Plant Circular RNA Database

Detail information of Os04g0464500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0464500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_024110
					
						Alias
						Os04circ07227
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 23185997-23190236  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os04g0464500						
					
						Parent gene annotation
						
							SEP domain containing protein. (Os04t0464500-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0464500_circ_g.2 						
					
						Support reads
						2
					
						Tissues
						leaf and panicle
					
						Exon boundary  
						
							No-No							"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
						Os04t0464500-01:4

General Information
CircRNA Name	Os04g0464500_circ_g.1
ID in PlantcircBase	osa_circ_024110
Alias	Os04circ07227
Organism	Oryza sativa
Position	chr4: 23185997-23190236 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os04g0464500
Parent gene annotation	SEP domain containing protein. (Os04t0464500-01)
Parent gene strand	+
Alternative splicing	Os04g0464500_circ_g.2
Support reads	2
Tissues	leaf and panicle
Exon boundary	No-No "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	Os04t0464500-01:4

			
						 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  
						
							TTGGAAGAACCCTTGGTGGTGGATCTTCTGCAGAAGAGAGCCAGGCACCAGCTCCTGCCACTCA
AGAACCCCGCAGGTCCGTTGGAATAGTTGTGGACGActcgatccccccacccccacccctcggc
ggcgatgagctcctccaacaacggcggtggcggcgacaagaagccggcgtccggcggccgcggg
ggccccac

									
								

					

