Plant Circular RNA Database

Detail information of Os06g0130100_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os06g0130100_circ_g.4
					
						ID in PlantcircBase
						osa_circ_029520
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 1608474-1610032  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0130100						
					
						Parent gene annotation
						
							Receptor-like kinase (RLK), Drought and salt stress tolerance (O
s06t0130100-01);Oryza sativa stress-induced protein kinase gene 
1.,Drought and salt stress tolerance.,Receptor-like kinase (RLK)
. (Os06t0130100-02);Similar to Stress-induced protein kinase. (O
s06t0130100-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0130100_circ_g.1 Os06g0130100_circ_g.2 Os06g0130100_circ_g.3 Os06g0130100_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						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
						Os06t0130100-03:1
Os06t0130100-02:10
Os06t0130100-01:10

General Information
CircRNA Name	Os06g0130100_circ_g.4
ID in PlantcircBase	osa_circ_029520
Alias	NA
Organism	Oryza sativa
Position	chr6: 1608474-1610032 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0130100
Parent gene annotation	Receptor-like kinase (RLK), Drought and salt stress tolerance (O s06t0130100-01);Oryza sativa stress-induced protein kinase gene 1.,Drought and salt stress tolerance.,Receptor-like kinase (RLK) . (Os06t0130100-02);Similar to Stress-induced protein kinase. (O s06t0130100-03)
Parent gene strand	+
Alternative splicing	Os06g0130100_circ_g.1 Os06g0130100_circ_g.2 Os06g0130100_circ_g.3 Os06g0130100_circ_g.5
Support reads	1
Tissues	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	Os06t0130100-03:1 Os06t0130100-02:10 Os06t0130100-01:10

			
						 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  
						
							TTTACTGAGCTATGGTGTTATCATGCAGGATTCTTAACAACAACAATTTGGTTGGGGAGATCCC
TGCTCAATTGGCCAACTGCTTCAGCTTAAATAACCTagacctgagtgagaacgagctggtaggg
cccattccttctatactgggcaatctatcctatactggaaaactgttagtatcatcagtcagac
tttctttt

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							AGACCTGAGTGAGAACGAGCTGGTAGGGCCCATTCCTTCTATACTGGGCAATCTATCCTATACT
GGAAAACTGTTAGTATCATCAGTCAGACTTTCTTTTTCACTGAGATTGCTTTCTTCTCTTCTCT
AACACCTACTGTCACCTTTTCCTTCAGATATTTACATGGGAACAAACTTACTGGAGTCATACCG
CCGGAGCTTGGGAACATGAGTAAACTTAGCTACCTGTAAGTGATTATATGGTATGCAGATATTG
TTGTGCTCCAGTTGGTGTGGAACACTATAAGATGTTCAGAAATTTTTCCATGCAGACAACTGAA
TGATAATGAATTGGTGGGCACAATTCCAGCAGAGCTTGGCAAACTTGAAGAGCTTTTTGAACTG
TAAGAAATTTTATCATGTCTATGAGTTACGTAGTATGCTTTATTTTATTCTGTGCAATTGTTGA
CCAAATTTTGCATGCAGAAATCTTGCCAACAACAATCTTCAAGGTCCTATTCCTGCAAACATCA
GTTCTTGCACTGCTCTAAACAAATTGTAAGTTAGCCGGTACTAAGTCAACTTATAAGTTAACAG
GGCATTTTTTACTCCACATGATTAAACATGTTTTTTTTTTGCCTCTCAGCAATGTTTATGGCAA
TAAGCTAAATGGTTCTATTCCTGCTGGTTTCCAGAAGTTGGAGAGTCTGACTTACTTGTGAGTA
ATTGTATCTGTTGCATTATGCTTACAGTAATCATTTAATTCACTCGGCGAAATTATTGTATTTC
ACCTAATGTTTTTCTTGCTTAAAAATACATTTAAAAAATACAGGAACCTATCTTCAAACAATTT
CAAAGGCAATATTCCTTCTGAGCTTGGTCACATCATCAACTTGGACACATTGTAAGTAGAAACT
TTAGCTATAATTATTTACCTGGTGTTACAAGACCTGTGGGCGCTAAATGATGTTCCTTTATTAT
TATTTTTTGAACAGGGATCTTTCCTACAATGAATTCTCTGGACCAGTTCCTGCTACCATTGGTG
ATCTAGAGCACCTTCTTGAACTGTATGTTGCGGACCAACCTCCTAGAAACCATACTGTTTTTAA
TGAAAAAACCATAACTTATTTCATATGGCCATTATTACTTGATGCCTAAATGGTTATGCTTTGA
CTGCAGGAATTTGAGTAAGAACCATCTTGATGGGCCAGTTCCTGCTGAGTTTGGAAACTTGAGA
AGCGTCCAAGTAATGTAAGTGTGTTCCCTTGAAACACATGTAACTAACTATTATCTGTTTGAAG
CCATCCTATCATCATGATTCAGCTGAACCAAAATTTAAATTCTCAGTGATATGTCCAACAACAA
CTTATCTGGTAGTCTGCCCGAGGAACTTGGACAACTTCAAAACCTTGATAGCCTGTGAGTTGTA
TATCATCATAAATTCATATTATGCGTGTGAGATCGAAAATCACCTAAATATTTTACTGAGCTAT
GGTGTTATCATGCAGGATTCTTAACAACAACAATTTGGTTGGGGAGATCCCTGCTCAATTGGCC
AACTGCTTCAGCTTAAATAACCT
						
