Plant Circular RNA Database

Detail information of Os07g0110400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0110400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_032615
					
						Alias
						Os_ciR11291
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 578019-579893  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os07g0110400						
					
						Parent gene annotation
						
							Similar to EMB2773 (EMBRYO DEFECTIVE 2773); binding / protein bi
nding / zinc ion binding. (Os07t0110400-01);Hypothetical conserv
ed gene. (Os07t0110400-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Os07t0110400-01:4

General Information
CircRNA Name	Os07g0110400_circ_g.1
ID in PlantcircBase	osa_circ_032615
Alias	Os_ciR11291
Organism	Oryza sativa
Position	chr7: 578019-579893 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os07g0110400
Parent gene annotation	Similar to EMB2773 (EMBRYO DEFECTIVE 2773); binding / protein bi nding / zinc ion binding. (Os07t0110400-01);Hypothetical conserv ed gene. (Os07t0110400-02)
Parent gene strand	+
Alternative splicing	NA
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	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	Os07t0110400-01:4

			
						 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  
						
							GGGATACATACTTATTGCAAAGCCTGATTTTATGCTACGTAAAGATATCTCAACCCTAATAGAG
TCATCATTGTCTTCTGTTGTTGATTATAGATTAAAGgttgacaataaatcaacagcccagttgc
ttgaaagtataatttttgtaattgatgctgttcttccactcatatggaagccaccacaatctgt
ggtaatag

									
								

					

						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: 552
Transcript exons: 578019-578188,578738-578852,579462-579623,579789-579893
GTTGACAATAAATCAACAGCCCAGTTGCTTGAAAGTATAATTTTTGTAATTGATGCTGTTCTTC
CACTCATATGGAAGCCACCACAATCTGTGGTAATAGAGCTAGAGCAGGATCTGAAGCAGATGAT
TGTTCGACACTCCTTTTTGACAGTTGTGCATGCCTGTATCAAGTGCCTTTGCGCCCTTAGCAAA
GCAGCAGATAGAGGGCCAAGGTTATTGGAATACCTTGTAAACATTTTTTACAAGCATCTGTCGG
GTTCTAACTCTTCTAATTCTGATAGTCAGCTTTTGGGCCGATCATTGTTTTGTCTTGGACTGCT
CCTTAGGTATGGTTCTCAACTCATGGCAGCATCCGAAAATCAACTTGATTTCCCAAAGATTATC
AGCTTGCTGAAGAAGGAATATCTTCTCAAGGATGATTTCAGCTTGAAGGTTCGAGGTTTGCAGG
CTTTGGGATACATACTTATTGCAAAGCCTGATTTTATGCTACGTAAAGATATCTCAACCCTAAT
AGAGTCATCATTGTCTTCTGTTGTTGATTATAGATTAAAG
						
					