						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
						
							CTCGATCCCCCCACCCCCACCCCTCGGCGGCGATGAGCTCCTCCAACAACGGCGGTGGCGGCGA
CAAGAAGCCGGCGTCCGGCGGCCGCGGGGGCCCCACCATCCGCACCCTCGCGGACATCAGCCGC
GGCCCGTCCGGCTTCCCTGGGGGCGGCGGCGGCGGCGGCAGCGACTCCGACGAGCCCCAGGAGT
ACTACACCGGCGGCGAGAAGAGGTATTGATACCCCCGTATATATAACTTTCCTCGGATCAATCT
AGTTTCCGCTGCCGATTTGATGGTGATCGCGTCGTGCGTTCGAGCACTGCCGCGCTGGAACCCT
TCCCACCGCTCGATTGTTGTTGTTACGACCTAGCTTGATCCTCCGATTAGACAGTCTCGGGAGT
GATTCGTTAGTTTTTGGGCTTGTTGAGCGGTTGATCTGTCCATGTTGTGTGGATTAGGTTTGTT
TCATTTGGTTCAGGAATTGTGCCGCATACTGGGCGGTTGTTCCGCTGCCCGCAGAATTCTGACT
ATATTTCCGACCAACTCAGGTGTAATGGTTACGAATTTTAGTTTGGTTTTGCTTTTTGCTACTT
GGTAGTGTGGAATATTTTTATGATCGGATAGATTACTTTCATCATTGTACTATTGAAACTAGAG
ATAAACTTATAGGTTTAGATTAGATTTGTAAAATCCATGAGATGACAAAATATGAGTCATCCAC
TCAAAAGACAATTCATGCAAATGGTTTCATTTCAGTTATCTCGTGTTTTCTGCAAAATATTTTT
TTACTTGTGTGGTGTTCTTGATCAGTTTGTGGAATGATTGGATCATCCAATCCTAAAATCTTAC
CCTATCCTACATTTTTTTATTTGGGGGAATGTGATACATTTGTGACATGACCATGTCGTCTGCC
AATTCACGTACCATGAAGTTTACTAATGAGGAATTGAACATAATAAGCATGCGATAGAACAACT
CCTAAAGTCTGGTCTCTTGTCAAACCCAACGCCCATATTATAGTTTGAATGTTTTAGCCTTTTG
CACATAGTAACCCCCACGTTCAGCGGTACTTTGCAGCAAACATTGACCATTAATTTGTTGAAAT
GAAATTTCCGGATTTAATGGTTTGCCAGATCATCCTTTAGTCCTGAACCTGTTTATTCAAACTT
CCAATTCTGTCAAGTATTTCTTTGTTCGTCCACCTTGCTGCAACAATGAATTCCTATGGTACTG
TTATTTTGTATATGGTGTCCATATAGCTAGCAAAATCGCACAGGATCTTGCTGTTATTTGGTTT
GCAATTAATACATGTTGAGTGGGTTAGCTCTTCATTCTTTTTAGTGATACCATGTGGTTTGCAA
ACAATATATGTTGAGTAGGTTCCATTTTATGTGCTAATGTTAATGCTAGTTTTTTCTCCTCAGT
AGTTCTTTATTTTTTTAGGCTCCATGCTGTTACTACATTTTACCCGTCAGTACTTTTATGCCAT
ATAATGTTTCTAGCAGCAACAGACTCTGATGTACTACTGCTGCTGCTGTGCCAGCTGTGGGATC
TGGGAAGCTGCTGTTCAGTTTATCTTGTTGTTGTATAACCCCCTGAGGTGGTTTCAACAGGGGT
TGAGATCATTTGGCAACCATTAGGTTCACAATCACTGATGCCAATAGAACATCACAGTTTTGAA
TTCATTGAACATATTCTTCTAATGCTTCATGGCTCCAGTTGTACTCAGCAAAGTGCTCTGTTTT
TAGTGCCTCCCATCATAATGGTTTTCGAGCTTATAACCCGATGCCAAAATTTGAATTTTAAAAC
ATAATTTTGGAGTTGATTTCGTTTTTTTTTTGTATTTTATTTTATAGCATTGGCTTTTGAATTG
CTAAGAACACATATGTAAAAGTTTTACCCACAAATTATTATGTATAAAAGTTATGGCTTATATC
AGCTGTAGGACAAGCAAGGGAAATAGTGAGAATTTGATGAAGGATTTGACATCACATGGCCTGC
TTGTCTAATCTGGTTACTGTCTTTTCTTTTGCTATACCATATATGAGACTCGTTAAAGGACACC
TTAAATTTTAATCATGGTTTAACATGAGATGAGCATCTGTTGTGGTCTGATATTCCAACATCTG
