Plant Circular RNA Database

Detail information of Os01g0506200_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os01g0506200_circ_g.4
					
						ID in PlantcircBase
						osa_circ_001867
					
						Alias
						Os_ciR5781
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 17618297-17620495  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, circRNA_finder, circseq_cup, find_circ
					
						Parent gene
						
							Os01g0506200						
					
						Parent gene annotation
						
							Tetratricopeptide-like helical domain containing protein. (Os01t
0506200-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0506200_circ_g.1 Os01g0506200_circ_g.2 Os01g0506200_circ_g.3 Os01g0506200_circ_g.5 Os01g0506200_circ_g.6 Os01g0506200_circ_g.7 Os01g0506200_circ_g.8 						
					
						Support reads
						2/2/5
					
						Tissues
						root/root/shoot, root, seed
					
						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
						Os01t0506200-01:3

General Information
CircRNA Name	Os01g0506200_circ_g.4
ID in PlantcircBase	osa_circ_001867
Alias	Os_ciR5781
Organism	Oryza sativa
Position	chr1: 17618297-17620495 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, circRNA_finder, circseq_cup, find_circ
Parent gene	Os01g0506200
Parent gene annotation	Tetratricopeptide-like helical domain containing protein. (Os01t 0506200-01)
Parent gene strand	-
Alternative splicing	Os01g0506200_circ_g.1 Os01g0506200_circ_g.2 Os01g0506200_circ_g.3 Os01g0506200_circ_g.5 Os01g0506200_circ_g.6 Os01g0506200_circ_g.7 Os01g0506200_circ_g.8
Support reads	2/2/5
Tissues	root/root/shoot, root, seed
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	Os01t0506200-01:3

			
						 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  
						
							CTTACAGCATTTTGATAGGCTTTGACTGAATGATGAAGCTTCATGTGATCCCAGGATCCACTCA
CGAAAAAGCTTGTCAGATATGCATTACCCAGATTATcttcattgcactatctagcttatcaagg
agactgatgatcttctgaacttctgtatcagcaccaagaccaggatcttttaaagctgcagctt
caaatcca

									
								

					

						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: 287
Transcript exons: 17618297-17618434,17618544-17618597,17620401-17620495
CTTCATTGCACTATCTAGCTTATCAAGGAGACTGATGATCTTCTGAACTTCTGTATCAGCACCA
AGACCAGGATCTTTTAAAGCTGCAGCTTCAAATCCACGAAGTGCTCTTTCATAGTTCTCTAGGT
ATTTGTCAGCTGTGGCACAATTATAGTAGAGGTCTGGATTACATTTCGTAGTCTCATCCTTTTC
AGCATTTTGATAGGCTTTGACTGAATGATGAAGCTTCATGTGATCCCAGGATCCACTCACGAAA
AAGCTTGTCAGATATGCATTACCCAGATTAT
						
					

