Plant Circular RNA Database

Detail information of Os05g0556100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0556100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_028845
					
						Alias
						Os05circ17962
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 27649827-27653585  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os05g0556100						
					
						Parent gene annotation
						
							Similar to SDL5A. (Os05t0556100-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0555800_circ_ag.1 Os05g0555800_circ_ig.1 Os05g0556000_circ_g.1 Os05g0556000_circ_g.2 Os05g0556000_circ_g.3 Os05g0556100_circ_g.1 Os05g0556100_circ_g.3 Os05g0556100_circ_g.4 Os05g0556100_circ_g.5 Os05g0556100_circ_g.6 Os05g0556100_circ_g.7 Os05g0556100_circ_g.8 Os05g0556100_circ_g.9 Os05g0556100_circ_g.10 Os05g0556100_circ_g.11 Os05g0556100_circ_g.12 Os05g0556100_circ_g.13 Os05g0556100_circ_g.14 Os05g0556300_circ_g.1 Os05g0556400_circ_g.1 Os05g0556400_circ_g.2 Os05g0556400_circ_g.3 Os05g0556600_circ_g.1 Os05g0556600_circ_g.2 EPlOSAG00000016487_circ_ig.1 Os05g0556700_circ_igg.1 Os05g0556700_circ_igg.2 Os05g0556650_circ_g.1 Os05g0556700_circ_g.1 						
					
						Support reads
						3
					
						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  
						
							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
						Os05t0556201-00:12
Os05t0556100-01:12
Os05t0556201-00:12

General Information
CircRNA Name	Os05g0556100_circ_g.2
ID in PlantcircBase	osa_circ_028845
Alias	Os05circ17962
Organism	Oryza sativa
Position	chr5: 27649827-27653585 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os05g0556100
Parent gene annotation	Similar to SDL5A. (Os05t0556100-01)
Parent gene strand	-
Alternative splicing	Os05g0555800_circ_ag.1 Os05g0555800_circ_ig.1 Os05g0556000_circ_g.1 Os05g0556000_circ_g.2 Os05g0556000_circ_g.3 Os05g0556100_circ_g.1 Os05g0556100_circ_g.3 Os05g0556100_circ_g.4 Os05g0556100_circ_g.5 Os05g0556100_circ_g.6 Os05g0556100_circ_g.7 Os05g0556100_circ_g.8 Os05g0556100_circ_g.9 Os05g0556100_circ_g.10 Os05g0556100_circ_g.11 Os05g0556100_circ_g.12 Os05g0556100_circ_g.13 Os05g0556100_circ_g.14 Os05g0556300_circ_g.1 Os05g0556400_circ_g.1 Os05g0556400_circ_g.2 Os05g0556400_circ_g.3 Os05g0556600_circ_g.1 Os05g0556600_circ_g.2 EPlOSAG00000016487_circ_ig.1 Os05g0556700_circ_igg.1 Os05g0556700_circ_igg.2 Os05g0556650_circ_g.1 Os05g0556700_circ_g.1
Support reads	3
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	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	Os05t0556201-00:12 Os05t0556100-01:12 Os05t0556201-00:12

			
						 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  
						
							GCTGCGGCGGCGGCGGCGGCTCAGCGAGATCTGGGCGAGATCGCGCGCGTGGGGGGAGGGGCGA
GATCGAGGTCGGTGGAGAGGAGGGGGGGAGATGAGGgttggtatccatcagcctccgttatgag
ctttttcacattttccattgccagttgtttgtcaaactgcaaccgtttaatggctacaggaaac
tgattgtc

									
								

					