GAGATTCTGGTGTGCCAGTGCAGGCTTTTGCATAACAACCTAACCTTTGTAGTTCGTAGCCACA
CCCACCTCCCTTTTTTCTTCATCCACCAAGTCCCATCTAATCATGCATCATGAATAAAACACAC
CTGAGCTTGTTGACTTTTATATGTTCTGTATAAGTGGATATGGCTACAGAGTTAAGGACCATTG
GGGAACAGCAATTTCCCTAATCAGTTATCCGTGACTTAGTAGATGTGCTTTTATGTTTTACTTA
TTTGCCTTAAGTGACAAATATAGTAATATAGTTTTGGGTCCACTCTTCTGCTTTTTTGTGCAGG
ACCTCTTGTGATGATCTTATATTAATATTTTATTACTTATGTATTTTTATGTATATATATGCAG
TGGGATGCTTGTTCAGGACCCAACAAGAAGAAACACTGTGGACTCAATCTTCGAACAAGCTAGA
CAGATGGGTGCTCTCCAAGATCAACCGCCTCCATTTGAGGATCAATCTTCCAGTTCAAGAAGCT
TTACAGGGACTGGTCGACTTCTTTCAGGAGAGACAGCACCAGCTGCACCTCCACCGCCTGGGAA
TGTACTTCACAATATACAATTCTGGAACAATGGATTCACTGTAGATGATGGTCCGCTGAGGGAC
TATGATGATCCTGCAAATGCTGATTTCATTGAGGTGATTTCTCTTGACTTGTTATTTAGGCCAA
TTTTACCATACATCAATCCAATGGTGTCAATATGAACTCATTTTGATTCTCTTCCGCCATTAAT
TTTGCATAACTTTTGATGTTTCAATTTTATTGAGAATTGATATATTGGATTGAGAGACATCCTC
TAAAATTACATCAGTTACAAGCTTTACTCTTACCTTCTTGCTTTCATTTGCCCTTCTTTTTTTT
TCCCCTGAAAAGGAGTAATTACTATAGCTCTATGTCCACCCACCAGATGATTTCATAGGATTGT
AGTAAAATGAGTAATGCTCAAGGACTGTCATGATTAACTGACAATTACATAAGTTACTAATCGT
TAACGGACACTCTTCTGGACCCAGTTTCTAATTATCAACCAGTGCTACACCTTAGCTCCCAGTT
AGTTCTTGGCAAGGCAGGCTGGCAGGGTATGAGCAGCATCTGAAAACTCCTGTTGACCGAGCCA
ATAAGCTAGAATCCATAATTCCCTAACTCAATACATGATCCAGCCCTGCTCTTGCCAGAACAAA
ATATGGTTACGTACTTCCTCTATTACTTAGTGCCAAGCATGTATTATTTTTTTCCGCTAATTTT
TCCCTTTAAAGATTGTCTTTTGTTTGTGAGATATGTATTTTGTTCTCTTCCCTCTCCAGGACCC
AGGTGCTTGACTTCAAATCTTTCACTCCCTCCGTTTTATATTATAAGTCATTTTGACTTTTTTC
TTAGTCAAATTTCTTTAAGTTTGACAACGTTTATAGAAAAATTTAGCAACATTTACAATACAAA
ATTAGTTTTGTCAAAACTAACTTTTAAGATATTTTAGTAATATGTTTATTTTGTGTTGGGAATG
TTGCTATATTTTTCTATAAACTTGATTAAACTTTAAAAAAGTTTGACTAGGAAAACGGTCAAAA
CGACATAATATGAAACAGGGGGAGTTAAATTTATCATTGCTCATTGTGTAGACAACCAGTCTTG
TGTTTGTTAAATGCGGTGACAGTCCTAGTTACCAACAATCCAACATTTGACTCCTAGTCCTTCA
TAGAACACATAAAAATGGAGTACACACCAGAATGGTTGACCATTGGGGTAATTGTAACACATTG
TGCCTCTTTTTTGCTTTTCAGAGCATCAAGAAGTCCCAGTGCCCCCAGGAGTTGGAGCCAGCTG
ATAGAAGAACACCTGTTCATGTGAATGTTATCAAACGACTGGAAGACTATCAGGTAAGCCTTTC
ATTCCTGTATGGCTGTAACTTGACTGTAGTTTTCAGTCCGATATATTAACCTTTGCATATCGCT
TTATTCACAGGCTCCTCTAAGGCCTCCATCACCCTTCCAGGGTGTTGGAAGAACCCTTGGTGGT
GGATCTTCTGCAGAAGAGAGCCAGGCACCAGCTCCTGCCACTCAAGAACCCCGCAGGTCCGTTG
GAATAGTTGTGGACGA
						
