Plant Circular RNA Database

Detail information of Os01g0929200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0929200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_005651
					
						Alias
						Os_ciR6418
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 40787963-40790347  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0929200						
					
						Parent gene annotation
						
							Serine/threonine protein kinase domain containing protein. (Os01
t0929200-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0929200_circ_g.1 Os01g0929200_circ_g.3 Os01g0929200_circ_g.4 Os01g0929200_circ_g.5 						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os01t0929200-01:5

General Information
CircRNA Name	Os01g0929200_circ_g.2
ID in PlantcircBase	osa_circ_005651
Alias	Os_ciR6418
Organism	Oryza sativa
Position	chr1: 40787963-40790347 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0929200
Parent gene annotation	Serine/threonine protein kinase domain containing protein. (Os01 t0929200-01)
Parent gene strand	-
Alternative splicing	Os01g0929200_circ_g.1 Os01g0929200_circ_g.3 Os01g0929200_circ_g.4 Os01g0929200_circ_g.5
Support reads	2/1
Tissues	root/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	Os01t0929200-01:5

			
						 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  
						
							ATCTCTCTCTCTCTCTCTCCTCAATCTCTTCCTCTTTCACAACCACTTGCTCCAATCATATCAA
AGGAAGCAGAAGCAACACCTACTTGGTTCAGGAGAActttagcagctccatgagcaatggaaag
tctctgcttgaattctagctttacacctggagcatggctgctacctgtgggacaccaaaaaaaa
aatgatat

									
								

					

						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: 834
Transcript exons: 40787963-40788034,40788126-40788252,40788471-40788652,40
788740-40788972,40790128-40790347
CTTTAGCAGCTCCATGAGCAATGGAAAGTCTCTGCTTGAATTCTAGCTTTACACCTGGAGCATG
GCTGCTACCATGTAAATGCGTAGAAACGCTGCCATTGGGAACATACTCGTAAACAAGCATCTGC
ATTCCATTCTCCTGGCAGTACCCCAAAAGGTTTACAAGGTTACGATGACGGATCGACGATAGAT
AATTAACCTCATGAATAAATTCATGGCTAGGAGGAGAATGTCGCTTTTTAATGGCTACAATTGT
GCCATCCTGGAGTAAACCCTTGTAAACCTCTCCAAACATTCCATGTCCAATAAGATTCACATTG
CTGAAGTTCCTTGTAGCTGAACTTAGCTCCTCCAGAGTCATACATCTTGCTCCCTGCAGCTCTG
GTTGAGCTGGACTGGATGAACTACTTTCCGAAGAGTCTGAAGCTCTTCTGCGGTGCCGGAGGAA
AAGTACTATAAGAAATATGGCGGCGCCTACTAATGCCAAGAATCCTGCAGCACCTGCTAGAGAT
GCTGCAAGAATTGCTGACATCTAGTATGAAATCCCCTTCTTCAGAATGGACTGTCAATGTTTGT
AGTGATAGTGATGAAGTTTGTAATGGTAGACATATAACCTGAAGATTGGACGGGTATTTTGGCG
TCATTTCCATCCAAGCACAACGGCAGCATCAAATGCAGAATCCATGATGCAGACAACCAACTTG
TTCTTATCAGTTCTTGAATTCGCCTTCTTAATCTCTCTCTCTCTCTCTCCTCAATCTCTTCCTC
TTTCACAACCACTTGCTCCAATCATATCAAAGGAAGCAGAAGCAACACCTACTTGGTTCAGGAG
AA
						
					

