Plant Circular RNA Database

Detail information of Os03g0627500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0627500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_020710
					
						Alias
						Os_ciR8681
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 23929449-23931322  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0627500						
					
						Parent gene annotation
						
							Similar to KH domain containing protein, expressed. (Os03t062750
0-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0627500_circ_g.1 Os03g0627500_circ_g.2 Os03g0627500_circ_g.4 Os03g0627500_circ_g.5 Os03g0627500_circ_g.6 Os03g0627500_circ_g.7 						
					
						Support reads
						2/1
					
						Tissues
						root/shoot
					
						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
						Os03t0627500-01:4

General Information
CircRNA Name	Os03g0627500_circ_g.3
ID in PlantcircBase	osa_circ_020710
Alias	Os_ciR8681
Organism	Oryza sativa
Position	chr3: 23929449-23931322 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0627500
Parent gene annotation	Similar to KH domain containing protein, expressed. (Os03t062750 0-01)
Parent gene strand	+
Alternative splicing	Os03g0627500_circ_g.1 Os03g0627500_circ_g.2 Os03g0627500_circ_g.4 Os03g0627500_circ_g.5 Os03g0627500_circ_g.6 Os03g0627500_circ_g.7
Support reads	2/1
Tissues	root/shoot
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	Os03t0627500-01:4

			
						 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  
						
							AACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGT
GCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtaatgatttcagcaaaggatgagccag
atgcacctatatctccagctatggacgggttatttagagtctataaacgaataactgatggttc
agatggtg

									
								

					

						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: 876
Transcript exons: 23929449-23929695,23930505-23930653,23930746-23931030,23
931128-23931322
GTAATGATTTCAGCAAAGGATGAGCCAGATGCACCTATATCTCCAGCTATGGACGGGTTATTTA
GAGTCTATAAACGAATAACTGATGGTTCAGATGGTGATTCTGGTCAACCTGAAAGAAATATTAG
TAATGTAGGACCAACACGACTGCTAGTACCAGCTTCCCAAGCTGGCAGCCTTATTGGGAAACAG
GGAGCAACCATTAAATCCATTCAAGATTCTTCAAAGTCCATTGTTCGTATTGTTGAGACTTTGC
CTCTTGTTGCACTAAATGATGATAGAGTTGTGGAGATACAAGGTGAGCCTGTTGGTGTCCAGAA
AGCACTGGAATCGATAGCCAGTCACTTAAGAAAATTTCTTGTTGACCGCAGTGTTCTTCCTCTT
TTTGAAGGGCAAATGAAAATGCACAATGCACAGAGGGAACAAGCAATGGCAGCTCCTCAGCCTT
GGGGCCCACCTCAACCTTGGGGCCCTCCTCCAAGCCACCTCCCTCCTGGTGGTCCAGGTTATGG
TGGACATCCACAGTTCATGCCCCCAAGGCCGCAAGACAATTATTATCCTCCCCCTGATGTCCCC
TCTATGGAAAAGCAGCCACACTACGGTATTTCTGCCTATGGACGAGAAGCACCAACTGGTGTTT
CTGCTTCTGGGAATCAACCACCATCACATGTGGCTTCTCAGGTTACACACAACATGCAAATTCC
TCTCTCCTATGCTGATGCTGTGATTGGAGCAGCTGGTGCTAGTATTAGCTATATTCGTAGGCAC
AGTGGTGCAACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAA
TTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAG
						
					