					

			
		

Sequences
Splice junction sequence	TTGGAAGAACCCTTGGTGGTGGATCTTCTGCAGAAGAGAGCCAGGCACCAGCTCCTGCCACTCA AGAACCCCGCAGGTCCGTTGGAATAGTTGTGGACGActcgatccccccacccccacccctcggc ggcgatgagctcctccaacaacggcggtggcggcgacaagaagccggcgtccggcggccgcggg ggccccac
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	CTCGATCCCCCCACCCCCACCCCTCGGCGGCGATGAGCTCCTCCAACAACGGCGGTGGCGGCGA CAAGAAGCCGGCGTCCGGCGGCCGCGGGGGCCCCACCATCCGCACCCTCGCGGACATCAGCCGC GGCCCGTCCGGCTTCCCTGGGGGCGGCGGCGGCGGCGGCAGCGACTCCGACGAGCCCCAGGAGT ACTACACCGGCGGCGAGAAGAGGTATTGATACCCCCGTATATATAACTTTCCTCGGATCAATCT AGTTTCCGCTGCCGATTTGATGGTGATCGCGTCGTGCGTTCGAGCACTGCCGCGCTGGAACCCT TCCCACCGCTCGATTGTTGTTGTTACGACCTAGCTTGATCCTCCGATTAGACAGTCTCGGGAGT GATTCGTTAGTTTTTGGGCTTGTTGAGCGGTTGATCTGTCCATGTTGTGTGGATTAGGTTTGTT TCATTTGGTTCAGGAATTGTGCCGCATACTGGGCGGTTGTTCCGCTGCCCGCAGAATTCTGACT ATATTTCCGACCAACTCAGGTGTAATGGTTACGAATTTTAGTTTGGTTTTGCTTTTTGCTACTT GGTAGTGTGGAATATTTTTATGATCGGATAGATTACTTTCATCATTGTACTATTGAAACTAGAG ATAAACTTATAGGTTTAGATTAGATTTGTAAAATCCATGAGATGACAAAATATGAGTCATCCAC TCAAAAGACAATTCATGCAAATGGTTTCATTTCAGTTATCTCGTGTTTTCTGCAAAATATTTTT TTACTTGTGTGGTGTTCTTGATCAGTTTGTGGAATGATTGGATCATCCAATCCTAAAATCTTAC CCTATCCTACATTTTTTTATTTGGGGGAATGTGATACATTTGTGACATGACCATGTCGTCTGCC AATTCACGTACCATGAAGTTTACTAATGAGGAATTGAACATAATAAGCATGCGATAGAACAACT CCTAAAGTCTGGTCTCTTGTCAAACCCAACGCCCATATTATAGTTTGAATGTTTTAGCCTTTTG CACATAGTAACCCCCACGTTCAGCGGTACTTTGCAGCAAACATTGACCATTAATTTGTTGAAAT GAAATTTCCGGATTTAATGGTTTGCCAGATCATCCTTTAGTCCTGAACCTGTTTATTCAAACTT CCAATTCTGTCAAGTATTTCTTTGTTCGTCCACCTTGCTGCAACAATGAATTCCTATGGTACTG TTATTTTGTATATGGTGTCCATATAGCTAGCAAAATCGCACAGGATCTTGCTGTTATTTGGTTT GCAATTAATACATGTTGAGTGGGTTAGCTCTTCATTCTTTTTAGTGATACCATGTGGTTTGCAA ACAATATATGTTGAGTAGGTTCCATTTTATGTGCTAATGTTAATGCTAGTTTTTTCTCCTCAGT AGTTCTTTATTTTTTTAGGCTCCATGCTGTTACTACATTTTACCCGTCAGTACTTTTATGCCAT ATAATGTTTCTAGCAGCAACAGACTCTGATGTACTACTGCTGCTGCTGTGCCAGCTGTGGGATC TGGGAAGCTGCTGTTCAGTTTATCTTGTTGTTGTATAACCCCCTGAGGTGGTTTCAACAGGGGT TGAGATCATTTGGCAACCATTAGGTTCACAATCACTGATGCCAATAGAACATCACAGTTTTGAA TTCATTGAACATATTCTTCTAATGCTTCATGGCTCCAGTTGTACTCAGCAAAGTGCTCTGTTTT TAGTGCCTCCCATCATAATGGTTTTCGAGCTTATAACCCGATGCCAAAATTTGAATTTTAAAAC ATAATTTTGGAGTTGATTTCGTTTTTTTTTTGTATTTTATTTTATAGCATTGGCTTTTGAATTG CTAAGAACACATATGTAAAAGTTTTACCCACAAATTATTATGTATAAAAGTTATGGCTTATATC AGCTGTAGGACAAGCAAGGGAAATAGTGAGAATTTGATGAAGGATTTGACATCACATGGCCTGC TTGTCTAATCTGGTTACTGTCTTTTCTTTTGCTATACCATATATGAGACTCGTTAAAGGACACC TTAAATTTTAATCATGGTTTAACATGAGATGAGCATCTGTTGTGGTCTGATATTCCAACATCTG