGTATCTTACAATATAACATGTAAAATGGCTGGTGTA ACATGCAAACATGCAGAGGGCATGATCAACTATATGATATTCAAGCTATTCAATTGACATTTGA CCTTCCATAAGCAAATATTCGAAACTGTCATAATTGTGCTGTGAGCTTGTGCCCTTCTGCACCA AGTTGAAATGGCATTGCTTTGACGTAACTCTAAAACAAGTGAAATTGTGTATGAATCTATCACT CTTGGGGCATGCATATTCATCACTCATTTTAAAGAACAACGAAACAATTATCATTGTTCAATCA CCCCATCTAAAACTGATTATATGATCAAACCAGCCAATTTTACAAGAACAAGGGACCATTCCTT GTATGTGGCCTAGCTGCCTACTACAGCTGATTAAAACAGGGTGCGTACAATGTCAATGAGCAGC CATGCCAACAGATATACAAAATCCACCTGCACCAATGTCTCCAGCACATAAATAATAAAGTCCA ACAGCACCCCATATCTCATTGTATTGGATTACTTGCATGCAAGATATTATTTTTCCATTAAAAA GTAAAAGCAAGTGTGAACATATTTTACATGAATTTTCCACCACAAACACACACTCATGCACAGC CAACAAGGCAACAACATGCTTATCCTGATTGGACACAGGAATTTCAGAGATGTTGAATAACAGC ATGAAAGTTTCATATCTCTATTTTTTGCGGTCGATATTTACTTCTAGAAACAACATTAACTGGG CTGCAGTCACCCAAAATATGAGCCTCTATGATTACTTTCATCCAAACACACTGTCATCATGTGA TCATTTTTAAGTCACAGAATCCTGGCAGATGCCCTGATGACCACCCATAAAAGCAAACAGAGAG TGCAGCATTCAATACTTTCAATATCTAGAGTTCACATAACTATGGTCACTTACATTTAAATATT TGATCTTCCATTGCATTTGGTGGTACAAACGCTGAAAATTATGGCCAATAGAAATGTATTACTT CCTCATATCAGACAGGGCAAAAATATCAAAAAGAATTTACTAAATATGTCCGGTTTTAAATATT AATCTAGGTAAGTAAATGAACCAACTCCACCACCAGAGATTTCAAGAAAAGAATGCCAAAATAA TTGACATGATAGCTATAGTAGCAAAAATAAGTAACATGTTAGTTTATTTTGCAGCTTTTTAAGC CTAAGTAAACTGCATAAACAGTTGGTTGCCCAAGCAACAAATATGCTAAGTGGAAACCATGTAA TAATCTTATTGTAAACAACATAGAAGGCAACATATATTAGACTAATCTGTAGCTTATTGATAAG GAGTGACATAGTAACATTGTGCAGAGGTGGCTGTTAAGCAGAAGTTAAATCAGTAAGTCTTATT TCCCCTCACTTTCAGTCTTCATTATTGATTATACTTTATATTAGGCGGTTAGCAAAACATAGGT AAACAAATTGTGAGCTCATATACAACAGTCTATGGAAAAACTCACCACTATTACCATAAGAGCA TCCAAAGGGTGTAAGTTGAGATAATACTATGATAAATATTCCCAGATTATGGACAATTCAACTG ATAATGATCAAGAAAGAGTTACCTTTGTACCAGCTGTAATGGCTGAAGCATTTATTTGAGGTGG GCGAACATTGTATTCTGCTAACATACTAAGCAATGAAGAAGTGAAGAAGTATAGCTCTTCTTCC TCACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.109365499

Conservation Information
Conserved circRNAs	NA
PMCS	0.109365499

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28481069-28481110(-)
						
						Potential amino acid sequence
						
							MLAEYNVRPPQINASAITAGTKRLYHQMQWKIKYLNDSLGEITQPGHIYNNPNHQQATPLRHEP
SSSYNTDATRNNFHQYAQDPNDRNTGQMYHGSNYHQEIVAATPSNYFEENNGPREVRLDDSQFY
RQDNQEYSADDDPLPGIEGFQIVGEPRPGFTLTACGFPTNGTTLCNFQWVRYLDNGTRQSIEGA
TMYDYVVTADDVDTLLAVDCTPMDDNTRQGELVTEYANNGSKITCG*(-)
						
						Sponge-miRNAs
						
							osa-miR415 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28481069-28481110(-)
Potential amino acid sequence	MLAEYNVRPPQINASAITAGTKRLYHQMQWKIKYLNDSLGEITQPGHIYNNPNHQQATPLRHEP SSSYNTDATRNNFHQYAQDPNDRNTGQMYHGSNYHQEIVAATPSNYFEENNGPREVRLDDSQFY RQDNQEYSADDDPLPGIEGFQIVGEPRPGFTLTACGFPTNGTTLCNFQWVRYLDNGTRQSIEGA TMYDYVVTADDVDTLLAVDCTPMDDNTRQGELVTEYANNGSKITCG*(-)
Sponge-miRNAs	osa-miR415
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0707300_circ_g.4

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