						Genomic sequence
						
							CTTTAGCAGCTCCATGAGCAATGGAAAGTCTCTGCTTGAATTCTAGCTTTACACCTGGAGCATG
GCTGCTACCTGTGGGACACCAAAAAAAAAATGATATTAGCACCTATGATGCTCTTGTTGAACAC
GGTAACAGTGTTAGGAAAACACAATGAAAAATCACCATGTAAATGCGTAGAAACGCTGCCATTG
GGAACATACTCGTAAACAAGCATCTGCATTCCATTCTCCTGGCAGTACCCCAAAAGGTTTACAA
GGTTACGATGACGGATCGACGATAGATAATTAACCTTCAGACAAAAGGACAATTCATGAGTAAA
TGGTTACTGTCTTGCAAGTTCTTTTTTCTAAAATATTTTGAATTATGTGGAGAAAAAATGGTTT
GACTTTTTTTAGTGGAAAAGGAAAGCAGTTTTATTTCTTTCCTCTTGCATGCTTACACCACTAT
ATCAATTTAGAACCAATGGCTACTTTAGAGAATCTGTGGATAAGGAGAAAATTTTGGCACCTCA
TGAATAAATTCATGGCTAGGAGGAGAATGTCGCTTTTTAATGGCTACAATTGTGCCATCCTGGA
GTAAACCCTTGTAAACCTCTCCAAACATTCCATGTCCAATAAGATTCACATTGCTGAAGTTCCT
TGTAGCTGAACTTAGCTCCTCCAGAGTCATACATCTTGCTCCCTGCAGCTCTGGTATATATATA
GAATGCTGTTTGTCAAGTTAGAAACAGAATCATTGAAATTCAGAGCCTCTTGAGATGATATTTT
AAGCGGTACCTGGTTGAGCTGGACTGGATGAACTACTTTCCGAAGAGTCTGAAGCTCTTCTGCG
GTGCCGGAGGAAAAGTACTATAAGAAATATGGCGGCGCCTACTAATGCCAAGAATCCTGCAGCA
CCTGCTAGAGATGCTGCAAGAATTGCTGACATCTAGTATGAAATCCCCTTCTTCAGAATGGACT
GTCAATGTTTGTAGTGATAGTGATGAAGTTTGTAATGGTAGACATATAACCTAAAGAGAAGTAC
ATTCTTTGAGATCATAAGAACAATAATTCAGACATTGCTGAACCAAAAGTGCAACCTTACACAA
TAAACTAAATAATCTTAGAACACTAACAAAAAAAATGCACATTGTATGGATGGATGGATCGATC
AAGTGATTTACTTCAATGATAATATGTTTGACCCCAAAATTCTGGACTGATTGTCAGCACATGA
CATATTTATTTAATGTTCTAATGGAGGGTGGGATAAAATTATGCATGGCTGATATGGTTGACTT
CATCAATTCTTTGGTTCATCAGACATGTTTAATTCTTGTAGGTTTTTAGCAGCAGTTGTAAATT
AGGAAAGTGCAAGACAATGCTGACATCAGTAGTATGAACCAAGCCATCATTACTACATAAGCCC
AAAGAAGGACAACTGTGATATCAAATGGAACAACGCGGGTTTGTCGGACATTCGGAGTTAATAT
TGCGCAATAAAATAATTGCCTTTGGCTTTTTTTTTCATGCCAATCCCTTTAATTGAAATTTTCC
GCGCCATAAATATGTTTGAAGAAACCATCTCTACACTACTAAATTCTCATGCTACACAAGCACA
AGGAATCTCACAAATTCAAAGGTCTGTACTAAATTGGGGGGGGGGGGGGACAAAATGACTATAT
GCGAAAACAAATTATTGGCTTCAGCATTGTATAAAAATAGAGATCCTCTTCTACTAAATTAAGG
AAATACTAGTATGAATGAGCTGCACGTCTCTCTTGGACAGTTAGGTCATGAGCCATTTCAAGCT
GTAGGCATAGGAGTTGGCTTCATTATGTGTAAGAAGCAAGTTATAAAAATCTACCATTTTTTTT
TATTCAACAATGTGGCATTGGATTTCTGGTTATGAAATCATAGCAAACACGATGTTGGAATCTG
ATAAGGAGTCCCAATTTGTGAAAATGGTTAGCATAAAGAATAATGAATATGCAGGGTGATCCAT
AGCCATGATCAATGCATGAATGCAGATAATCTGATACCATCAAATCGTTCACACTTGATCTCCA
AAATAAACAGCAATTCTACCTAATCTCGGATCATGAAAAAAAAACAGAAAATGCAAAGATGCAA
ACTTTAACAAAATTCCCACAAATTTGTGACTGTTCAGACCCAAGAACACGTACCTGAAGATTGG
ACGGGTATTTTGGCGTCATTTCCATCCAAGCACAACGGCAGCATCAAATGCAGAATCCATGATG
CAGACAACCAACTTGTTCTTATCAGTTCTTGAATTCGCCTTCTTAATCTCTCTCTCTCTCTCTC
CTCAATCTCTTCCTCTTTCACAACCACTTGCTCCAATCATATCAAAGGAAGCAGAAGCAACACC
TACTTGGTTCAGGAGAA
						
					

			
		