GAGATTCTGGTGTGCCAGTGCAGGCTTTTGCATAACAACCTAACCTTTGTAGTTCGTAGCCACA CCCACCTCCCTTTTTTCTTCATCCACCAAGTCCCATCTAATCATGCATCATGAATAAAACACAC CTGAGCTTGTTGACTTTTATATGTTCTGTATAAGTGGATATGGCTACAGAGTTAAGGACCATTG GGGAACAGCAATTTCCCTAATCAGTTATCCGTGACTTAGTAGATGTGCTTTTATGTTTTACTTA TTTGCCTTAAGTGACAAATATAGTAATATAGTTTTGGGTCCACTCTTCTGCTTTTTTGTGCAGG ACCTCTTGTGATGATCTTATATTAATATTTTATTACTTATGTATTTTTATGTATATATATGCAG TGGGATGCTTGTTCAGGACCCAACAAGAAGAAACACTGTGGACTCAATCTTCGAACAAGCTAGA CAGATGGGTGCTCTCCAAGATCAACCGCCTCCATTTGAGGATCAATCTTCCAGTTCAAGAAGCT TTACAGGGACTGGTCGACTTCTTTCAGGAGAGACAGCACCAGCTGCACCTCCACCGCCTGGGAA TGTACTTCACAATATACAATTCTGGAACAATGGATTCACTGTAGATGATGGTCCGCTGAGGGAC TATGATGATCCTGCAAATGCTGATTTCATTGAGGTGATTTCTCTTGACTTGTTATTTAGGCCAA TTTTACCATACATCAATCCAATGGTGTCAATATGAACTCATTTTGATTCTCTTCCGCCATTAAT TTTGCATAACTTTTGATGTTTCAATTTTATTGAGAATTGATATATTGGATTGAGAGACATCCTC TAAAATTACATCAGTTACAAGCTTTACTCTTACCTTCTTGCTTTCATTTGCCCTTCTTTTTTTT TCCCCTGAAAAGGAGTAATTACTATAGCTCTATGTCCACCCACCAGATGATTTCATAGGATTGT AGTAAAATGAGTAATGCTCAAGGACTGTCATGATTAACTGACAATTACATAAGTTACTAATCGT TAACGGACACTCTTCTGGACCCAGTTTCTAATTATCAACCAGTGCTACACCTTAGCTCCCAGTT AGTTCTTGGCAAGGCAGGCTGGCAGGGTATGAGCAGCATCTGAAAACTCCTGTTGACCGAGCCA ATAAGCTAGAATCCATAATTCCCTAACTCAATACATGATCCAGCCCTGCTCTTGCCAGAACAAA ATATGGTTACGTACTTCCTCTATTACTTAGTGCCAAGCATGTATTATTTTTTTCCGCTAATTTT TCCCTTTAAAGATTGTCTTTTGTTTGTGAGATATGTATTTTGTTCTCTTCCCTCTCCAGGACCC AGGTGCTTGACTTCAAATCTTTCACTCCCTCCGTTTTATATTATAAGTCATTTTGACTTTTTTC TTAGTCAAATTTCTTTAAGTTTGACAACGTTTATAGAAAAATTTAGCAACATTTACAATACAAA ATTAGTTTTGTCAAAACTAACTTTTAAGATATTTTAGTAATATGTTTATTTTGTGTTGGGAATG TTGCTATATTTTTCTATAAACTTGATTAAACTTTAAAAAAGTTTGACTAGGAAAACGGTCAAAA CGACATAATATGAAACAGGGGGAGTTAAATTTATCATTGCTCATTGTGTAGACAACCAGTCTTG TGTTTGTTAAATGCGGTGACAGTCCTAGTTACCAACAATCCAACATTTGACTCCTAGTCCTTCA TAGAACACATAAAAATGGAGTACACACCAGAATGGTTGACCATTGGGGTAATTGTAACACATTG TGCCTCTTTTTTGCTTTTCAGAGCATCAAGAAGTCCCAGTGCCCCCAGGAGTTGGAGCCAGCTG ATAGAAGAACACCTGTTCATGTGAATGTTATCAAACGACTGGAAGACTATCAGGTAAGCCTTTC ATTCCTGTATGGCTGTAACTTGACTGTAGTTTTCAGTCCGATATATTAACCTTTGCATATCGCT TTATTCACAGGCTCCTCTAAGGCCTCCATCACCCTTCCAGGGTGTTGGAAGAACCCTTGGTGGT GGATCTTCTGCAGAAGAGAGCCAGGCACCAGCTCCTGCCACTCAAGAACCCCGCAGGTCCGTTG GAATAGTTGTGGACGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.20500146

Conservation Information
Conserved circRNAs	NA
PMCS	0.20500146

			
						 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
						Lu et al., 2015

circRNA

Detail information of Os04g0464500_circ_g.1

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