Plant Circular RNA Database

Detail information of Os01g0753100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0753100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_003936
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 31600056-31603035  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0753100						
					
						Parent gene annotation
						
							Alcohol dehydrogenase superfamily, zinc-containing protein. (Os0
1t0753100-01);Similar to reticulon-4-interacting protein 1. (Os0
1t0753100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0753100_circ_g.1 Os01g0753100_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						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
						Os01t0753100-02:2
Os01t0753100-01:5

General Information
CircRNA Name	Os01g0753100_circ_g.2
ID in PlantcircBase	osa_circ_003936
Alias	NA
Organism	Oryza sativa
Position	chr1: 31600056-31603035 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0753100
Parent gene annotation	Alcohol dehydrogenase superfamily, zinc-containing protein. (Os0 1t0753100-01);Similar to reticulon-4-interacting protein 1. (Os0 1t0753100-02)
Parent gene strand	+
Alternative splicing	Os01g0753100_circ_g.1 Os01g0753100_circ_g.3
Support reads	1
Tissues	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	Os01t0753100-02:2 Os01t0753100-01:5

			
						 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  
						
							GCTGCCCTAGCAGATAGATATGGATTAGCTGTGGGACTTCCTGCTGCTACTGCTGTTTTACTAA
AGAAACAAATGCAGTACCGTTATTCTCATGGAATAGatgcggtctggttatgggcgttcaatat
ttgagccagtcctacctctgatcattggccgggatataagtggtgaagttgcagctacagggac
ttctgtgt

									
								

					

						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: 691
Transcript exons: 31600056-31600283,31600723-31600796,31601337-31601496,31
602721-31602840,31602927-31603035
ATGCGGTCTGGTTATGGGCGTTCAATATTTGAGCCAGTCCTACCTCTGATCATTGGCCGGGATA
TAAGTGGTGAAGTTGCAGCTACAGGGACTTCTGTGTCGTCCTTTACTATTGGGCAAGAAGTGTT
TGGTGCTTTGCATCCAACAGCCATAAGAGGGACATACACCGATTATGCAATTCTTTCACAGGAT
GAGCTTACTTCCAAACCATCTACACTCAGTCATGTGGAGGCTAGCGCTATACCATTTGCTGCTT
TGACTGCATGGCGTGCTTTACATGGTACGGCTCGAATTTCTGAAGGACAAAGAGTACTTGTGAT
TGGTGGAGGTGGGGCTGTTGGGCTAGCTGCTGTTCAGCTTGCAGTAGCTGCAGGGTGTAGCGTT
TCTGCAACCTGTGGAACTAAAAGTATTGAACAAGTGTTGGCCGCTGGTGCTGAAAAAGCTATCG
ATTACACTGCTGAGGATACTGAATCAGCAGTTAAAGGAAAGTTCGATGCCGTGTTGGATACCAT
AGGAGTACCTGAAACTGAGAGAATTGGCATTAATGTTCTGAGGAGAGGCGGACACTATATGACC
CTTCAGGGAGAGGCGGCTGCCCTAGCAGATAGATATGGATTAGCTGTGGGACTTCCTGCTGCTA
CTGCTGTTTTACTAAAGAAACAAATGCAGTACCGTTATTCTCATGGAATAG
						
					