						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
						
							GTTGGTATCCATCAGCCTCCGTTATGAGCTTTTTCACATTTTCCATTGCCAGTTGTTTGTCAAA
CTGCAACCGTTTAATGGCTACAGGAAACTGATTGTCAAAGACATGATAGATTTTCTCACCACCA
GGACGCCTGGACATTAGAATTTTTGTGGGTAAGCATCAGGGAAAGCAACATTCAATTCACAAAA
GAACAAGCACACAAGGGAGAATGATGCTAATTGCATATAACAATCTACAAGTTAAATTGTGTTA
AATTGCATACTTCAGCAGCAAGAAAATATGCAAATCTTTATTAGCAATAACTTTGTAAGTGCTA
TCATGTAATTAGGTTTTAGGGTTAAATTCGACGATCCCTTTCTTCTGAAAGAAAAACAACTGGA
GATTCTAGGTGCATGTACGCCCAAGCAAGCTTATTGAAATCTTTATTACATTTGATAGAAATTT
ATTGTTTAAAAATACAAGACAAATTAACAGGTTACTTTGCCAAGAACCTAAAATAGGCTGTATG
CTTACGTTGGAGTAAACACACAAGACTAACACCAAAGGAGAGCTTATCAAATTAGGGCCACACA
AATTTTAGAAGGCTTATACAGATCAGAGAGGGGAAAATGTTATTTTAGGATAAAATGTTATTTT
ATCTCGGAATTCAGGAAGCACACACGTAGCTACAATAAAACTTCTAAGAGAACATTTAGCAACA
GAAACATTAAGTTTGAAACATACACTCCATCCAGATGTTCTTTGTAGATACCATCAAACATGCG
GCATATTTCCATGATCGTGTACAGCTTTCCCTGCATGGCCAAATATGTACAAACCAATTATGTC
CATTAGCACAATGATCAAGAACATACACAAAAAAAATGGGCACTACATTAGCAATTAGCATAAA
AAGGGGATGCAGAATTAGGCTCAATAAACCAGTATCTAATTAAAGAATAAAAAAGCCCTAATCT
TACTCCAGCATCTGTAGCAATGGGCTTCCCAAGTCGATTAAGTTCTGTCTCCAGTTCGGCAATT
GTCTTTGTAATGAGAGATTGGAGCCCTGGGATTCTTGACTTAATAACAGTCTCCAAATGCTACA
TATACACCAAAACATTTAAGAGTCAATATACCAAACAGAGTTACAGGTATTCTACATTAGAAAC
GAAATGAAAGGCATACCTTCGAGAGACTCTTTGCTAAATGTTCTGATCCCATCCTATGAGCAAG
GTGCTTGTATTCTGGCGTAGTTGAAAAATATTCACGCTCTCTGCGCCTAGCAGCAATCATGTCC
ACATTCTTGTTGATATCCTGCTGAGATCGATTGACGACACCAATCCATTGTTGTTGGAGCCGGT
ATGATCTGCCTTCCAATATCTGCAGAAAAGAACCGTAAGAAAATACAGCTCAAAGAACAAACAT
AACCTTCATTTTCTACAACTGTATATCTTCCAACAGATAGAACAGAAGAATATTCAACATAGGA
GATTTAAAAGGTCCCAAAAGCAAGGGAACAATAATCCATGTTGACATCTCCGGGGACAAAATGT
ATCGATAATAAAGTTTTTAGCAATTAATTTTAGCTGGGAAAAAACTTACATCAACAGCATCGGT
GCCCTTGTCCATTAGATCAATTTTTGTAAGCACACCAAACGTCCTTTCACCTGAACATTACAAG
ACAAACCACATCTCAAAAAACATGATTGCCATCCTTTATCCAAATGGCTTACAACAAAGGCATA
CCTTTGGGGTCAACTTCCCGTGAAATCTTAATTGCATCAGAAGTTGCAAGATCCTGATTGGCTG
GAGAAACAGCCAGAATGATACAATTGGGCTGAAACAAACCAAAAAGGGTCGATATACATATAAG
