Plant Circular RNA Database

Detail information of Os06g0110100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0110100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_029353
					
						Alias
						Os_ciR3122
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 588152-591149  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0110100						
					
						Parent gene annotation
						
							OSEYA1. (Os06t0110100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0110100_circ_g.2 Os06g0110100_circ_g.3 						
					
						Support reads
						4/1
					
						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  
						
							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
						Os06t0110100-01:4

General Information
CircRNA Name	Os06g0110100_circ_g.1
ID in PlantcircBase	osa_circ_029353
Alias	Os_ciR3122
Organism	Oryza sativa
Position	chr6: 588152-591149 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0110100
Parent gene annotation	OSEYA1. (Os06t0110100-01)
Parent gene strand	+
Alternative splicing	Os06g0110100_circ_g.2 Os06g0110100_circ_g.3
Support reads	4/1
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	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	Os06t0110100-01:4

			
						 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  
						
							CATTCAAGCATCAATTGCATAGTTACATCAGGGTCCCTGATTCCAAGTCTTGCCAAATGTTTGC
TCTATCGTCTGGATGATGTGGTTGCATTCGAGAATGgagtgaaatggatggggttgtcgccgct
tcggctgatgccaccagggacgagattaagattatgaatgtgtacatatgggacatggatgaaa
ccctcatt

									
								

					

						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: 656
Transcript exons: 588152-588389,588985-589152,590132-590225,590994-591149
GAGTGAAATGGATGGGGTTGTCGCCGCTTCGGCTGATGCCACCAGGGACGAGATTAAGATTATG
AATGTGTACATATGGGACATGGATGAAACCCTCATTCTGCTCAAGTCGCTGCTGGATGGCTCGT
ATGCTGGTGCCTTTGATGGCCTCAAGGACCATGATAAGAGTGTTGATATAGGGAAGAGGTGGGA
GAATCTCATTCTGGAACTCTGTGACGAGCATTTCTTCTATGAGGAGATTGAGAATTACAATGAA
CCCTTTCTCAGTGCTGTCAAAGAATATGATGATGGGAAAGACTTGACAACATATGATTTTGAAG
CTGACTGCTTTAGTTCGCCTTATGATGATCTGAATAAAAGGAAGCTTGCTTACAGGCACCGTGC
TATTGGAGAGAAGTATACAAAGGGTTTGGAAAAAATTCTGGACCACCACATGATCAAAGTCTGG
AATGATCTGTATAGCGCGACCGACAAATACACCGATGGTTGGCTTTCTTCAGCTCATAAGTTGT
TGGAAGAAGCAATGGGTAAATCAACAGCTGAGTCCACTGCCAAACATTCAAGCATCAATTGCAT
AGTTACATCAGGGTCCCTGATTCCAAGTCTTGCCAAATGTTTGCTCTATCGTCTGGATGATGTG
GTTGCATTCGAGAATG
						
					