						Genomic sequence
						
							ATGCGGTCTGGTTATGGGCGTTCAATATTTGAGCCAGTCCTACCTCTGATCATTGGCCGGGATA
TAAGTGGTGAAGTTGCAGCTACAGGGACTTCTGTGTCGTCCTTTACTATTGGGCAAGAAGTGTT
TGGTGCTTTGCATCCAACAGCCATAAGAGGGACATACACCGATTATGCAATTCTTTCACAGGAT
GAGCTTACTTCCAAACCATCTACACTCAGTCATGTGGTATGAATTCATCAGATAACTCTTCTCG
TCGTAACATTGATATTTCAAAATATCATTTCAGGATCACGTCAATTTCTTTCACCATTAATCTT
CACATAGTATGAACTGGACAGACCTGGTCCTTTCCCTGGATGTATGCAATATGTTTATTCCATT
TCAGGAATGTACAACAGTGCATCATATTTTTGTATTTAACAGGCATTGTGGCTAATGGATGATG
ATAGGAACTCCTTTGTGTAGATTTAAACAAAAACCCATCCTTTGAAAGCTTTTTAATGAAAGTT
CTAAAAGGTTTTAGTTCATGTTTATTGTTTATTGATGGGGAGAACAATTTCTATCTTCTTAAGT
AGATAGCTCAGGACTTGGTTTCCAATGTTACCTGTATGTGAAAAAAATACCATACTGCAAGCTA
ATCGAATCAAGTTTTGTTATATTGCAGGAGGCTAGCGCTATACCATTTGCTGCTTTGACTGCAT
GGCGTGCTTTACATGGTACGGCTCGAATTTCTGAAGGGTATGTCTGGTTATACGCCACTGTTTG
TGAAACAGACAACAAGTTCTTTTTGTTGCCATTGTTGCTGTTTCCTATAACTTGCATCTACCTT
TACTTTTAATTTATTGGATTGTTAGCATGGTAGGTAAGTATGTAATTAGTGACTTTTAAATGGG
TTTGGTATTAAAAAGTGTGCTCCTCGTAGTTTGCTTGTGCGGCAGACAGCTAGAAGCATACTAC
TACAAAAGTTACTTCATCTCCTTTCATAAAGTTTCAGATTTTTTTCACATATATCTAGGTACAT
ATGTAAATTCTTAATTTTAATGGTGATCTGCACTACACTTCCCTCTCTTCGGGTTCTATTATAT
AAATATAAATTATGCAGGGAAGTTGTAATCTCTTGTAGTCAATCCGAAAACCAACCCTATTATT
TAGGTCCAATTCACAGCACAAGCTTTTCGTTATCAGTAAAATGTTATTTCATGTCTGGTTGAGT
GGTTACATATTGAAGTTATGCTCACCTTTCCTTTTTGAACTGAATGCAATTAATTTTCGTTTTA
GACAAAGAGTACTTGTGATTGGTGGAGGTGGGGCTGTTGGGCTAGCTGCTGTTCAGCTTGCAGT
AGCTGCAGGGTGTAGCGTTTCTGCAACCTGTGGAACTAAAAGTATTGAACAAGTGTTGGCCGCT
GGTGCTGAAAAAGCTATCGATTACACTGCTGAGGTAAACGCTTTCAGAAGTCCAAACTCTTGTA
CTTATATTTTCTTTACGATGATGATGATATAGTGAATTCTTTTGCCCTTGCACTATTTTCGGTA
TCAACGCAGGCAAACCATATCCTTAATATGTCTAGCTATCTATTCCATCTGTTTCATCATATTA
TAAATTGCTTTGACTTTTTTCTAGTCAAACATTTTTTAAGTTTGATCAAATTTATAGAAAAAGC
TATCAATATCTAAAATGCCAAATTAGTTTAGTTAAATCTAATATTGAATATATTTTGATAATAT
GTTTGTTTCGTGTTGAAAATGCTACTACTATATTTTTCTATAAACTTGGTCAAACTTAAATAAT
TTTGGCTAGAAAAAAAGTCATAGCGACTTATAATATGAAATGGAGGGAGTATATATTTATTTGT
CTTTGCTAAGATAGGATTGTTACACAGCAGGAATGGATATTTAATGGTACCATGGTGCCTTAGA
TGTTGTTTAGTCGTTGTGGTTCGTTGTTCTGTTACCACATTATCTGATAAACTCATGCTTACAT
GCAGACATATGAACTCTGAATCGCTTATTCATCCACTTTGCACTGTGAAGCTATGCACAGAACT
GATAGCAGCTAGCAGTTTTTCATCTTCTTAGCTGTGGAATCTTTCATTTCTCCTACAAGACTAC
ACATATGCAATGTTACACTTGACATATCATTTTTCTTAGGTCTAATGTGACTATTTTCTTTTCT
TCTTGCATCAATACAAAACATAGTACTTTATACTTATAGATTATCAGGGAATGATATTAGTACT
ACTGCACAGCAGAAGAGTGTTTGAACCGGTTTTCAACATCATTCAAAACTTGCAACTCATTGCC
GCTTGTGGCTGGTGGTGTGACTGCAGCATCAGTGGCCAACACGATACAGTTTAGACGGGTTGGG
AGAAACCTGGAACGAACAGTCCTATTGCTCAGTAGTATTATATGTGGCTTTGAGCTATTGTCTA
ATTCTTTGTGCCTGGTAAATATAGGAGAGGATACTGAAGTTTTCCGTTATTCTCCATGAGTGAG
AAAACATTAGTGAATTTTGTGTCAGGGCATATAGATCATTTCTGCGATTGGATAAAATTGTTAG
CTCACTAATTGTCCTGTAGATTGTTTTTTTTTTTCTCTTTAAGAAATTTCCCTAGATGAGTACC
ATTGTCTCCATAATGTTCATATTTTATGGTTTACCTTACAGGATACTGAATCAGCAGTTAAAGG
AAAGTTCGATGCCGTGTTGGATACCATAGGAGTACCTGAAACTGAGAGAATTGGCATTAATGTT
CTGAGGAGAGGCGGACACTATATGACCCTTCAGGTCGTCAACCTGCCCCTTTTAATTTTTTCTG
TGTTTCTGCTTTGATTGTCATTTGTTCATTATTGTATCATCCTTCTTTGTGATAGGGAGAGGCG
GCTGCCCTAGCAGATAGATATGGATTAGCTGTGGGACTTCCTGCTGCTACTGCTGTTTTACTAA
AGAAACAAATGCAGTACCGTTATTCTCATGGAATAG
						