						Genomic sequence
						
							GTTGACAATAAATCAACAGCCCAGTTGCTTGAAAGTATAATTTTTGTAATTGATGCTGTTCTTC
CACTCATATGGAAGCCACCACAATCTGTGGTAATAGAGCTAGAGCAGGATCTGAAGCAGATGAT
TGTTCGACACTCCTTTTTGACAGTTGTGCATGCCTGTATCAAGTAATCATATTCCATCCTTCTA
CCGTCAGTTTTATTTGATGATCATTTGTCCTTATGTACTACATTTTCACACACTCCATGTTAGG
ATTGTTTGCTCTTTATTTTAAAAGAAATTTTCATACAATATCTCTTGTATGGGTTCATCTGGTG
ACTTTCTTTATTGACTGGAATACTCGATGCTAGAAAACTGTACATGGCCTATATGATTTGCATA
GCCATGGGATCACATATGGGGTTTTTGGTAAATATGATGCATATCTGGTGTGTAAGATAAATAT
CCCTACAGCTATAAATAGGGTGATGCTGCATATGTTAATATAATCTGTTAATAGTTTAATGTTC
ATAAAATTGAAATGCAATTATAATTTAAAACATTTTGTTTATGAATCATCACTATTTGCATGTC
ACAATTGCACACCCTTATTTTGTTCAAGCATCGGTTTATTGAACTTACAGTCTTATGTGGATTA
TCCTACCTTTTATTTATTTTAATCCTTTGCTTTAAACGTTCTTGTTGATTTATTTCTTCTTGTT
CACTTTGATTAACAGGTGCCTTTGCGCCCTTAGCAAAGCAGCAGATAGAGGGCCAAGGTTATTG
GAATACCTTGTAAACATTTTTTACAAGCATCTGTCGGGTTCTAACTCTTCTAATTCTGATAGTC
AGGTATTAGACTGTTACTTGTTTGATTGAGCTAATTTCAAGTTTATCTAAATTGCTACTACTCC
CTCTGTCCCATAATATAAGGGATTTTGGGTGGATGTGACACAGGGTATAATGAATCTGGACAGA
CGGTCTGTCCAAATTCATTGTACCCTGTGTCACATCCACCCCAAATCCCTTATATTATGGGACA
AAGGGAGTACCTCTGTTTCATATTATGCTTTGACTTTTTTCCTAGTCAAACTTCTTTAAGTTGG
ACCAAGTTTATAAAGTTGGTCAAACTTAAAGAAGTTTGACTAAGAAATAGTCAAAGCGACTTAT
AGTAGGAAATGGAGGGAGTATGTGTAAAGCTTAATGGAGTTTTTTTTTCCTATTCTTTGCATAC
TATTTATTACTCCATTCTCTAGCTGCACGTCTCAAAATTAAAACCAATGTCACAACTCACAACA
TAGTAAACAGTCCTGTATGAAGTTTTATTCAAGGAATAGTTTTAGGAATTCAAGGACAGTTTTG
CATTTATCCTGTATGAGACGTGGAAACTGTTGTTTCTTTTGCTTCCAATGCTTTGTAGGTTTGT
TATTCTGACAATCTCTTCTTTTTTCTGAAACTCAGCTTTTGGGCCGATCATTGTTTTGTCTTGG
ACTGCTCCTTAGGTATGGTTCTCAACTCATGGCAGCATCCGAAAATCAACTTGATTTCCCAAAG
ATTATCAGCTTGCTGAAGAAGGAATATCTTCTCAAGGATGATTTCAGCTTGAAGGTTCGAGGTT
TGCAGGTGTGCACACTTGGAATCAATTACTGCACTTACTGGCACTAGAAAAACTAGATGGATGG
ATGGCATGTCCACCTGTCTAGATAACAGAATGTTGCTTTAGTTTCATTTATTTTTCATATTTAG
AAACTATTCAGTACTAGATGATATATTTTTCTGTGCATGCAGGCTTTGGGATACATACTTATTG
CAAAGCCTGATTTTATGCTACGTAAAGATATCTCAACCCTAATAGAGTCATCATTGTCTTCTGT
TGTTGATTATAGATTAAAG
						
					

			
		