						Genomic sequence
						
							GAGTGAAATGGATGGGGTTGTCGCCGCTTCGGCTGATGCCACCAGGGACGAGATTAAGATTATG
AATGTGTACATATGGGACATGGATGAAACCCTCATTCTGCTCAAGTCGCTGCTGGATGGCTCGT
ATGCTGGTGCCTTTGATGGCCTCAAGGACCATGATAAGAGTGTTGATATAGGGAAGAGGTGGGA
GAATCTCATTCTGGAACTCTGTGACGAGCATTTCTTCTATGAGGAGGTCAGCTCCACTCCACTA
CTATCTGCTGGCTACTTGCCATGTTACTATATATTTGTAGGCACATTCTTGGGTAGATGTGATT
GATTTCCTTTTTAGTAATAGAAACAAGTTGAAATTCCCGCGCAAAGTTGCGCGGGTCTACTTGA
AATAGAATCGTATCTGTTAAATGTTTGTAGCCATTAATCTAGGCCGTTATAATTTGGTCCCACC
ATGATGGATGGTGGAGATCTTTCTCTTTTCCGCCGGCCAACGTGGTGCTTTATATGCCTTTAGA
GCAAACGTGGTAGCTCCTTTTAGTGAGCTCTCAATAATATAACGGATAGATAGATACGACAACT
GTACCAGAAATAGATAGAACGTATGATAAAGTGTTTCTACAAATTGGACTGTCCATGCCAGTAT
CTTCTTTTTGTCACTGTACTTGTCGTGTAGTTATCTTTTTGGAATCCATTTGTACGTGAAATCT
TGCTTCATATAATTCATCTAGCTGGGCTCTGCACTTAAGTGTCTGATGTTTCATTTAATGCATG
GGTAAACCACTCTTTTTTATGTCATATTTGTTAACTGATCATTTTTGTTCTCACACAAAATGCA
GATTGAGAATTACAATGAACCCTTTCTCAGTGCTGTCAAAGAATATGATGATGGGAAAGACTTG
ACAACATATGATTTTGAAGCTGACTGCTTTAGTTCGCCTTATGATGATCTGAATAAAAGGAAGC
TTGCTTACAGGCACCGTGCTATTGGAGAGAAGTATACAAAGGTATCACAGGAATTACCTTCTCT
TACATCCACCCCATATTGCTTTCTCTAGGCCTTTTTTCAGGGGCTAGGATGGTGAGGGATCCTG
GCCATCCACCTGATTAGAATAACTTTCATTCACTTCCATATTGGCCCATCCAAACAGGCCCTAA
GGTTCATGCCCTCTGTCAGGCATATTTTGAATGTACCTTTTAAGAATGAACCTTCTAAATATGG
ATGTGGTGCAGTGCTCAGGTCACTTCTCTAGCGAAACTGTGATGCTTCATTCCATTTAGTAAGA
ATATTGTTACTGTTCAAGATTTGATACCATGGAGTGTCTGTGTCTGGTATGGATCAGCACACTT
TTCTGGTGTTTGATCAATCATTGTTAGTTGCTATAATGCTTGGACTTTATATTAAGAAATAGAA
TAGATTCTTTATGACGTCTAGGAATAAATCGTAGCAGGGTGCTAACTGAAGTATGTTGCTTTTA
TCTTCTTCTTTTTTTTGCGGGATGTTCCATTGTGAGCTTTACGCTGAGCACTGGTCTGTACTTG
TAATAGAGTTGCCACACACAGCAAGAAAGAGGTTTGTTCTTGGGAAGTATGTAGGTTAATTTGT
ATCAAGGCGACAGGGGTGGGGAGTTATGTGGGGATTATAGTGGATATTCAGTTCTTTGAAATGA
CTTGTCCTCCTCAGTGATTCTCTGGGACTTCATGTTTTGGTTCAGGCTATTTTGTTCAGAGGTT
TTGATCTTAGCGAAACTTTATTTAGGAACAATAATAAGAAATAGGGCCTTAGAAGTCATAAGTG
CTGTGCTGGGACTTTATATAGAGCATCATCATTAGATATTCACTTTTCAGCTATCTATTTTGTA
GAGCTCTTCTGTTTTCATTTCGTTGTTATTATTTAGAACTTTTTCATGCCAGTACTAATTTCTA
ATATTTTGTCAATTTCATGTTTGTAATGAGTAATTGAACTTCTTTGGTGTTTCTTCTCAGGGTT
TGGAAAAAATTCTGGACCACCACATGATCAAAGTCTGGAATGATCTGTATAGCGCGACCGACAA
ATACACCGATGGTTGGCTTTCTTCAGGTATTCTAACTCGTACTTATTTTCCTTTAATATTTAGA
AAAAAAGGACTAGTTATCTGATTTTTGTTGGCAGAAAAAAATACTTTGGCCTTCAGTTCTGTTG
ATGAACTAAGTATGACAACAAAGTTGTAAGGGTTTTACAACCACAAAGAATCTTCTAGAGCCTT
ATGTTGCATAATTGATGGTACTCCAAATTGTCAATGCCGAAAGAACATGCTTCTGATATTTCTA
CTTTCAACCAGTGGGATTAAATTTGGGCTGGCATTTTTGTTTATGGACTATATAATTGTTATCA
CCAAAGCTATAAGAGTTTACAACTAAGAGGACCTGCAACAACTTAACAATGCATGTACCAAAAT
AATGTCCCTTCTGCTTGATACAATGTTTCAAAAAGCGATATGTGGTTTTGTGTGGTTTTGTAGC
ACTTATGTGGCATAATCAGATGCTTATGTGGTATAATCGGGTGCTTATGCGGCTTAAGCTGTAC
AAGGTTGGGGCATCCGTTCCTTGTATGCGGCCTTGTACGTGGCCTTGTAGACCTTTTTTTCAAA
ACACTGGCTTGATGTATGCTTTTAATCACTGTAGGTTGCCACCTCAGAATACATGTTCACTGAA
AGAAAAGTCAGGAGTTTTTAAGTTTTTCTCTGTGTACTATGCGTTAGAACTTTTGAGAACAAGA
TTATATTGTCTTAACTGTTCTTTCTTTAGCCAAATTCAACAATCAGTTTTGTTGCTTCAGTGCT
CAATTGCCTTTTCTCTTGTTATGCAGCTCATAAGTTGTTGGAAGAAGCAATGGGTAAATCAACA
GCTGAGTCCACTGCCAAACATTCAAGCATCAATTGCATAGTTACATCAGGGTCCCTGATTCCAA
GTCTTGCCAAATGTTTGCTCTATCGTCTGGATGATGTGGTTGCATTCGAGAATG
						