					

			
		

Sequences
Splice junction sequence	GCTGCCCTAGCAGATAGATATGGATTAGCTGTGGGACTTCCTGCTGCTACTGCTGTTTTACTAA AGAAACAAATGCAGTACCGTTATTCTCATGGAATAGatgcggtctggttatgggcgttcaatat ttgagccagtcctacctctgatcattggccgggatataagtggtgaagttgcagctacagggac ttctgtgt
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: 691 Transcript exons: 31600056-31600283,31600723-31600796,31601337-31601496,31 602721-31602840,31602927-31603035 ATGCGGTCTGGTTATGGGCGTTCAATATTTGAGCCAGTCCTACCTCTGATCATTGGCCGGGATA TAAGTGGTGAAGTTGCAGCTACAGGGACTTCTGTGTCGTCCTTTACTATTGGGCAAGAAGTGTT TGGTGCTTTGCATCCAACAGCCATAAGAGGGACATACACCGATTATGCAATTCTTTCACAGGAT GAGCTTACTTCCAAACCATCTACACTCAGTCATGTGGAGGCTAGCGCTATACCATTTGCTGCTT TGACTGCATGGCGTGCTTTACATGGTACGGCTCGAATTTCTGAAGGACAAAGAGTACTTGTGAT TGGTGGAGGTGGGGCTGTTGGGCTAGCTGCTGTTCAGCTTGCAGTAGCTGCAGGGTGTAGCGTT TCTGCAACCTGTGGAACTAAAAGTATTGAACAAGTGTTGGCCGCTGGTGCTGAAAAAGCTATCG ATTACACTGCTGAGGATACTGAATCAGCAGTTAAAGGAAAGTTCGATGCCGTGTTGGATACCAT AGGAGTACCTGAAACTGAGAGAATTGGCATTAATGTTCTGAGGAGAGGCGGACACTATATGACC CTTCAGGGAGAGGCGGCTGCCCTAGCAGATAGATATGGATTAGCTGTGGGACTTCCTGCTGCTA CTGCTGTTTTACTAAAGAAACAAATGCAGTACCGTTATTCTCATGGAATAG
Genomic sequence	ATGCGGTCTGGTTATGGGCGTTCAATATTTGAGCCAGTCCTACCTCTGATCATTGGCCGGGATA TAAGTGGTGAAGTTGCAGCTACAGGGACTTCTGTGTCGTCCTTTACTATTGGGCAAGAAGTGTT TGGTGCTTTGCATCCAACAGCCATAAGAGGGACATACACCGATTATGCAATTCTTTCACAGGAT GAGCTTACTTCCAAACCATCTACACTCAGTCATGTGGTATGAATTCATCAGATAACTCTTCTCG TCGTAACATTGATATTTCAAAATATCATTTCAGGATCACGTCAATTTCTTTCACCATTAATCTT CACATAGTATGAACTGGACAGACCTGGTCCTTTCCCTGGATGTATGCAATATGTTTATTCCATT TCAGGAATGTACAACAGTGCATCATATTTTTGTATTTAACAGGCATTGTGGCTAATGGATGATG ATAGGAACTCCTTTGTGTAGATTTAAACAAAAACCCATCCTTTGAAAGCTTTTTAATGAAAGTT CTAAAAGGTTTTAGTTCATGTTTATTGTTTATTGATGGGGAGAACAATTTCTATCTTCTTAAGT AGATAGCTCAGGACTTGGTTTCCAATGTTACCTGTATGTGAAAAAAATACCATACTGCAAGCTA ATCGAATCAAGTTTTGTTATATTGCAGGAGGCTAGCGCTATACCATTTGCTGCTTTGACTGCAT GGCGTGCTTTACATGGTACGGCTCGAATTTCTGAAGGGTATGTCTGGTTATACGCCACTGTTTG TGAAACAGACAACAAGTTCTTTTTGTTGCCATTGTTGCTGTTTCCTATAACTTGCATCTACCTT TACTTTTAATTTATTGGATTGTTAGCATGGTAGGTAAGTATGTAATTAGTGACTTTTAAATGGG TTTGGTATTAAAAAGTGTGCTCCTCGTAGTTTGCTTGTGCGGCAGACAGCTAGAAGCATACTAC