						Genomic sequence
						
							CTTCATTGCACTATCTAGCTTATCAAGGAGACTGATGATCTTCTGAACTTCTGTATCAGCACCA
AGACCAGGATCTTTTAAAGCTGCAGCTTCAAATCCACGAAGTGCTCTTTCATAGTTCTCTAGGT
ATTTGTCAGCCTGGAAGGAACCAAAACAAATAACATATTACACAAAAGGATGTCCTATACTTGG
CGGAAAATTCAGTTGATTTAGCTACCCAGTTTAAGTTATGATCCGGGTTACTCACTGTGGCACA
ATTATAGTAGAGGTCTGGATTACATTTCGTAGTCTCATCCTTTTCCTGAGCATAAAATGAATTC
AATTATATTCATATAATAAAACAAACAAGGCCACCCAACACACGCCCACCCAAAATCAGGAGGT
GGGGGTGGGGATGGGGGTGGGGGTGAGGGGGGTCAACTCTAGCACCCATTACCTAACCGTTCGC
TTTGCAGACTCTAATTAGTAACTACTCCCTCCATCCGAAAATAATAATAGGGAAAATTGATTAT
AGAGCACCAAAAGTTTCTGTTTTTGGTTTTATAGCACCAAAAGGTTCCGGTTCATTTTAGTAGC
ATTGCAAGTTACCTCCGTTACTGATTTTGGCACTATCCAAATTGACGTTATCTCCCCCACCTTG
CCCCGTCTATCTTCTTCATCCTCCCCAAAAGGTGAGTTCCATTCCATGGCACAGCTGTAGAGAC
GAGCAGGAGGGGCGCAGCACTTCGTCAAGCTCGAGTGCAGTGCAAGCAGACGAGATCTGGGGTG
CCAGTGGACATCATCACAAGCTGCAGGACGCACGTTCAGCTGTCCAGGTGAGCTCATGTATGGT
CGTGCATCCAGTCTAGCTTGTGGACTTGTGGTTCAGCAACATTGTTCTGCCTGTATGATACCCA
CCCTGCTATACTTCAGTTTGTGCACATTTTTTATCCATGAAATTGGGATTGGCTAACAAGGCAA
GAGGATTGATGTTGGAACAGCGTTCATCAGCAAGTTCCAGTCTTCCAGAGATGAAGTACTAGCT
TGTGTATGGCGTGGTGATGGTGCAGGGACGACCGGAAGACAGGCTCGAGGGTGTTGGCTTTTGG
GCCAGCTTTAGTGGCTGATGTCCAAGGCGAGCTTGAGGCCTCAAGGGAGATCAGGAATGGAACA
GGTGGGACGGCCAGCGCCTGTGCGAGGCCTGAGATGGGGAGAAGGATTGAAGAGGAAGATGGTA
TATTGGTATATTGCAAAAATAATAGAAAGAAAAAGAAAACTAACAGAAGTTTGGATGGAGTGCT
AAAATCAGTAACGGAGGTAAACTTTCAATGCTATTAAAGTGAACCGGAACCTTTCGATGCTATA
AAACCAAAAACAAAAACTTTCGGTGCTCTATAACCAATTTTGCCATAATAAAACCTAGGACTAG
ATGGGGCATTTGCTAGTACTAGATACATTGTACTAGGAAACGTCACATCCGGTCCTAGATTCTT
ATATTTTGGGACTGAGGTAAGTATCAAACTGGTACATAATGATCATCTAGGGTCAAATCTTAAA
CATGCCACCTAGACGTTGGTAACGTTAAGTATTAGGAACCCTTGGAATTGCAATGGGACAACGT
GCATACAAGTCACCATACAAATACGCAGAAGAGCCCATTAGAATAGGGTAAATACACAACTAGC
TATAAGATACATCTAGCAGTTTGCACTTTGCCCAGCCAAATCACTCTCTTCCCAGGGTACCCCT
TCCTTTCTTTCTCTTGCATGACTAGTGGACCACATCAGGTTTATTTGGCAAACTGATCTTAGCA
AACTCAGGTACCATATCTAAATGGACGCCGGGTAAACGAAATACGAAAGAATAAATGCATCTTC
AGCTTGCCAAAGCGATTTTTGGCATGGAATTGATTGTCACTGGTTTTAACTGTTGGAAGGTGCA
AATTCAACAGTTTGAGTTGAGAAGTGTTTTCTGGACTCACACGAAAGTAGAAGGGGAGTAGAAT
GGACTCCTGAATAAAAAATTGGAAGCTTTACACAAAAAAGTGGAAATCTTTCAGAGAATATATC
TTACTTTCATGAATGAAATTATCAAACCAACAGAAGTATGAAATGCACAAACTTACAGCATTTT
GATAGGCTTTGACTGAATGATGAAGCTTCATGTGATCCCAGGATCCACTCACGAAAAAGCTTGT
CAGATATGCATTACCCAGATTAT
						
					

			
		

