Plant Circular RNA Database

Detail information of Os04g0656100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0656100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_025718
					
						Alias
						Os_ciR1171
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 33458065-33459826  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI, circRNA_finder, find_circ
					
						Parent gene
						
							Os04g0656100						
					
						Parent gene annotation
						
							H+-ATPase, Blue light-induced stomatal opening of dumbbell-shape
d guard cells, N uptake (Os04t0656100-01);Similar to OSIGBa0158D
24.1 protein. (Os04t0656100-03);Similar to OSIGBa0158D24.1 prote
in. (Os04t0656100-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0656100_circ_g.2 Os04g0656100_circ_g.3 Os04g0656100_circ_g.4 Os04g0656100_circ_g.5 Os04g0656100_circ_g.6 Os04g0656100_circ_g.7 Os04g0656100_circ_g.8 						
					
						Support reads
						15/17
					
						Tissues
						root/seed, pistil
					
						Exon boundary  
						
							No-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
						Os04t0656100-01:2

General Information
CircRNA Name	Os04g0656100_circ_g.1
ID in PlantcircBase	osa_circ_025718
Alias	Os_ciR1171
Organism	Oryza sativa
Position	chr4: 33458065-33459826 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRI, circRNA_finder, find_circ
Parent gene	Os04g0656100
Parent gene annotation	H+-ATPase, Blue light-induced stomatal opening of dumbbell-shape d guard cells, N uptake (Os04t0656100-01);Similar to OSIGBa0158D 24.1 protein. (Os04t0656100-03);Similar to OSIGBa0158D24.1 prote in. (Os04t0656100-04)
Parent gene strand	+
Alternative splicing	Os04g0656100_circ_g.2 Os04g0656100_circ_g.3 Os04g0656100_circ_g.4 Os04g0656100_circ_g.5 Os04g0656100_circ_g.6 Os04g0656100_circ_g.7 Os04g0656100_circ_g.8
Support reads	15/17
Tissues	root/seed, pistil
Exon boundary	No-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	Os04t0656100-01:2

			
						 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  
						
							GGTGTTCGAGCAGCTGAAATGTACGCGCGAGGGGCTCTCCTCCGAGGAGGGGAACCGGCGTATC
GAGATGTTCGGCCCCAACAAGCTCGAGGAGAAGAAGgagatcaagaatgaggccgttgatctgg
tgagaaaatcactcgccgccaccagctacctactacttcttcttcctcgcttcctccctctcgc
gtgttggg

									
								

					

						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: 149
Transcript exons: 33458065-33458092,33459706-33459826
GAGATCAAGAATGAGGCCGTTGATCTGGGGAGAACATACCGATCGAGGAGGTGTTCGAGCAGCT
GAAATGTACGCGCGAGGGGCTCTCCTCCGAGGAGGGGAACCGGCGTATCGAGATGTTCGGCCCC
AACAAGCTCGAGGAGAAGAAG
						
					