						Genomic sequence
						
							GTAATGATTTCAGCAAAGGATGAGCCAGATGCACCTATATCTCCAGCTATGGACGGGTTATTTA
GAGTCTATAAACGAATAACTGATGGTTCAGATGGTGATTCTGGTCAACCTGAAAGAAATATTAG
TAATGTAGGACCAACACGACTGCTAGTACCAGCTTCCCAAGCTGGCAGCCTTATTGGGAAACAG
GGAGCAACCATTAAATCCATTCAAGATTCTTCAAAGTCCATTGTTCGTATTGTTGGTAAGGTTT
TCCATATTTTTCTAGACATTATATTTCTTTCTCTTTCTCATATATCATACAATACATACATTGG
ATCCTTGAGGTTATATTCTCTGTCTTGCTATTCCTACATAGAGGGCATGGGAGGGAACATATTT
TTTGGACTGTCATGAAGAGAAAACCAGTGATACATCTTTTAATGCCAATTTTAACTGACACACC
AAATTACAAATTCACGCTTCTTCAATATGCATATAAGCATATTAGATCTCCATTGCTTCATGCC
ATTGCAGAATTTGGTCTAGCAAGAATAAATTAGAGCAATGTTCTGAGCTGTTAGCTGGTTTCCT
GTGAAATATTGAAAACCATATTCAGGTTTTTCTTTGTAAATATTGTTGTTCTTTTGAATGCTAA
TTAATATCAGAGGAAATAATATTGTTTGTGATGCTTTGGCACATGTCAGTGTAAAAGTCTTATT
TTATCTGTGAACCGAATGCCATGATTGTTTTTTCTGTTAGTTGCTATGGTTTGGGACCTATGTT
TTGCTTATAGCTGAATATAATTATTTTTTTATAGAGAATTGTGAGCTCTTTACCATTATGTTTT
ATTCAATTCCAATTGTTATTGTTACAACATTTGGTTGTATTATTATAAGTTTGATTGCTGTTGG
TTGATCATCTGTATTGGCATGCTGTTATAGCATATGGGGAATTCTTAATTGATACGTATATTGC
ATGTGCATATGTGATAAATATGCAAAAGGTAGTGTTAATTATCAGTCTTATGCTTATAAAAAAA
TATTATTATATTATTCCATATTTTCTTTTCAGAGACTTTGCCTCTTGTTGCACTAAATGATGAT
AGAGTTGTGGAGATACAAGGTGAGCCTGTTGGTGTCCAGAAAGCACTGGAATCGATAGCCAGTC
ACTTAAGAAAATTTCTTGTTGACCGCAGTGTTCTTCCTCTTTTTGAAGGGCAAGTAAGTTAGAT
TTTTCTCAGGCATCTGGTGAACCTCTCAGTAAATGGGTTCATTGCAAGCATTCTTTGATCACTA
AATTTTCATCTCTACAGATGAAAATGCACAATGCACAGAGGGAACAAGCAATGGCAGCTCCTCA
GCCTTGGGGCCCACCTCAACCTTGGGGCCCTCCTCCAAGCCACCTCCCTCCTGGTGGTCCAGGT
TATGGTGGACATCCACAGTTCATGCCCCCAAGGCCGCAAGACAATTATTATCCTCCCCCTGATG
TCCCCTCTATGGAAAAGCAGCCACACTACGGTATTTCTGCCTATGGACGAGAAGCACCAACTGG
TGTTTCTGCTTCTGGGAATCAACCACCATCACATGTGGCTTCTCAGGTCAGTTTTTGTTGCACT
TTGAGCTAAACACGATAGTACTTTTATCTTTAAAATGCTAATTCACGAGGCAGCTACTGATATG
TGCATCCGTCAAAAGGTTACACACAACATGCAAATTCCTCTCTCCTATGCTGATGCTGTGATTG
GAGCAGCTGGTGCTAGTATTAGCTATATTCGTAGGCACAGTGGTGCAACAGTAACTATTCAGGA
AAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGTGCATCCCAAGTCCAAACT
GCCCAGCAACTAGTCCAG
						
					

			
		