Sequences
Splice junction sequence	CTTACAGCATTTTGATAGGCTTTGACTGAATGATGAAGCTTCATGTGATCCCAGGATCCACTCA CGAAAAAGCTTGTCAGATATGCATTACCCAGATTATcttcattgcactatctagcttatcaagg agactgatgatcttctgaacttctgtatcagcaccaagaccaggatcttttaaagctgcagctt caaatcca
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: 287 Transcript exons: 17618297-17618434,17618544-17618597,17620401-17620495 CTTCATTGCACTATCTAGCTTATCAAGGAGACTGATGATCTTCTGAACTTCTGTATCAGCACCA AGACCAGGATCTTTTAAAGCTGCAGCTTCAAATCCACGAAGTGCTCTTTCATAGTTCTCTAGGT ATTTGTCAGCTGTGGCACAATTATAGTAGAGGTCTGGATTACATTTCGTAGTCTCATCCTTTTC AGCATTTTGATAGGCTTTGACTGAATGATGAAGCTTCATGTGATCCCAGGATCCACTCACGAAA AAGCTTGTCAGATATGCATTACCCAGATTAT
Genomic sequence	CTTCATTGCACTATCTAGCTTATCAAGGAGACTGATGATCTTCTGAACTTCTGTATCAGCACCA AGACCAGGATCTTTTAAAGCTGCAGCTTCAAATCCACGAAGTGCTCTTTCATAGTTCTCTAGGT ATTTGTCAGCCTGGAAGGAACCAAAACAAATAACATATTACACAAAAGGATGTCCTATACTTGG CGGAAAATTCAGTTGATTTAGCTACCCAGTTTAAGTTATGATCCGGGTTACTCACTGTGGCACA ATTATAGTAGAGGTCTGGATTACATTTCGTAGTCTCATCCTTTTCCTGAGCATAAAATGAATTC AATTATATTCATATAATAAAACAAACAAGGCCACCCAACACACGCCCACCCAAAATCAGGAGGT GGGGGTGGGGATGGGGGTGGGGGTGAGGGGGGTCAACTCTAGCACCCATTACCTAACCGTTCGC TTTGCAGACTCTAATTAGTAACTACTCCCTCCATCCGAAAATAATAATAGGGAAAATTGATTAT AGAGCACCAAAAGTTTCTGTTTTTGGTTTTATAGCACCAAAAGGTTCCGGTTCATTTTAGTAGC ATTGCAAGTTACCTCCGTTACTGATTTTGGCACTATCCAAATTGACGTTATCTCCCCCACCTTG CCCCGTCTATCTTCTTCATCCTCCCCAAAAGGTGAGTTCCATTCCATGGCACAGCTGTAGAGAC GAGCAGGAGGGGCGCAGCACTTCGTCAAGCTCGAGTGCAGTGCAAGCAGACGAGATCTGGGGTG CCAGTGGACATCATCACAAGCTGCAGGACGCACGTTCAGCTGTCCAGGTGAGCTCATGTATGGT CGTGCATCCAGTCTAGCTTGTGGACTTGTGGTTCAGCAACATTGTTCTGCCTGTATGATACCCA CCCTGCTATACTTCAGTTTGTGCACATTTTTTATCCATGAAATTGGGATTGGCTAACAAGGCAA GAGGATTGATGTTGGAACAGCGTTCATCAGCAAGTTCCAGTCTTCCAGAGATGAAGTACTAGCT TGTGTATGGCGTGGTGATGGTGCAGGGACGACCGGAAGACAGGCTCGAGGGTGTTGGCTTTTGG GCCAGCTTTAGTGGCTGATGTCCAAGGCGAGCTTGAGGCCTCAAGGGAGATCAGGAATGGAACA GGTGGGACGGCCAGCGCCTGTGCGAGGCCTGAGATGGGGAGAAGGATTGAAGAGGAAGATGGTA TATTGGTATATTGCAAAAATAATAGAAAGAAAAAGAAAACTAACAGAAGTTTGGATGGAGTGCT AAAATCAGTAACGGAGGTAAACTTTCAATGCTATTAAAGTGAACCGGAACCTTTCGATGCTATA AAACCAAAAACAAAAACTTTCGGTGCTCTATAACCAATTTTGCCATAATAAAACCTAGGACTAG ATGGGGCATTTGCTAGTACTAGATACATTGTACTAGGAAACGTCACATCCGGTCCTAGATTCTT ATATTTTGGGACTGAGGTAAGTATCAAACTGGTACATAATGATCATCTAGGGTCAAATCTTAAA CATGCCACCTAGACGTTGGTAACGTTAAGTATTAGGAACCCTTGGAATTGCAATGGGACAACGT GCATACAAGTCACCATACAAATACGCAGAAGAGCCCATTAGAATAGGGTAAATACACAACTAGC TATAAGATACATCTAGCAGTTTGCACTTTGCCCAGCCAAATCACTCTCTTCCCAGGGTACCCCT TCCTTTCTTTCTCTTGCATGACTAGTGGACCACATCAGGTTTATTTGGCAAACTGATCTTAGCA AACTCAGGTACCATATCTAAATGGACGCCGGGTAAACGAAATACGAAAGAATAAATGCATCTTC AGCTTGCCAAAGCGATTTTTGGCATGGAATTGATTGTCACTGGTTTTAACTGTTGGAAGGTGCA AATTCAACAGTTTGAGTTGAGAAGTGTTTTCTGGACTCACACGAAAGTAGAAGGGGAGTAGAAT GGACTCCTGAATAAAAAATTGGAAGCTTTACACAAAAAAGTGGAAATCTTTCAGAGAATATATC TTACTTTCATGAATGAAATTATCAAACCAACAGAAGTATGAAATGCACAAACTTACAGCATTTT GATAGGCTTTGACTGAATGATGAAGCTTCATGTGATCCCAGGATCCACTCACGAAAAAGCTTGT CAGATATGCATTACCCAGATTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002096* osi_circ_009539 						
					
						PMCS
						0.31987035

Conservation Information
Conserved circRNAs	osi_circ_002096* osi_circ_009539
PMCS	0.31987035

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17620426-17618339(+)
17620441-17620474(-)
						
						Potential amino acid sequence
						
							MMKLHVIPGSTHEKACQICITQIIFIALSSLSRRLMIF*(+)
MKLHHSVKAYQNAEKDETTKCNPDLYYNCATADKYLENYERALRGFEAAALKDPGLGADTEVQK
IISLLDKLDSAMKIIWVMHI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17620426-17618339(+) 17620441-17620474(-)
Potential amino acid sequence	MMKLHVIPGSTHEKACQICITQIIFIALSSLSRRLMIF(+) MKLHHSVKAYQNAEKDETTKCNPDLYYNCATADKYLENYERALRGFEAAALKDPGLGADTEVQK IISLLDKLDSAMKIIWVMHI(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os01g0506200_circ_g.4

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