Sequences
Splice junction sequence	ATCTCTCTCTCTCTCTCTCCTCAATCTCTTCCTCTTTCACAACCACTTGCTCCAATCATATCAA AGGAAGCAGAAGCAACACCTACTTGGTTCAGGAGAActttagcagctccatgagcaatggaaag tctctgcttgaattctagctttacacctggagcatggctgctacctgtgggacaccaaaaaaaa aatgatat
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: 834 Transcript exons: 40787963-40788034,40788126-40788252,40788471-40788652,40 788740-40788972,40790128-40790347 CTTTAGCAGCTCCATGAGCAATGGAAAGTCTCTGCTTGAATTCTAGCTTTACACCTGGAGCATG GCTGCTACCATGTAAATGCGTAGAAACGCTGCCATTGGGAACATACTCGTAAACAAGCATCTGC ATTCCATTCTCCTGGCAGTACCCCAAAAGGTTTACAAGGTTACGATGACGGATCGACGATAGAT AATTAACCTCATGAATAAATTCATGGCTAGGAGGAGAATGTCGCTTTTTAATGGCTACAATTGT GCCATCCTGGAGTAAACCCTTGTAAACCTCTCCAAACATTCCATGTCCAATAAGATTCACATTG CTGAAGTTCCTTGTAGCTGAACTTAGCTCCTCCAGAGTCATACATCTTGCTCCCTGCAGCTCTG GTTGAGCTGGACTGGATGAACTACTTTCCGAAGAGTCTGAAGCTCTTCTGCGGTGCCGGAGGAA AAGTACTATAAGAAATATGGCGGCGCCTACTAATGCCAAGAATCCTGCAGCACCTGCTAGAGAT GCTGCAAGAATTGCTGACATCTAGTATGAAATCCCCTTCTTCAGAATGGACTGTCAATGTTTGT AGTGATAGTGATGAAGTTTGTAATGGTAGACATATAACCTGAAGATTGGACGGGTATTTTGGCG TCATTTCCATCCAAGCACAACGGCAGCATCAAATGCAGAATCCATGATGCAGACAACCAACTTG TTCTTATCAGTTCTTGAATTCGCCTTCTTAATCTCTCTCTCTCTCTCTCCTCAATCTCTTCCTC TTTCACAACCACTTGCTCCAATCATATCAAAGGAAGCAGAAGCAACACCTACTTGGTTCAGGAG AA
Genomic sequence	CTTTAGCAGCTCCATGAGCAATGGAAAGTCTCTGCTTGAATTCTAGCTTTACACCTGGAGCATG GCTGCTACCTGTGGGACACCAAAAAAAAAATGATATTAGCACCTATGATGCTCTTGTTGAACAC GGTAACAGTGTTAGGAAAACACAATGAAAAATCACCATGTAAATGCGTAGAAACGCTGCCATTG GGAACATACTCGTAAACAAGCATCTGCATTCCATTCTCCTGGCAGTACCCCAAAAGGTTTACAA GGTTACGATGACGGATCGACGATAGATAATTAACCTTCAGACAAAAGGACAATTCATGAGTAAA TGGTTACTGTCTTGCAAGTTCTTTTTTCTAAAATATTTTGAATTATGTGGAGAAAAAATGGTTT GACTTTTTTTAGTGGAAAAGGAAAGCAGTTTTATTTCTTTCCTCTTGCATGCTTACACCACTAT ATCAATTTAGAACCAATGGCTACTTTAGAGAATCTGTGGATAAGGAGAAAATTTTGGCACCTCA TGAATAAATTCATGGCTAGGAGGAGAATGTCGCTTTTTAATGGCTACAATTGTGCCATCCTGGA GTAAACCCTTGTAAACCTCTCCAAACATTCCATGTCCAATAAGATTCACATTGCTGAAGTTCCT TGTAGCTGAACTTAGCTCCTCCAGAGTCATACATCTTGCTCCCTGCAGCTCTGGTATATATATA GAATGCTGTTTGTCAAGTTAGAAACAGAATCATTGAAATTCAGAGCCTCTTGAGATGATATTTT AAGCGGTACCTGGTTGAGCTGGACTGGATGAACTACTTTCCGAAGAGTCTGAAGCTCTTCTGCG GTGCCGGAGGAAAAGTACTATAAGAAATATGGCGGCGCCTACTAATGCCAAGAATCCTGCAGCA CCTGCTAGAGATGCTGCAAGAATTGCTGACATCTAGTATGAAATCCCCTTCTTCAGAATGGACT GTCAATGTTTGTAGTGATAGTGATGAAGTTTGTAATGGTAGACATATAACCTAAAGAGAAGTAC ATTCTTTGAGATCATAAGAACAATAATTCAGACATTGCTGAACCAAAAGTGCAACCTTACACAA TAAACTAAATAATCTTAGAACACTAACAAAAAAAATGCACATTGTATGGATGGATGGATCGATC AAGTGATTTACTTCAATGATAATATGTTTGACCCCAAAATTCTGGACTGATTGTCAGCACATGA CATATTTATTTAATGTTCTAATGGAGGGTGGGATAAAATTATGCATGGCTGATATGGTTGACTT CATCAATTCTTTGGTTCATCAGACATGTTTAATTCTTGTAGGTTTTTAGCAGCAGTTGTAAATT AGGAAAGTGCAAGACAATGCTGACATCAGTAGTATGAACCAAGCCATCATTACTACATAAGCCC AAAGAAGGACAACTGTGATATCAAATGGAACAACGCGGGTTTGTCGGACATTCGGAGTTAATAT TGCGCAATAAAATAATTGCCTTTGGCTTTTTTTTTCATGCCAATCCCTTTAATTGAAATTTTCC GCGCCATAAATATGTTTGAAGAAACCATCTCTACACTACTAAATTCTCATGCTACACAAGCACA AGGAATCTCACAAATTCAAAGGTCTGTACTAAATTGGGGGGGGGGGGGGACAAAATGACTATAT GCGAAAACAAATTATTGGCTTCAGCATTGTATAAAAATAGAGATCCTCTTCTACTAAATTAAGG AAATACTAGTATGAATGAGCTGCACGTCTCTCTTGGACAGTTAGGTCATGAGCCATTTCAAGCT GTAGGCATAGGAGTTGGCTTCATTATGTGTAAGAAGCAAGTTATAAAAATCTACCATTTTTTTT TATTCAACAATGTGGCATTGGATTTCTGGTTATGAAATCATAGCAAACACGATGTTGGAATCTG ATAAGGAGTCCCAATTTGTGAAAATGGTTAGCATAAAGAATAATGAATATGCAGGGTGATCCAT AGCCATGATCAATGCATGAATGCAGATAATCTGATACCATCAAATCGTTCACACTTGATCTCCA AAATAAACAGCAATTCTACCTAATCTCGGATCATGAAAAAAAAACAGAAAATGCAAAGATGCAA ACTTTAACAAAATTCCCACAAATTTGTGACTGTTCAGACCCAAGAACACGTACCTGAAGATTGG ACGGGTATTTTGGCGTCATTTCCATCCAAGCACAACGGCAGCATCAAATGCAGAATCCATGATG CAGACAACCAACTTGTTCTTATCAGTTCTTGAATTCGCCTTCTTAATCTCTCTCTCTCTCTCTC CTCAATCTCTTCCTCTTTCACAACCACTTGCTCCAATCATATCAAAGGAAGCAGAAGCAACACC TACTTGGTTCAGGAGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.227681454