					

			
		

Sequences
Splice junction sequence	TTTACTGAGCTATGGTGTTATCATGCAGGATTCTTAACAACAACAATTTGGTTGGGGAGATCCC TGCTCAATTGGCCAACTGCTTCAGCTTAAATAACCTagacctgagtgagaacgagctggtaggg cccattccttctatactgggcaatctatcctatactggaaaactgttagtatcatcagtcagac tttctttt
Assembled circRNA sequence	NA 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	NA
Genomic sequence	AGACCTGAGTGAGAACGAGCTGGTAGGGCCCATTCCTTCTATACTGGGCAATCTATCCTATACT GGAAAACTGTTAGTATCATCAGTCAGACTTTCTTTTTCACTGAGATTGCTTTCTTCTCTTCTCT AACACCTACTGTCACCTTTTCCTTCAGATATTTACATGGGAACAAACTTACTGGAGTCATACCG CCGGAGCTTGGGAACATGAGTAAACTTAGCTACCTGTAAGTGATTATATGGTATGCAGATATTG TTGTGCTCCAGTTGGTGTGGAACACTATAAGATGTTCAGAAATTTTTCCATGCAGACAACTGAA TGATAATGAATTGGTGGGCACAATTCCAGCAGAGCTTGGCAAACTTGAAGAGCTTTTTGAACTG TAAGAAATTTTATCATGTCTATGAGTTACGTAGTATGCTTTATTTTATTCTGTGCAATTGTTGA CCAAATTTTGCATGCAGAAATCTTGCCAACAACAATCTTCAAGGTCCTATTCCTGCAAACATCA GTTCTTGCACTGCTCTAAACAAATTGTAAGTTAGCCGGTACTAAGTCAACTTATAAGTTAACAG GGCATTTTTTACTCCACATGATTAAACATGTTTTTTTTTTGCCTCTCAGCAATGTTTATGGCAA TAAGCTAAATGGTTCTATTCCTGCTGGTTTCCAGAAGTTGGAGAGTCTGACTTACTTGTGAGTA ATTGTATCTGTTGCATTATGCTTACAGTAATCATTTAATTCACTCGGCGAAATTATTGTATTTC ACCTAATGTTTTTCTTGCTTAAAAATACATTTAAAAAATACAGGAACCTATCTTCAAACAATTT CAAAGGCAATATTCCTTCTGAGCTTGGTCACATCATCAACTTGGACACATTGTAAGTAGAAACT TTAGCTATAATTATTTACCTGGTGTTACAAGACCTGTGGGCGCTAAATGATGTTCCTTTATTAT TATTTTTTGAACAGGGATCTTTCCTACAATGAATTCTCTGGACCAGTTCCTGCTACCATTGGTG ATCTAGAGCACCTTCTTGAACTGTATGTTGCGGACCAACCTCCTAGAAACCATACTGTTTTTAA TGAAAAAACCATAACTTATTTCATATGGCCATTATTACTTGATGCCTAAATGGTTATGCTTTGA CTGCAGGAATTTGAGTAAGAACCATCTTGATGGGCCAGTTCCTGCTGAGTTTGGAAACTTGAGA AGCGTCCAAGTAATGTAAGTGTGTTCCCTTGAAACACATGTAACTAACTATTATCTGTTTGAAG CCATCCTATCATCATGATTCAGCTGAACCAAAATTTAAATTCTCAGTGATATGTCCAACAACAA CTTATCTGGTAGTCTGCCCGAGGAACTTGGACAACTTCAAAACCTTGATAGCCTGTGAGTTGTA TATCATCATAAATTCATATTATGCGTGTGAGATCGAAAATCACCTAAATATTTTACTGAGCTAT GGTGTTATCATGCAGGATTCTTAACAACAACAATTTGGTTGGGGAGATCCCTGCTCAATTGGCC AACTGCTTCAGCTTAAATAACCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.154500657