Sequences
Splice junction sequence	AACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGT GCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAGgtaatgatttcagcaaaggatgagccag atgcacctatatctccagctatggacgggttatttagagtctataaacgaataactgatggttc agatggtg
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: 876 Transcript exons: 23929449-23929695,23930505-23930653,23930746-23931030,23 931128-23931322 GTAATGATTTCAGCAAAGGATGAGCCAGATGCACCTATATCTCCAGCTATGGACGGGTTATTTA GAGTCTATAAACGAATAACTGATGGTTCAGATGGTGATTCTGGTCAACCTGAAAGAAATATTAG TAATGTAGGACCAACACGACTGCTAGTACCAGCTTCCCAAGCTGGCAGCCTTATTGGGAAACAG GGAGCAACCATTAAATCCATTCAAGATTCTTCAAAGTCCATTGTTCGTATTGTTGAGACTTTGC CTCTTGTTGCACTAAATGATGATAGAGTTGTGGAGATACAAGGTGAGCCTGTTGGTGTCCAGAA AGCACTGGAATCGATAGCCAGTCACTTAAGAAAATTTCTTGTTGACCGCAGTGTTCTTCCTCTT TTTGAAGGGCAAATGAAAATGCACAATGCACAGAGGGAACAAGCAATGGCAGCTCCTCAGCCTT GGGGCCCACCTCAACCTTGGGGCCCTCCTCCAAGCCACCTCCCTCCTGGTGGTCCAGGTTATGG TGGACATCCACAGTTCATGCCCCCAAGGCCGCAAGACAATTATTATCCTCCCCCTGATGTCCCC TCTATGGAAAAGCAGCCACACTACGGTATTTCTGCCTATGGACGAGAAGCACCAACTGGTGTTT CTGCTTCTGGGAATCAACCACCATCACATGTGGCTTCTCAGGTTACACACAACATGCAAATTCC TCTCTCCTATGCTGATGCTGTGATTGGAGCAGCTGGTGCTAGTATTAGCTATATTCGTAGGCAC AGTGGTGCAACAGTAACTATTCAGGAAAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAA TTGGTAGTGCATCCCAAGTCCAAACTGCCCAGCAACTAGTCCAG
Genomic sequence	GTAATGATTTCAGCAAAGGATGAGCCAGATGCACCTATATCTCCAGCTATGGACGGGTTATTTA GAGTCTATAAACGAATAACTGATGGTTCAGATGGTGATTCTGGTCAACCTGAAAGAAATATTAG TAATGTAGGACCAACACGACTGCTAGTACCAGCTTCCCAAGCTGGCAGCCTTATTGGGAAACAG GGAGCAACCATTAAATCCATTCAAGATTCTTCAAAGTCCATTGTTCGTATTGTTGGTAAGGTTT TCCATATTTTTCTAGACATTATATTTCTTTCTCTTTCTCATATATCATACAATACATACATTGG