Sequences
Splice junction sequence	GGGATACATACTTATTGCAAAGCCTGATTTTATGCTACGTAAAGATATCTCAACCCTAATAGAG TCATCATTGTCTTCTGTTGTTGATTATAGATTAAAGgttgacaataaatcaacagcccagttgc ttgaaagtataatttttgtaattgatgctgttcttccactcatatggaagccaccacaatctgt ggtaatag
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: 552 Transcript exons: 578019-578188,578738-578852,579462-579623,579789-579893 GTTGACAATAAATCAACAGCCCAGTTGCTTGAAAGTATAATTTTTGTAATTGATGCTGTTCTTC CACTCATATGGAAGCCACCACAATCTGTGGTAATAGAGCTAGAGCAGGATCTGAAGCAGATGAT TGTTCGACACTCCTTTTTGACAGTTGTGCATGCCTGTATCAAGTGCCTTTGCGCCCTTAGCAAA GCAGCAGATAGAGGGCCAAGGTTATTGGAATACCTTGTAAACATTTTTTACAAGCATCTGTCGG GTTCTAACTCTTCTAATTCTGATAGTCAGCTTTTGGGCCGATCATTGTTTTGTCTTGGACTGCT CCTTAGGTATGGTTCTCAACTCATGGCAGCATCCGAAAATCAACTTGATTTCCCAAAGATTATC AGCTTGCTGAAGAAGGAATATCTTCTCAAGGATGATTTCAGCTTGAAGGTTCGAGGTTTGCAGG CTTTGGGATACATACTTATTGCAAAGCCTGATTTTATGCTACGTAAAGATATCTCAACCCTAAT AGAGTCATCATTGTCTTCTGTTGTTGATTATAGATTAAAG
Genomic sequence	GTTGACAATAAATCAACAGCCCAGTTGCTTGAAAGTATAATTTTTGTAATTGATGCTGTTCTTC CACTCATATGGAAGCCACCACAATCTGTGGTAATAGAGCTAGAGCAGGATCTGAAGCAGATGAT TGTTCGACACTCCTTTTTGACAGTTGTGCATGCCTGTATCAAGTAATCATATTCCATCCTTCTA CCGTCAGTTTTATTTGATGATCATTTGTCCTTATGTACTACATTTTCACACACTCCATGTTAGG ATTGTTTGCTCTTTATTTTAAAAGAAATTTTCATACAATATCTCTTGTATGGGTTCATCTGGTG ACTTTCTTTATTGACTGGAATACTCGATGCTAGAAAACTGTACATGGCCTATATGATTTGCATA GCCATGGGATCACATATGGGGTTTTTGGTAAATATGATGCATATCTGGTGTGTAAGATAAATAT CCCTACAGCTATAAATAGGGTGATGCTGCATATGTTAATATAATCTGTTAATAGTTTAATGTTC ATAAAATTGAAATGCAATTATAATTTAAAACATTTTGTTTATGAATCATCACTATTTGCATGTC ACAATTGCACACCCTTATTTTGTTCAAGCATCGGTTTATTGAACTTACAGTCTTATGTGGATTA TCCTACCTTTTATTTATTTTAATCCTTTGCTTTAAACGTTCTTGTTGATTTATTTCTTCTTGTT CACTTTGATTAACAGGTGCCTTTGCGCCCTTAGCAAAGCAGCAGATAGAGGGCCAAGGTTATTG GAATACCTTGTAAACATTTTTTACAAGCATCTGTCGGGTTCTAACTCTTCTAATTCTGATAGTC AGGTATTAGACTGTTACTTGTTTGATTGAGCTAATTTCAAGTTTATCTAAATTGCTACTACTCC CTCTGTCCCATAATATAAGGGATTTTGGGTGGATGTGACACAGGGTATAATGAATCTGGACAGA CGGTCTGTCCAAATTCATTGTACCCTGTGTCACATCCACCCCAAATCCCTTATATTATGGGACA AAGGGAGTACCTCTGTTTCATATTATGCTTTGACTTTTTTCCTAGTCAAACTTCTTTAAGTTGG ACCAAGTTTATAAAGTTGGTCAAACTTAAAGAAGTTTGACTAAGAAATAGTCAAAGCGACTTAT AGTAGGAAATGGAGGGAGTATGTGTAAAGCTTAATGGAGTTTTTTTTTCCTATTCTTTGCATAC TATTTATTACTCCATTCTCTAGCTGCACGTCTCAAAATTAAAACCAATGTCACAACTCACAACA TAGTAAACAGTCCTGTATGAAGTTTTATTCAAGGAATAGTTTTAGGAATTCAAGGACAGTTTTG CATTTATCCTGTATGAGACGTGGAAACTGTTGTTTCTTTTGCTTCCAATGCTTTGTAGGTTTGT TATTCTGACAATCTCTTCTTTTTTCTGAAACTCAGCTTTTGGGCCGATCATTGTTTTGTCTTGG ACTGCTCCTTAGGTATGGTTCTCAACTCATGGCAGCATCCGAAAATCAACTTGATTTCCCAAAG ATTATCAGCTTGCTGAAGAAGGAATATCTTCTCAAGGATGATTTCAGCTTGAAGGTTCGAGGTT TGCAGGTGTGCACACTTGGAATCAATTACTGCACTTACTGGCACTAGAAAAACTAGATGGATGG ATGGCATGTCCACCTGTCTAGATAACAGAATGTTGCTTTAGTTTCATTTATTTTTCATATTTAG AAACTATTCAGTACTAGATGATATATTTTTCTGTGCATGCAGGCTTTGGGATACATACTTATTG CAAAGCCTGATTTTATGCTACGTAAAGATATCTCAACCCTAATAGAGTCATCATTGTCTTCTGT TGTTGATTATAGATTAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.215698542