					

			
		

Sequences
Splice junction sequence	CATTCAAGCATCAATTGCATAGTTACATCAGGGTCCCTGATTCCAAGTCTTGCCAAATGTTTGC TCTATCGTCTGGATGATGTGGTTGCATTCGAGAATGgagtgaaatggatggggttgtcgccgct tcggctgatgccaccagggacgagattaagattatgaatgtgtacatatgggacatggatgaaa ccctcatt
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: 656 Transcript exons: 588152-588389,588985-589152,590132-590225,590994-591149 GAGTGAAATGGATGGGGTTGTCGCCGCTTCGGCTGATGCCACCAGGGACGAGATTAAGATTATG AATGTGTACATATGGGACATGGATGAAACCCTCATTCTGCTCAAGTCGCTGCTGGATGGCTCGT ATGCTGGTGCCTTTGATGGCCTCAAGGACCATGATAAGAGTGTTGATATAGGGAAGAGGTGGGA GAATCTCATTCTGGAACTCTGTGACGAGCATTTCTTCTATGAGGAGATTGAGAATTACAATGAA CCCTTTCTCAGTGCTGTCAAAGAATATGATGATGGGAAAGACTTGACAACATATGATTTTGAAG CTGACTGCTTTAGTTCGCCTTATGATGATCTGAATAAAAGGAAGCTTGCTTACAGGCACCGTGC TATTGGAGAGAAGTATACAAAGGGTTTGGAAAAAATTCTGGACCACCACATGATCAAAGTCTGG AATGATCTGTATAGCGCGACCGACAAATACACCGATGGTTGGCTTTCTTCAGCTCATAAGTTGT TGGAAGAAGCAATGGGTAAATCAACAGCTGAGTCCACTGCCAAACATTCAAGCATCAATTGCAT AGTTACATCAGGGTCCCTGATTCCAAGTCTTGCCAAATGTTTGCTCTATCGTCTGGATGATGTG GTTGCATTCGAGAATG
Genomic sequence	GAGTGAAATGGATGGGGTTGTCGCCGCTTCGGCTGATGCCACCAGGGACGAGATTAAGATTATG AATGTGTACATATGGGACATGGATGAAACCCTCATTCTGCTCAAGTCGCTGCTGGATGGCTCGT ATGCTGGTGCCTTTGATGGCCTCAAGGACCATGATAAGAGTGTTGATATAGGGAAGAGGTGGGA GAATCTCATTCTGGAACTCTGTGACGAGCATTTCTTCTATGAGGAGGTCAGCTCCACTCCACTA CTATCTGCTGGCTACTTGCCATGTTACTATATATTTGTAGGCACATTCTTGGGTAGATGTGATT GATTTCCTTTTTAGTAATAGAAACAAGTTGAAATTCCCGCGCAAAGTTGCGCGGGTCTACTTGA AATAGAATCGTATCTGTTAAATGTTTGTAGCCATTAATCTAGGCCGTTATAATTTGGTCCCACC ATGATGGATGGTGGAGATCTTTCTCTTTTCCGCCGGCCAACGTGGTGCTTTATATGCCTTTAGA GCAAACGTGGTAGCTCCTTTTAGTGAGCTCTCAATAATATAACGGATAGATAGATACGACAACT GTACCAGAAATAGATAGAACGTATGATAAAGTGTTTCTACAAATTGGACTGTCCATGCCAGTAT CTTCTTTTTGTCACTGTACTTGTCGTGTAGTTATCTTTTTGGAATCCATTTGTACGTGAAATCT TGCTTCATATAATTCATCTAGCTGGGCTCTGCACTTAAGTGTCTGATGTTTCATTTAATGCATG GGTAAACCACTCTTTTTTATGTCATATTTGTTAACTGATCATTTTTGTTCTCACACAAAATGCA GATTGAGAATTACAATGAACCCTTTCTCAGTGCTGTCAAAGAATATGATGATGGGAAAGACTTG ACAACATATGATTTTGAAGCTGACTGCTTTAGTTCGCCTTATGATGATCTGAATAAAAGGAAGC TTGCTTACAGGCACCGTGCTATTGGAGAGAAGTATACAAAGGTATCACAGGAATTACCTTCTCT