TACAAAAGTTACTTCATCTCCTTTCATAAAGTTTCAGATTTTTTTCACATATATCTAGGTACAT ATGTAAATTCTTAATTTTAATGGTGATCTGCACTACACTTCCCTCTCTTCGGGTTCTATTATAT AAATATAAATTATGCAGGGAAGTTGTAATCTCTTGTAGTCAATCCGAAAACCAACCCTATTATT TAGGTCCAATTCACAGCACAAGCTTTTCGTTATCAGTAAAATGTTATTTCATGTCTGGTTGAGT GGTTACATATTGAAGTTATGCTCACCTTTCCTTTTTGAACTGAATGCAATTAATTTTCGTTTTA GACAAAGAGTACTTGTGATTGGTGGAGGTGGGGCTGTTGGGCTAGCTGCTGTTCAGCTTGCAGT AGCTGCAGGGTGTAGCGTTTCTGCAACCTGTGGAACTAAAAGTATTGAACAAGTGTTGGCCGCT GGTGCTGAAAAAGCTATCGATTACACTGCTGAGGTAAACGCTTTCAGAAGTCCAAACTCTTGTA CTTATATTTTCTTTACGATGATGATGATATAGTGAATTCTTTTGCCCTTGCACTATTTTCGGTA TCAACGCAGGCAAACCATATCCTTAATATGTCTAGCTATCTATTCCATCTGTTTCATCATATTA TAAATTGCTTTGACTTTTTTCTAGTCAAACATTTTTTAAGTTTGATCAAATTTATAGAAAAAGC TATCAATATCTAAAATGCCAAATTAGTTTAGTTAAATCTAATATTGAATATATTTTGATAATAT GTTTGTTTCGTGTTGAAAATGCTACTACTATATTTTTCTATAAACTTGGTCAAACTTAAATAAT TTTGGCTAGAAAAAAAGTCATAGCGACTTATAATATGAAATGGAGGGAGTATATATTTATTTGT CTTTGCTAAGATAGGATTGTTACACAGCAGGAATGGATATTTAATGGTACCATGGTGCCTTAGA TGTTGTTTAGTCGTTGTGGTTCGTTGTTCTGTTACCACATTATCTGATAAACTCATGCTTACAT GCAGACATATGAACTCTGAATCGCTTATTCATCCACTTTGCACTGTGAAGCTATGCACAGAACT GATAGCAGCTAGCAGTTTTTCATCTTCTTAGCTGTGGAATCTTTCATTTCTCCTACAAGACTAC ACATATGCAATGTTACACTTGACATATCATTTTTCTTAGGTCTAATGTGACTATTTTCTTTTCT TCTTGCATCAATACAAAACATAGTACTTTATACTTATAGATTATCAGGGAATGATATTAGTACT ACTGCACAGCAGAAGAGTGTTTGAACCGGTTTTCAACATCATTCAAAACTTGCAACTCATTGCC GCTTGTGGCTGGTGGTGTGACTGCAGCATCAGTGGCCAACACGATACAGTTTAGACGGGTTGGG AGAAACCTGGAACGAACAGTCCTATTGCTCAGTAGTATTATATGTGGCTTTGAGCTATTGTCTA ATTCTTTGTGCCTGGTAAATATAGGAGAGGATACTGAAGTTTTCCGTTATTCTCCATGAGTGAG AAAACATTAGTGAATTTTGTGTCAGGGCATATAGATCATTTCTGCGATTGGATAAAATTGTTAG CTCACTAATTGTCCTGTAGATTGTTTTTTTTTTTCTCTTTAAGAAATTTCCCTAGATGAGTACC ATTGTCTCCATAATGTTCATATTTTATGGTTTACCTTACAGGATACTGAATCAGCAGTTAAAGG AAAGTTCGATGCCGTGTTGGATACCATAGGAGTACCTGAAACTGAGAGAATTGGCATTAATGTT CTGAGGAGAGGCGGACACTATATGACCCTTCAGGTCGTCAACCTGCCCCTTTTAATTTTTTCTG TGTTTCTGCTTTGATTGTCATTTGTTCATTATTGTATCATCCTTCTTTGTGATAGGGAGAGGCG GCTGCCCTAGCAGATAGATATGGATTAGCTGTGGGACTTCCTGCTGCTACTGCTGTTTTACTAA AGAAACAAATGCAGTACCGTTATTCTCATGGAATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.334047392