CTTTTGCAACATTACAGACATGATACATGACAAGATAAGCATAGCTCACACACTACAAGCATAA
TGCATGATACAAAAAACATATTCCAAATATGCTAACACATGGCTGAAATCATAAGAATGTCGAA
ACAAATATGCATAGAATAAATTACTGTATATGTGCATACAAAGCTATGGTACCGAAATAAGGCA
AGCATAGTCAGCAATGGCAGTGGACAAATATTAAAAGGTTACAGCAAAAAATATACCTTTTCTA
TGAACGAGCGAACCATGTTTTCAATGTCCTGAACAATACTGTCAGGCTGACCCTCTGGAAAGCA
TATAGCAAGTGGTAAATCAGGAAATGGACCTCTTTAAAAAGAACAAACAAAAGAAAATAGCTCA
CAAATGACAATGGGTAATACTGACCAACAGCAACTTTAGTAAGCCCAGGAAGATCGATAAGAGT
CAGGTTCACAACTGCAAAAGAGTGGGAGTTAAGACGCTAACAAAAATAGATACTAGAAACCAGA
TAAATCATAAACAGGCATGCACATATAAAGACAAATAAGGTATGGTCATCTTATCAATGACAGA
GATCTCACTAAGTAAGCAACAGACAAAAGGAACAGCTTTTAAGCCACATATCCATCTCAGCAAA
CAATAATCAAAATGAACCAATTTGACTGTGATAAAGCAACTACATCGAACTGACATTTTATATT
ATTGTTATCTTACCATTTGGAGAATATATGCTTAAATGAATAGGGACCGATGATATTTGCTTTG
AACGACCAGTTTCTCTGTCAGTTTCATCAGCTATCTCCTTCCTCACAAGAGCTGCAAGAATACG
ACTATCATCATTAACCATCATGCAGTTGAATATATGTTTAGCACTTGAAAGACTGTTTCCACCA
ACAATTACAGGTGTAATCATATATGTTTGACTATCATCCAACATTGGCAATCTAGTTCAGTTTG
AATATATGATCTCCATAAACATGCAATCTCGCAATTTTAATCACAGAATGATATGACCAAAAAT
GAAGGAAAAGGTAGATGGAGTACCGAAATCAGTGAATCTCTTCCTGGGAAGGTGCATGAACTCT
GCATATTCTCTGTCTCCGTCGATCCTATGAAGCTGCAGCACCAAGGGACGACGGGTGACAATGC
CTGGAAACCAAATCCAAAAATTCCAAATCAGATAAAACAGGAGCAATAACACTGAATTATACAA
GCACTTGCTATTGGAACCGCCATACCTGAGCCTCTTGGTAGGAAATCCTTCCCAACAACGCTCT
CCAGCACCGAGGATTTACCCGAACTCTATCAAACGTATCAGGAAAGTTCAAACGTCAGGTTACC
GAAGTACACCCATTCTGGTACAGAAATAAGCTTAAACCATTTCTAACAGGCGCAACTCCGCACA
AAATTCCATCGAGCTGGATGGTTCCATCAACTAGTTTAGTAGCTTCAGTTGCTACAAAACCTAT
CGATTTCATGTAAGCGTCCAAATCTAGTCTTCGGCGAGCACAGCAATCGTAGATCCAATCGTAG
CTAGACCGCATCGGCTACTAATCCTTTCTGCCCTACCAGCAACTCGCGAGATCCAGATCGACGC
AGCTGAGGCGCGAGGGGCCAGATCCGAGCGAGATAAAAACGGGTAGGGGGGAAACGACGGGAAC
CTGGCCTCCGACGACGGCGATGGCCGGCAGCGAGTCCCAGAGGGTGGGGAGGGCGCTCTCCTCG
CCGTGGTCGCCGAGGGCGGTGCAGGCCCGCTGCAGCTTGTTGACGAGCGAGATCAGGTTCTCCA
TGGCCGCTGCTGCTGCGGCGGCGGCGGCGGCTCAGCGAGATCTGGGCGAGATCGCGCGCGTGGG
GGGAGGGGCGAGATCGAGGTCGGTGGAGAGGAGGGGGGGAGATGAGG
						