TACATCCACCCCATATTGCTTTCTCTAGGCCTTTTTTCAGGGGCTAGGATGGTGAGGGATCCTG GCCATCCACCTGATTAGAATAACTTTCATTCACTTCCATATTGGCCCATCCAAACAGGCCCTAA GGTTCATGCCCTCTGTCAGGCATATTTTGAATGTACCTTTTAAGAATGAACCTTCTAAATATGG ATGTGGTGCAGTGCTCAGGTCACTTCTCTAGCGAAACTGTGATGCTTCATTCCATTTAGTAAGA ATATTGTTACTGTTCAAGATTTGATACCATGGAGTGTCTGTGTCTGGTATGGATCAGCACACTT TTCTGGTGTTTGATCAATCATTGTTAGTTGCTATAATGCTTGGACTTTATATTAAGAAATAGAA TAGATTCTTTATGACGTCTAGGAATAAATCGTAGCAGGGTGCTAACTGAAGTATGTTGCTTTTA TCTTCTTCTTTTTTTTGCGGGATGTTCCATTGTGAGCTTTACGCTGAGCACTGGTCTGTACTTG TAATAGAGTTGCCACACACAGCAAGAAAGAGGTTTGTTCTTGGGAAGTATGTAGGTTAATTTGT ATCAAGGCGACAGGGGTGGGGAGTTATGTGGGGATTATAGTGGATATTCAGTTCTTTGAAATGA CTTGTCCTCCTCAGTGATTCTCTGGGACTTCATGTTTTGGTTCAGGCTATTTTGTTCAGAGGTT TTGATCTTAGCGAAACTTTATTTAGGAACAATAATAAGAAATAGGGCCTTAGAAGTCATAAGTG CTGTGCTGGGACTTTATATAGAGCATCATCATTAGATATTCACTTTTCAGCTATCTATTTTGTA GAGCTCTTCTGTTTTCATTTCGTTGTTATTATTTAGAACTTTTTCATGCCAGTACTAATTTCTA ATATTTTGTCAATTTCATGTTTGTAATGAGTAATTGAACTTCTTTGGTGTTTCTTCTCAGGGTT TGGAAAAAATTCTGGACCACCACATGATCAAAGTCTGGAATGATCTGTATAGCGCGACCGACAA ATACACCGATGGTTGGCTTTCTTCAGGTATTCTAACTCGTACTTATTTTCCTTTAATATTTAGA AAAAAAGGACTAGTTATCTGATTTTTGTTGGCAGAAAAAAATACTTTGGCCTTCAGTTCTGTTG ATGAACTAAGTATGACAACAAAGTTGTAAGGGTTTTACAACCACAAAGAATCTTCTAGAGCCTT ATGTTGCATAATTGATGGTACTCCAAATTGTCAATGCCGAAAGAACATGCTTCTGATATTTCTA CTTTCAACCAGTGGGATTAAATTTGGGCTGGCATTTTTGTTTATGGACTATATAATTGTTATCA CCAAAGCTATAAGAGTTTACAACTAAGAGGACCTGCAACAACTTAACAATGCATGTACCAAAAT AATGTCCCTTCTGCTTGATACAATGTTTCAAAAAGCGATATGTGGTTTTGTGTGGTTTTGTAGC ACTTATGTGGCATAATCAGATGCTTATGTGGTATAATCGGGTGCTTATGCGGCTTAAGCTGTAC AAGGTTGGGGCATCCGTTCCTTGTATGCGGCCTTGTACGTGGCCTTGTAGACCTTTTTTTCAAA ACACTGGCTTGATGTATGCTTTTAATCACTGTAGGTTGCCACCTCAGAATACATGTTCACTGAA AGAAAAGTCAGGAGTTTTTAAGTTTTTCTCTGTGTACTATGCGTTAGAACTTTTGAGAACAAGA TTATATTGTCTTAACTGTTCTTTCTTTAGCCAAATTCAACAATCAGTTTTGTTGCTTCAGTGCT CAATTGCCTTTTCTCTTGTTATGCAGCTCATAAGTTGTTGGAAGAAGCAATGGGTAAATCAACA GCTGAGTCCACTGCCAAACATTCAAGCATCAATTGCATAGTTACATCAGGGTCCCTGATTCCAA GTCTTGCCAAATGTTTGCTCTATCGTCTGGATGATGTGGTTGCATTCGAGAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003869* osi_circ_011602 						
					