Conservation Information
Conserved circRNAs	NA
PMCS	0.334047392

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31600057-31600084(+)
						
						Potential amino acid sequence
						
							MRSGYGRSIFEPVLPLIIGRDISGEVAATGTSVSSFTIGQEVFGALHPTAIRGTYTDYAILSQD
ELTSKPSTLSHVEASAIPFAALTAWRALHGTARISEGQRVLVIGGGGAVGLAAVQLAVAAGCSV
SATCGTKSIEQVLAAGAEKAIDYTAEDTESAVKGKFDAVLDTIGVPETERIGINVLRRGGHYMT
LQGEAAALADRYGLAVGLPAATAVLLKKQMQYRYSHGIDAVWLWAFNI*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31600057-31600084(+)
Potential amino acid sequence	MRSGYGRSIFEPVLPLIIGRDISGEVAATGTSVSSFTIGQEVFGALHPTAIRGTYTDYAILSQD ELTSKPSTLSHVEASAIPFAALTAWRALHGTARISEGQRVLVIGGGGAVGLAAVQLAVAAGCSV SATCGTKSIEQVLAAGAEKAIDYTAEDTESAVKGKFDAVLDTIGVPETERIGINVLRRGGHYMT LQGEAAALADRYGLAVGLPAATAVLLKKQMQYRYSHGIDAVWLWAFNI*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0753100_circ_g.2

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