Conservation Information
Conserved circRNAs	NA
PMCS	0.227681454

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							40790198-40787976(+)
40788892-40790270(-)
						
						Potential amino acid sequence
						
							MMQTTNLFLSVLEFAFLISLSLSPQSLPLSQPLAPIISKEAEATPTWFRRTLAAP*(+)
MSAILAASLAGAAGFLALVGAAIFLIVLFLRHRRRASDSSESSSSSPAQPELQGARCMTLEELS
SATRNFSNVNLIGHGMFGEVYKGLLQDGTIVAIKKRHSPPSHEFIHEVNYLSSIRHRNLVNLLG
YCQENGMQMLVYEYVPNGSVSTHLHGSSHAPGVKLEFKQRLSIAHGAAKVLLNQVGVASASFDM
IGASGCERGRD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	40790198-40787976(+) 40788892-40790270(-)
Potential amino acid sequence	MMQTTNLFLSVLEFAFLISLSLSPQSLPLSQPLAPIISKEAEATPTWFRRTLAAP(+) MSAILAASLAGAAGFLALVGAAIFLIVLFLRHRRRASDSSESSSSSPAQPELQGARCMTLEELS SATRNFSNVNLIGHGMFGEVYKGLLQDGTIVAIKKRHSPPSHEFIHEVNYLSSIRHRNLVNLLG YCQENGMQMLVYEYVPNGSVSTHLHGSSHAPGVKLEFKQRLSIAHGAAKVLLNQVGVASASFDM IGASGCERGRD(-)
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 Os01g0929200_circ_g.2

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