						Genomic sequence
						
							GAGATCAAGAATGAGGCCGTTGATCTGGTGAGAAAATCACTCGCCGCCACCAGCTACCTACTAC
TTCTTCTTCCTCGCTTCCTCCCTCTCGCGTGTTGGGTTGCTTAGGCTTTAGCTCTAGCTTTAGT
TCTTACCATTTTTGACTGGCGATAGAAATAGTCTGAGAATTGAAAATTAATGATACCGGCTAGC
TGGAGCTGAGTAGATTTCTGATACGCTTAATAAATGAAAAGGAAAATTTTCCATGTAAAGATGA
GCACGGATCGTTCGTCGTCGGCGGCGGCCTTCACGTCACGCTCTCTTTCTCAACGCGGCTTTTC
ATAACAGAAGGGGCCAGTTGTCCATGGCCGCCTGCCATGTTCTTCTCTTATTCTTCTTCTCTCT
CACCCTGTTCGCTCCTCTGTACTGTTTTGCTGCTGTTCCTCTCACCATCATCAATTTGTTCATC
TGTCTCCGGCTCCTCCTTTTTTTTGGTTGAAATGAAACTTTTTGAAAGATCCTGCTCACATGCG
TGTTTAATCTGTCATGTAGGAGTACACTATACCACTATGGTCACTTCTCCACCAAACTATAGTA
TAAAAAAAATTGAATCTCAGATCTACGCGTAATTAAATGCCCACCTCCAGTTATTAGTATTACT
CTTGCCTCTACTTTCCTTTTTTTTTAGTTCTTCATTTATACAAAGAAGCAGTGAACAAATATAC
TCAAATAGTTCTTCAGCTTCGCAAGTACTCCTACTCCATAAAACTATTTTTCAGCTTCACACGT
AAAATTAAAATTATTCATGAGCTTCATACGAATTTGCATGTACGTAAAGTCAAAAGTCACTTGA
GCACGGGCGCGAGCTAATCACGCAGCGGAGATTAGTGGCTAACCACCATAAAGGCAAGCTAAAC
ACACAGTGGAATCCGTGCGTGCCTAGCTGAGCTGCGGCCTTTTTTTTGGTTTGCTTTGTTTTTT
TTTTGTTCTTTTTTGTTGACCAAGCGGACAGCCCAATCCAAGAGCACAACGTATACCAGCCGCT
GCTCGCTTTATCTTTTTTTTAAAAAAAATAAAAATAGATTAAAAATCAGTTTAATTTTGGGCTG
GTTTTGTTCCCTTCGGCTCACGCGACGAGAAAACGAAACCGCATCTTCCCGGCACGCATCTCAA
GGACGACACGAGGGGGGCCACGGGAAGTACGCGCGCCTCCTCTGACTGCCGCTGAGCCGTCTGA
TCTCCATCTGACGGCCGTACTTTCTCCAATCATTGGCCGGGCACTGCAACCCCCCTGTTGCCCC
TTGGACTCTTCCTCCTCCGTGTGTTCCTAGTAGATCCTGACCGCTTGGCTGGTAGGCGCTGACG
GCGTGGGCCCACACGCACCACCTGGGAGATATTTTATCTGTCAATGACAGGTCGGGCCCATCCA
CCAATAGTAATAGTTTTTTGATAAGGCTGTAAATTGTTCAACACGCGAATCTAATTATAGGTCG
AATAACGAGATAGTGATAATTAAGGATTTATCGCTGTACTCGCATATCATAGACCCGACTGATA
AATTCTTAATTGTCACGTCTTACTCGAATAACTGGGTAACCCGAGTTCTTATTTCTCACTCTGT
TGTTGCTGACTAGTGTGGTTGTGGCTTTTGTTGTTGTTGCAGGAGAACATACCGATCGAGGAGG
TGTTCGAGCAGCTGAAATGTACGCGCGAGGGGCTCTCCTCCGAGGAGGGGAACCGGCGTATCGA
GATGTTCGGCCCCAACAAGCTCGAGGAGAAGAAG
						
					

			
		