ATCCTTGAGGTTATATTCTCTGTCTTGCTATTCCTACATAGAGGGCATGGGAGGGAACATATTT TTTGGACTGTCATGAAGAGAAAACCAGTGATACATCTTTTAATGCCAATTTTAACTGACACACC AAATTACAAATTCACGCTTCTTCAATATGCATATAAGCATATTAGATCTCCATTGCTTCATGCC ATTGCAGAATTTGGTCTAGCAAGAATAAATTAGAGCAATGTTCTGAGCTGTTAGCTGGTTTCCT GTGAAATATTGAAAACCATATTCAGGTTTTTCTTTGTAAATATTGTTGTTCTTTTGAATGCTAA TTAATATCAGAGGAAATAATATTGTTTGTGATGCTTTGGCACATGTCAGTGTAAAAGTCTTATT TTATCTGTGAACCGAATGCCATGATTGTTTTTTCTGTTAGTTGCTATGGTTTGGGACCTATGTT TTGCTTATAGCTGAATATAATTATTTTTTTATAGAGAATTGTGAGCTCTTTACCATTATGTTTT ATTCAATTCCAATTGTTATTGTTACAACATTTGGTTGTATTATTATAAGTTTGATTGCTGTTGG TTGATCATCTGTATTGGCATGCTGTTATAGCATATGGGGAATTCTTAATTGATACGTATATTGC ATGTGCATATGTGATAAATATGCAAAAGGTAGTGTTAATTATCAGTCTTATGCTTATAAAAAAA TATTATTATATTATTCCATATTTTCTTTTCAGAGACTTTGCCTCTTGTTGCACTAAATGATGAT AGAGTTGTGGAGATACAAGGTGAGCCTGTTGGTGTCCAGAAAGCACTGGAATCGATAGCCAGTC ACTTAAGAAAATTTCTTGTTGACCGCAGTGTTCTTCCTCTTTTTGAAGGGCAAGTAAGTTAGAT TTTTCTCAGGCATCTGGTGAACCTCTCAGTAAATGGGTTCATTGCAAGCATTCTTTGATCACTA AATTTTCATCTCTACAGATGAAAATGCACAATGCACAGAGGGAACAAGCAATGGCAGCTCCTCA GCCTTGGGGCCCACCTCAACCTTGGGGCCCTCCTCCAAGCCACCTCCCTCCTGGTGGTCCAGGT TATGGTGGACATCCACAGTTCATGCCCCCAAGGCCGCAAGACAATTATTATCCTCCCCCTGATG TCCCCTCTATGGAAAAGCAGCCACACTACGGTATTTCTGCCTATGGACGAGAAGCACCAACTGG TGTTTCTGCTTCTGGGAATCAACCACCATCACATGTGGCTTCTCAGGTCAGTTTTTGTTGCACT TTGAGCTAAACACGATAGTACTTTTATCTTTAAAATGCTAATTCACGAGGCAGCTACTGATATG TGCATCCGTCAAAAGGTTACACACAACATGCAAATTCCTCTCTCCTATGCTGATGCTGTGATTG GAGCAGCTGGTGCTAGTATTAGCTATATTCGTAGGCACAGTGGTGCAACAGTAACTATTCAGGA AAGCAGAGGTGCACCTGGGGAGATGACAGTTGAGATAATTGGTAGTGCATCCCAAGTCCAAACT GCCCAGCAACTAGTCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013338 						
					