					

			
		

Sequences
Splice junction sequence	GCTGCGGCGGCGGCGGCGGCTCAGCGAGATCTGGGCGAGATCGCGCGCGTGGGGGGAGGGGCGA GATCGAGGTCGGTGGAGAGGAGGGGGGGAGATGAGGgttggtatccatcagcctccgttatgag ctttttcacattttccattgccagttgtttgtcaaactgcaaccgtttaatggctacaggaaac tgattgtc
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	GTTGGTATCCATCAGCCTCCGTTATGAGCTTTTTCACATTTTCCATTGCCAGTTGTTTGTCAAA CTGCAACCGTTTAATGGCTACAGGAAACTGATTGTCAAAGACATGATAGATTTTCTCACCACCA GGACGCCTGGACATTAGAATTTTTGTGGGTAAGCATCAGGGAAAGCAACATTCAATTCACAAAA GAACAAGCACACAAGGGAGAATGATGCTAATTGCATATAACAATCTACAAGTTAAATTGTGTTA AATTGCATACTTCAGCAGCAAGAAAATATGCAAATCTTTATTAGCAATAACTTTGTAAGTGCTA TCATGTAATTAGGTTTTAGGGTTAAATTCGACGATCCCTTTCTTCTGAAAGAAAAACAACTGGA GATTCTAGGTGCATGTACGCCCAAGCAAGCTTATTGAAATCTTTATTACATTTGATAGAAATTT ATTGTTTAAAAATACAAGACAAATTAACAGGTTACTTTGCCAAGAACCTAAAATAGGCTGTATG CTTACGTTGGAGTAAACACACAAGACTAACACCAAAGGAGAGCTTATCAAATTAGGGCCACACA AATTTTAGAAGGCTTATACAGATCAGAGAGGGGAAAATGTTATTTTAGGATAAAATGTTATTTT ATCTCGGAATTCAGGAAGCACACACGTAGCTACAATAAAACTTCTAAGAGAACATTTAGCAACA GAAACATTAAGTTTGAAACATACACTCCATCCAGATGTTCTTTGTAGATACCATCAAACATGCG GCATATTTCCATGATCGTGTACAGCTTTCCCTGCATGGCCAAATATGTACAAACCAATTATGTC CATTAGCACAATGATCAAGAACATACACAAAAAAAATGGGCACTACATTAGCAATTAGCATAAA AAGGGGATGCAGAATTAGGCTCAATAAACCAGTATCTAATTAAAGAATAAAAAAGCCCTAATCT TACTCCAGCATCTGTAGCAATGGGCTTCCCAAGTCGATTAAGTTCTGTCTCCAGTTCGGCAATT GTCTTTGTAATGAGAGATTGGAGCCCTGGGATTCTTGACTTAATAACAGTCTCCAAATGCTACA TATACACCAAAACATTTAAGAGTCAATATACCAAACAGAGTTACAGGTATTCTACATTAGAAAC GAAATGAAAGGCATACCTTCGAGAGACTCTTTGCTAAATGTTCTGATCCCATCCTATGAGCAAG GTGCTTGTATTCTGGCGTAGTTGAAAAATATTCACGCTCTCTGCGCCTAGCAGCAATCATGTCC ACATTCTTGTTGATATCCTGCTGAGATCGATTGACGACACCAATCCATTGTTGTTGGAGCCGGT ATGATCTGCCTTCCAATATCTGCAGAAAAGAACCGTAAGAAAATACAGCTCAAAGAACAAACAT AACCTTCATTTTCTACAACTGTATATCTTCCAACAGATAGAACAGAAGAATATTCAACATAGGA GATTTAAAAGGTCCCAAAAGCAAGGGAACAATAATCCATGTTGACATCTCCGGGGACAAAATGT ATCGATAATAAAGTTTTTAGCAATTAATTTTAGCTGGGAAAAAACTTACATCAACAGCATCGGT GCCCTTGTCCATTAGATCAATTTTTGTAAGCACACCAAACGTCCTTTCACCTGAACATTACAAG ACAAACCACATCTCAAAAAACATGATTGCCATCCTTTATCCAAATGGCTTACAACAAAGGCATA CCTTTGGGGTCAACTTCCCGTGAAATCTTAATTGCATCAGAAGTTGCAAGATCCTGATTGGCTG GAGAAACAGCCAGAATGATACAATTGGGCTGAAACAAACCAAAAAGGGTCGATATACATATAAG