Sequences
Splice junction sequence	GGTGTTCGAGCAGCTGAAATGTACGCGCGAGGGGCTCTCCTCCGAGGAGGGGAACCGGCGTATC GAGATGTTCGGCCCCAACAAGCTCGAGGAGAAGAAGgagatcaagaatgaggccgttgatctgg tgagaaaatcactcgccgccaccagctacctactacttcttcttcctcgcttcctccctctcgc gtgttggg
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: 149 Transcript exons: 33458065-33458092,33459706-33459826 GAGATCAAGAATGAGGCCGTTGATCTGGGGAGAACATACCGATCGAGGAGGTGTTCGAGCAGCT GAAATGTACGCGCGAGGGGCTCTCCTCCGAGGAGGGGAACCGGCGTATCGAGATGTTCGGCCCC AACAAGCTCGAGGAGAAGAAG
Genomic sequence	GAGATCAAGAATGAGGCCGTTGATCTGGTGAGAAAATCACTCGCCGCCACCAGCTACCTACTAC TTCTTCTTCCTCGCTTCCTCCCTCTCGCGTGTTGGGTTGCTTAGGCTTTAGCTCTAGCTTTAGT TCTTACCATTTTTGACTGGCGATAGAAATAGTCTGAGAATTGAAAATTAATGATACCGGCTAGC TGGAGCTGAGTAGATTTCTGATACGCTTAATAAATGAAAAGGAAAATTTTCCATGTAAAGATGA GCACGGATCGTTCGTCGTCGGCGGCGGCCTTCACGTCACGCTCTCTTTCTCAACGCGGCTTTTC ATAACAGAAGGGGCCAGTTGTCCATGGCCGCCTGCCATGTTCTTCTCTTATTCTTCTTCTCTCT CACCCTGTTCGCTCCTCTGTACTGTTTTGCTGCTGTTCCTCTCACCATCATCAATTTGTTCATC TGTCTCCGGCTCCTCCTTTTTTTTGGTTGAAATGAAACTTTTTGAAAGATCCTGCTCACATGCG TGTTTAATCTGTCATGTAGGAGTACACTATACCACTATGGTCACTTCTCCACCAAACTATAGTA TAAAAAAAATTGAATCTCAGATCTACGCGTAATTAAATGCCCACCTCCAGTTATTAGTATTACT CTTGCCTCTACTTTCCTTTTTTTTTAGTTCTTCATTTATACAAAGAAGCAGTGAACAAATATAC TCAAATAGTTCTTCAGCTTCGCAAGTACTCCTACTCCATAAAACTATTTTTCAGCTTCACACGT AAAATTAAAATTATTCATGAGCTTCATACGAATTTGCATGTACGTAAAGTCAAAAGTCACTTGA GCACGGGCGCGAGCTAATCACGCAGCGGAGATTAGTGGCTAACCACCATAAAGGCAAGCTAAAC ACACAGTGGAATCCGTGCGTGCCTAGCTGAGCTGCGGCCTTTTTTTTGGTTTGCTTTGTTTTTT TTTTGTTCTTTTTTGTTGACCAAGCGGACAGCCCAATCCAAGAGCACAACGTATACCAGCCGCT GCTCGCTTTATCTTTTTTTTAAAAAAAATAAAAATAGATTAAAAATCAGTTTAATTTTGGGCTG GTTTTGTTCCCTTCGGCTCACGCGACGAGAAAACGAAACCGCATCTTCCCGGCACGCATCTCAA GGACGACACGAGGGGGGCCACGGGAAGTACGCGCGCCTCCTCTGACTGCCGCTGAGCCGTCTGA TCTCCATCTGACGGCCGTACTTTCTCCAATCATTGGCCGGGCACTGCAACCCCCCTGTTGCCCC TTGGACTCTTCCTCCTCCGTGTGTTCCTAGTAGATCCTGACCGCTTGGCTGGTAGGCGCTGACG GCGTGGGCCCACACGCACCACCTGGGAGATATTTTATCTGTCAATGACAGGTCGGGCCCATCCA CCAATAGTAATAGTTTTTTGATAAGGCTGTAAATTGTTCAACACGCGAATCTAATTATAGGTCG AATAACGAGATAGTGATAATTAAGGATTTATCGCTGTACTCGCATATCATAGACCCGACTGATA AATTCTTAATTGTCACGTCTTACTCGAATAACTGGGTAACCCGAGTTCTTATTTCTCACTCTGT TGTTGCTGACTAGTGTGGTTGTGGCTTTTGTTGTTGTTGCAGGAGAACATACCGATCGAGGAGG TGTTCGAGCAGCTGAAATGTACGCGCGAGGGGCTCTCCTCCGAGGAGGGGAACCGGCGTATCGA GATGTTCGGCCCCAACAAGCTCGAGGAGAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005805* osi_circ_005806* 						
					
						PMCS
						0.404857052

Conservation Information
Conserved circRNAs	osi_circ_005805* osi_circ_005806*
PMCS	0.404857052

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os04g0656100_circ_g.1

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