Conservation Information
Conserved circRNAs	NA
PMCS	0.154500657

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1608682-1610029(+)
1608508-1610002(-)
						
						Potential amino acid sequence
						
							MSKLSYLQLNDNELVGTIPAELGKLEELFELNLANNNLQGPIPANISSCTALNKFNVYGNKLNG
SIPAGFQKLESLTYLNLSSNNFKGNIPSELGHIINLDTLDLSYNEFSGPVPATIGDLEHLLELN
LSKNHLDGPVPAEFGNLRSVQVIDMSNNNLSGSLPEELGQLQNLDSLILNNNNLVGEIPAQLAN
CFSLNNLDLSENELVGPIPSILGNLSYTGKLYLHGNKLTGVIPPELGNMSKLSYLQLNDNELVG
TIPAELGKLEELFELNLANNNLQGPIPANISSCTALNKFNVYGNKLNGSIPAGFQKLESLTYLN
LSSNNFKGNIPSELGHIINLDTLDLSYNEFSGPVPATIGDLEHLLELNLSKNHLDGPVPAEFGN
LRSVQVIDMSNNNLSGSLPEELGQLQNLDSLILNNNNLVGEIPAQLANCFSLNNLDLSENELVG
PIPSILGNLSYTGKLYLHGNKLTGVIPPELGNMSKLSYLQLNDNELVGTIPAELGKLEELFELN
LANNNLQGPIPANISSCTALNKFNVYGNKLNGSIPAGFQKLESLTYLNLSSNNFKGNIPSELGH
IINLDTLDLSYNEFSGPVPATIGDLEHLLELNLSKNHLDGPVPAEFGNLRSVQVIDMSNNNLSG
SLPEELGQLQNLDSLILNNNNLVGEIPAQLANCFSLNNLDLSENELVGPIPSILGNLSYTGKLY
LHGNKLTGVIPPELGNMSKLSYLQLNDNELVGTIPAELGKLEELFELNLANNNLQGPIPANISS
CTALNKFNVYGNKLNGSIPAGFQKLESLTYLNLSSNNFKGNIPSELGHIINLDTLDLSYNEFSG
PVPATIGDLEHLLELNLSKNHLDGPVPAEFGNLRSVQVIDMSNNNLSGSLPEELGQLQNLDSLI
LNNNNLVGEIPAQLANCFSLNN(+)
MGPTSSFSLRSRLFKLKQLAN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1608682-1610029(+) 1608508-1610002(-)
Potential amino acid sequence	MSKLSYLQLNDNELVGTIPAELGKLEELFELNLANNNLQGPIPANISSCTALNKFNVYGNKLNG SIPAGFQKLESLTYLNLSSNNFKGNIPSELGHIINLDTLDLSYNEFSGPVPATIGDLEHLLELN LSKNHLDGPVPAEFGNLRSVQVIDMSNNNLSGSLPEELGQLQNLDSLILNNNNLVGEIPAQLAN CFSLNNLDLSENELVGPIPSILGNLSYTGKLYLHGNKLTGVIPPELGNMSKLSYLQLNDNELVG TIPAELGKLEELFELNLANNNLQGPIPANISSCTALNKFNVYGNKLNGSIPAGFQKLESLTYLN LSSNNFKGNIPSELGHIINLDTLDLSYNEFSGPVPATIGDLEHLLELNLSKNHLDGPVPAEFGN LRSVQVIDMSNNNLSGSLPEELGQLQNLDSLILNNNNLVGEIPAQLANCFSLNNLDLSENELVG PIPSILGNLSYTGKLYLHGNKLTGVIPPELGNMSKLSYLQLNDNELVGTIPAELGKLEELFELN LANNNLQGPIPANISSCTALNKFNVYGNKLNGSIPAGFQKLESLTYLNLSSNNFKGNIPSELGH IINLDTLDLSYNEFSGPVPATIGDLEHLLELNLSKNHLDGPVPAEFGNLRSVQVIDMSNNNLSG SLPEELGQLQNLDSLILNNNNLVGEIPAQLANCFSLNNLDLSENELVGPIPSILGNLSYTGKLY LHGNKLTGVIPPELGNMSKLSYLQLNDNELVGTIPAELGKLEELFELNLANNNLQGPIPANISS CTALNKFNVYGNKLNGSIPAGFQKLESLTYLNLSSNNFKGNIPSELGHIINLDTLDLSYNEFSG PVPATIGDLEHLLELNLSKNHLDGPVPAEFGNLRSVQVIDMSNNNLSGSLPEELGQLQNLDSLI LNNNNLVGEIPAQLANCFSLNN(+) MGPTSSFSLRSRLFKLKQLAN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0130100_circ_g.4

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