						PMCS
						0.383832813

Conservation Information
Conserved circRNAs	osi_circ_013338
PMCS	0.383832813

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23929453-23931319(+)
						
						Potential amino acid sequence
						
							MISAKDEPDAPISPAMDGLFRVYKRITDGSDGDSGQPERNISNVGPTRLLVPASQAGSLIGKQG
ATIKSIQDSSKSIVRIVETLPLVALNDDRVVEIQGEPVGVQKALESIASHLRKFLVDRSVLPLF
EGQMKMHNAQREQAMAAPQPWGPPQPWGPPPSHLPPGGPGYGGHPQFMPPRPQDNYYPPPDVPS
MEKQPHYGISAYGREAPTGVSASGNQPPSHVASQVTHNMQIPLSYADAVIGAAGASISYIRRHS
GATVTIQESRGAPGEMTVEIIGSASQVQTAQQLVQVMISAKDEPDAPISPAMDGLFRVYKRITD
GSDGDSGQPERNISNVGPTRLLVPASQAGSLIGKQGATIKSIQDSSKSIVRIVETLPLVALNDD
RVVEIQGEPVGVQKALESIASHLRKFLVDRSVLPLFEGQMKMHNAQREQAMAAPQPWGPPQPWG
PPPSHLPPGGPGYGGHPQFMPPRPQDNYYPPPDVPSMEKQPHYGISAYGREAPTGVSASGNQPP
SHVASQVTHNMQIPLSYADAVIGAAGASISYIRRHSGATVTIQESRGAPGEMTVEIIGSASQVQ
TAQQLVQVMISAKDEPDAPISPAMDGLFRVYKRITDGSDGDSGQPERNISNVGPTRLLVPASQA
GSLIGKQGATIKSIQDSSKSIVRIVETLPLVALNDDRVVEIQGEPVGVQKALESIASHLRKFLV
DRSVLPLFEGQMKMHNAQREQAMAAPQPWGPPQPWGPPPSHLPPGGPGYGGHPQFMPPRPQDNY
YPPPDVPSMEKQPHYGISAYGREAPTGVSASGNQPPSHVASQVTHNMQIPLSYADAVIGAAGAS
ISYIRRHSGATVTIQESRGAPGEMTVEIIGSASQVQTAQQLVQVMISAKDEPDAPISPAMDGLF
RVYKRITDGSDGDSGQPERNISNVGPTRLLVPASQAGSLIGKQGATIKSIQDSSKSIVRIVETL
PLVALNDDRVVEIQGEPVGVQKALESIASHLRKFLVDRSVLPLFEGQMKMHNAQREQAMAAPQP
WGPPQPWGPPPSHLPPGGPGYGGHPQFMPPRPQDNYYPPPDVPSMEKQPHYGISAYGREAPTGV
SASGNQPPSHVASQVTHNMQIPLSYADAVIGAAGASISYIRRHSGATVTIQESRGAPGEMTVEI
IGSASQVQTAQQLVQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23929453-23931319(+)
Potential amino acid sequence	MISAKDEPDAPISPAMDGLFRVYKRITDGSDGDSGQPERNISNVGPTRLLVPASQAGSLIGKQG ATIKSIQDSSKSIVRIVETLPLVALNDDRVVEIQGEPVGVQKALESIASHLRKFLVDRSVLPLF EGQMKMHNAQREQAMAAPQPWGPPQPWGPPPSHLPPGGPGYGGHPQFMPPRPQDNYYPPPDVPS MEKQPHYGISAYGREAPTGVSASGNQPPSHVASQVTHNMQIPLSYADAVIGAAGASISYIRRHS GATVTIQESRGAPGEMTVEIIGSASQVQTAQQLVQVMISAKDEPDAPISPAMDGLFRVYKRITD GSDGDSGQPERNISNVGPTRLLVPASQAGSLIGKQGATIKSIQDSSKSIVRIVETLPLVALNDD RVVEIQGEPVGVQKALESIASHLRKFLVDRSVLPLFEGQMKMHNAQREQAMAAPQPWGPPQPWG PPPSHLPPGGPGYGGHPQFMPPRPQDNYYPPPDVPSMEKQPHYGISAYGREAPTGVSASGNQPP SHVASQVTHNMQIPLSYADAVIGAAGASISYIRRHSGATVTIQESRGAPGEMTVEIIGSASQVQ TAQQLVQVMISAKDEPDAPISPAMDGLFRVYKRITDGSDGDSGQPERNISNVGPTRLLVPASQA GSLIGKQGATIKSIQDSSKSIVRIVETLPLVALNDDRVVEIQGEPVGVQKALESIASHLRKFLV DRSVLPLFEGQMKMHNAQREQAMAAPQPWGPPQPWGPPPSHLPPGGPGYGGHPQFMPPRPQDNY YPPPDVPSMEKQPHYGISAYGREAPTGVSASGNQPPSHVASQVTHNMQIPLSYADAVIGAAGAS ISYIRRHSGATVTIQESRGAPGEMTVEIIGSASQVQTAQQLVQVMISAKDEPDAPISPAMDGLF RVYKRITDGSDGDSGQPERNISNVGPTRLLVPASQAGSLIGKQGATIKSIQDSSKSIVRIVETL PLVALNDDRVVEIQGEPVGVQKALESIASHLRKFLVDRSVLPLFEGQMKMHNAQREQAMAAPQP WGPPQPWGPPPSHLPPGGPGYGGHPQFMPPRPQDNYYPPPDVPSMEKQPHYGISAYGREAPTGV SASGNQPPSHVASQVTHNMQIPLSYADAVIGAAGASISYIRRHSGATVTIQESRGAPGEMTVEI IGSASQVQTAQQLVQ(+)
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 Os03g0627500_circ_g.3

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