						PMCS
						0.433603458

Conservation Information
Conserved circRNAs	osi_circ_003869* osi_circ_011602
PMCS	0.433603458

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							588160-588213(+)
588376-591117(-)
588354-591074(-)
						
						Potential amino acid sequence
						
							MDGVVAASADATRDEIKIMNVYIWDMDETLILLKSLLDGSYAGAFDGLKDHDKSVDIGKRWENL
ILELCDEHFFYEEIENYNEPFLSAVKEYDDGKDLTTYDFEADCFSSPYDDLNKRKLAYRHRAIG
EKYTKGLEKILDHHMIKVWNDLYSATDKYTDGWLSSAHKLLEEAMGKSTAESTAKHSSINCIVT
SGSLIPSLAKCLLYRLDDVVAFENGVKWMGLSPLRLMPPGTRLRL*(+)
MLVTEFQNEILPPLPYINTLIMVLEAIKGTSIRAIQQRLEQNEGFIHVPYVHIHNLNLVPGGIS
RSGDNPIHFTPFSNATTSSRR*(-)
MRFSHLFPISTLLSWSLRPSKAPAYEPSSSDLSRMRVSSMSHMYTFIILISSLVASAEAATTPS
ISLHSRMQPHHPDDRANIWQDLESGTLM*(-)
						
						Sponge-miRNAs
						
							osa-miR5515 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	588160-588213(+) 588376-591117(-) 588354-591074(-)
Potential amino acid sequence	MDGVVAASADATRDEIKIMNVYIWDMDETLILLKSLLDGSYAGAFDGLKDHDKSVDIGKRWENL ILELCDEHFFYEEIENYNEPFLSAVKEYDDGKDLTTYDFEADCFSSPYDDLNKRKLAYRHRAIG EKYTKGLEKILDHHMIKVWNDLYSATDKYTDGWLSSAHKLLEEAMGKSTAESTAKHSSINCIVT SGSLIPSLAKCLLYRLDDVVAFENGVKWMGLSPLRLMPPGTRLRL(+) MLVTEFQNEILPPLPYINTLIMVLEAIKGTSIRAIQQRLEQNEGFIHVPYVHIHNLNLVPGGIS RSGDNPIHFTPFSNATTSSRR(-) MRFSHLFPISTLLSWSLRPSKAPAYEPSSSDLSRMRVSSMSHMYTFIILISSLVASAEAATTPS ISLHSRMQPHHPDDRANIWQDLESGTLM*(-)
Sponge-miRNAs	osa-miR5515
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os06g0110100_circ_g.1

Address

Any questions?

Supported by