CTTTTGCAACATTACAGACATGATACATGACAAGATAAGCATAGCTCACACACTACAAGCATAA TGCATGATACAAAAAACATATTCCAAATATGCTAACACATGGCTGAAATCATAAGAATGTCGAA ACAAATATGCATAGAATAAATTACTGTATATGTGCATACAAAGCTATGGTACCGAAATAAGGCA AGCATAGTCAGCAATGGCAGTGGACAAATATTAAAAGGTTACAGCAAAAAATATACCTTTTCTA TGAACGAGCGAACCATGTTTTCAATGTCCTGAACAATACTGTCAGGCTGACCCTCTGGAAAGCA TATAGCAAGTGGTAAATCAGGAAATGGACCTCTTTAAAAAGAACAAACAAAAGAAAATAGCTCA CAAATGACAATGGGTAATACTGACCAACAGCAACTTTAGTAAGCCCAGGAAGATCGATAAGAGT CAGGTTCACAACTGCAAAAGAGTGGGAGTTAAGACGCTAACAAAAATAGATACTAGAAACCAGA TAAATCATAAACAGGCATGCACATATAAAGACAAATAAGGTATGGTCATCTTATCAATGACAGA GATCTCACTAAGTAAGCAACAGACAAAAGGAACAGCTTTTAAGCCACATATCCATCTCAGCAAA CAATAATCAAAATGAACCAATTTGACTGTGATAAAGCAACTACATCGAACTGACATTTTATATT ATTGTTATCTTACCATTTGGAGAATATATGCTTAAATGAATAGGGACCGATGATATTTGCTTTG AACGACCAGTTTCTCTGTCAGTTTCATCAGCTATCTCCTTCCTCACAAGAGCTGCAAGAATACG ACTATCATCATTAACCATCATGCAGTTGAATATATGTTTAGCACTTGAAAGACTGTTTCCACCA ACAATTACAGGTGTAATCATATATGTTTGACTATCATCCAACATTGGCAATCTAGTTCAGTTTG AATATATGATCTCCATAAACATGCAATCTCGCAATTTTAATCACAGAATGATATGACCAAAAAT GAAGGAAAAGGTAGATGGAGTACCGAAATCAGTGAATCTCTTCCTGGGAAGGTGCATGAACTCT GCATATTCTCTGTCTCCGTCGATCCTATGAAGCTGCAGCACCAAGGGACGACGGGTGACAATGC CTGGAAACCAAATCCAAAAATTCCAAATCAGATAAAACAGGAGCAATAACACTGAATTATACAA GCACTTGCTATTGGAACCGCCATACCTGAGCCTCTTGGTAGGAAATCCTTCCCAACAACGCTCT CCAGCACCGAGGATTTACCCGAACTCTATCAAACGTATCAGGAAAGTTCAAACGTCAGGTTACC GAAGTACACCCATTCTGGTACAGAAATAAGCTTAAACCATTTCTAACAGGCGCAACTCCGCACA AAATTCCATCGAGCTGGATGGTTCCATCAACTAGTTTAGTAGCTTCAGTTGCTACAAAACCTAT CGATTTCATGTAAGCGTCCAAATCTAGTCTTCGGCGAGCACAGCAATCGTAGATCCAATCGTAG CTAGACCGCATCGGCTACTAATCCTTTCTGCCCTACCAGCAACTCGCGAGATCCAGATCGACGC AGCTGAGGCGCGAGGGGCCAGATCCGAGCGAGATAAAAACGGGTAGGGGGGAAACGACGGGAAC CTGGCCTCCGACGACGGCGATGGCCGGCAGCGAGTCCCAGAGGGTGGGGAGGGCGCTCTCCTCG CCGTGGTCGCCGAGGGCGGTGCAGGCCCGCTGCAGCTTGTTGACGAGCGAGATCAGGTTCTCCA TGGCCGCTGCTGCTGCGGCGGCGGCGGCGGCTCAGCGAGATCTGGGCGAGATCGCGCGCGTGGG GGGAGGGGCGAGATCGAGGTCGGTGGAGAGGAGGGGGGGAGATGAGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.225833792

Conservation Information
Conserved circRNAs	NA
PMCS	0.225833792

			
						 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 Os05g0556100_circ_g.2

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