Conservation Information
Conserved circRNAs	NA
PMCS	0.215698542

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							578143-579890(+)
578805-579883(-)
						
						Potential amino acid sequence
						
							MIVRHSFLTVVHACIKCLCALSKAADRGPRLLEYLVNIFYKHLSGSNSSNSDSQLLGRSLFCLG
LLLRYGSQLMAASENQLDFPKIISLLKKEYLLKDDFSLKVRGLQALGYILIAKPDFMLRKDIST
LIESSLSSVVDYRLKVDNKSTAQLLESIIFVIDAVLPLIWKPPQSVVIELEQDLKQMIVRHSFL
TVVHACIKCLCALSKAADRGPRLLEYLVNIFYKHLSGSNSSNSDSQLLGRSLFCLGLLLRYGSQ
LMAASENQLDFPKIISLLKKEYLLKDDFSLKVRGLQALGYILIAKPDFMLRKDISTLIESSLSS
VVDYRLKVDNKSTAQLLESIIFVIDAVLPLIWKPPQSVVIELEQDLKQMIVRHSFLTVVHACIK
CLCALSKAADRGPRLLEYLVNIFYKHLSGSNSSNSDSQLLGRSLFCLGLLLRYGSQLMAASENQ
LDFPKIISLLKKEYLLKDDFSLKVRGLQALGYILIAKPDFMLRKDISTLIESSLSSVVDYRLKV
DNKSTAQLLESIIFVIDAVLPLIWKPPQSVVIELEQDLKQMIVRHSFLTVVHACIKCLCALSKA
ADRGPRLLEYLVNIFYKHLSGSNSSNSDSQLLGRSLFCLGLLLRYGSQLMAASENQLDFPKIIS
LLKKEYLLKDDFSLKVRGLQALGYILIAKPDFMLRKDISTLIESSLSSVVDYRLK(+)
MFTRYSNNLGPLSAALLRAQRHLIQACTTVKKECRTIICFRSCSSSITTDCGGFHMSGRTASIT
KIILSSNWAVDLLSTFNL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	578143-579890(+) 578805-579883(-)
Potential amino acid sequence	MIVRHSFLTVVHACIKCLCALSKAADRGPRLLEYLVNIFYKHLSGSNSSNSDSQLLGRSLFCLG LLLRYGSQLMAASENQLDFPKIISLLKKEYLLKDDFSLKVRGLQALGYILIAKPDFMLRKDIST LIESSLSSVVDYRLKVDNKSTAQLLESIIFVIDAVLPLIWKPPQSVVIELEQDLKQMIVRHSFL TVVHACIKCLCALSKAADRGPRLLEYLVNIFYKHLSGSNSSNSDSQLLGRSLFCLGLLLRYGSQ LMAASENQLDFPKIISLLKKEYLLKDDFSLKVRGLQALGYILIAKPDFMLRKDISTLIESSLSS VVDYRLKVDNKSTAQLLESIIFVIDAVLPLIWKPPQSVVIELEQDLKQMIVRHSFLTVVHACIK CLCALSKAADRGPRLLEYLVNIFYKHLSGSNSSNSDSQLLGRSLFCLGLLLRYGSQLMAASENQ LDFPKIISLLKKEYLLKDDFSLKVRGLQALGYILIAKPDFMLRKDISTLIESSLSSVVDYRLKV DNKSTAQLLESIIFVIDAVLPLIWKPPQSVVIELEQDLKQMIVRHSFLTVVHACIKCLCALSKA ADRGPRLLEYLVNIFYKHLSGSNSSNSDSQLLGRSLFCLGLLLRYGSQLMAASENQLDFPKIIS LLKKEYLLKDDFSLKVRGLQALGYILIAKPDFMLRKDISTLIESSLSSVVDYRLK(+) MFTRYSNNLGPLSAALLRAQRHLIQACTTVKKECRTIICFRSCSSSITTDCGGFHMSGRTASIT KIILSSNWAVDLLSTFNL*(-)
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 Os07g0110400_circ_g.1

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