Plant Circular RNA Database

Detail information of Os06g0690700_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os06g0690700_circ_g.4
					
						ID in PlantcircBase
						osa_circ_032130
					
						Alias
						Os_ciR10586
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 28794146-28796245  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os06g0690700						
					
						Parent gene annotation
						
							Similar to Potential cadmium/zinc-transporting ATPase HMA1 (EC 3
.6.3.3) (EC 3.6.3.5). (Os06t0690700-01);Similar to HMA1 (Heavy m
etal ATPase 1); copper-exporting ATPase. (Os06t0690700-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0690700_circ_g.1 Os06g0690700_circ_g.2 Os06g0690700_circ_g.3 Os06g0690700_circ_g.5 Os06g0690700_circ_g.6 						
					
						Support reads
						2
					
						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  
						
							CT-AC							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
						Os06t0690700-01:5

General Information
CircRNA Name	Os06g0690700_circ_g.4
ID in PlantcircBase	osa_circ_032130
Alias	Os_ciR10586
Organism	Oryza sativa
Position	chr6: 28794146-28796245 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os06g0690700
Parent gene annotation	Similar to Potential cadmium/zinc-transporting ATPase HMA1 (EC 3 .6.3.3) (EC 3.6.3.5). (Os06t0690700-01);Similar to HMA1 (Heavy m etal ATPase 1); copper-exporting ATPase. (Os06t0690700-02)
Parent gene strand	-
Alternative splicing	Os06g0690700_circ_g.1 Os06g0690700_circ_g.2 Os06g0690700_circ_g.3 Os06g0690700_circ_g.5 Os06g0690700_circ_g.6
Support reads	2
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	CT-AC 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	Os06t0690700-01:5

			
						 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  
						
							TTCCCATGAATATAGACGCAAATGCTGCCAGGGCCATGAGGACATGGATATTTATTTTTCCGTC
TGCAATATTTACAAGAGCATCAAGTGCTGCAGAAACcttgcttgcaagagaactgatcgcagtt
gcatatgctaatggagctacagccaatgcacatggagatgcagcaaccataagtcctagcccac
ggtaaatt

									
								

					

						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
						
							CTTGCTTGCAAGAGAACTGATCGCAGTTGCATATGCTAATGGAGCTACAGCCAATGCACATGGA
GATGCAGCAACCATAAGTCCTAGCCCACGGTAAATTGAGCCCCTACAAACTAAAGAAAATGTCA
GTGCACAGAAAGCTTGATCATATAGTCAAATCAATCAGTTCAGTGCAAATTGCATGATCATCAA
ACTTCTTTCTCCTACAATTAAACATATTGGTTCAGTACCCAGATCATTAAGAATAGCTCCCACC
TAAAGCATATTCTACAATTATCAAAGGACCTAGTCAGATTTGATCAATTATATCTGTGACAAGA
CATCTACAACACATAGTGTGACATTAGAAAAATACCTGAGTTGCCAAAAAAGGGCCACTTAAAG
AGTAATGGTCCCAGAAGTGCGACAACTAAAGACAGGACCACAACAACTCTGCTATAGTGCTCTC
CAAACTCATCTAGCCATCTTTGCAATTTGGGCTTGTTTAGCTGGCCTTCTTCTGTCAACTGGAC
GATTCTGTTGAGTGTTGAATCCTCCCACGACTTGGTGACCTACAGAAAACATAGTTGAACAGAA
GCATGAATACAATCATCTTGCAATGTGATGACAAGGTAAAATTATGGGGGAAAAGACAATCATA
ATCTATTGCACTGACTTGCCACTGTACTTGAGAGAGAATCAGAGAATAGCAAATTCGTTACAAG
TAACTACTAAACATTAAATGTAATGTTTTTTTTAATAATGTTAAAGCTAGCTTGCATCTGCTTC
TCTTTTCATAAAATATTACAGAATCATGAATCATATGCCCATCTGCCATTGTTTGCTAGAGTAT
GTAAAGTCAACTAAAGAGTGCATCGACCATAACTCCATAAGAGGATTATATTTTTCTGAGTACT
CAACACAAAGAAATCAATAATTAAAGCCAGGATAGAAAAAATGAAGTAGACAGGGACTAGAGGA
AGGGGTGGTAATGGACCCAACATTTTAGCCTACAAAATGTAACGGCTTGGTCTAAAACAGGTTG
GGCTGAGATTTAATAGATATTTTAGCTAAAAATATTTAAGGGCTAAGGTGGGTTGTGAAAGGGC
TCGTGGGCCCTAGCCCATTACCACCCCTAACTAGAGGACAAAATGAAGAAATAGCACTAAGTTG
AAGAGATTTGTTCTATCTTCACTGAAGGTATGCAACCTTCACAATCATCATTCCTTCCAAGTTC
CTGGCACCACCAGGTATAGCATCCCCAACTGTCCTTTCCAGAGGTTTTGTTTCACCAGTAAGGT
GTTCAATAGTAACTGTCGATGAACCTTGGTAAACTTCTCCATCAACAGGCACAGCCTAAAGAAT
ACAAAAACTGCACCATGATGAGATAAAATTTTGGAAAATCTAGAATAAAAGACTAGTATCAAAT
GAAACAAAATGCAAGAAGTACTGTTACACTTAGATAGGGGGAAAAGAAAAAAGAAAACCTGAAC
GATAAGAGAACATAAGTTACCAAAGGAAAACTGAATTATAGAACACAAAAGCTGGATAAAACAA
CACACCTCGCCCGCTCTAACCAAAATATGAGAACCCACTTCCAGGTCATGCACAGGAACCTTGG
TGTAACATAAATTTGCAAACTGTGCTGACTGGTCTCCACATGTTTCTAATAATAGTGCAAATTC
TGGATGATTTTCTTTCAGTTCCCTCACATCTATCATTGACTTGCTTGTAAAGTGTTCTTCAGCT
GTAAGCAATAAGAACAGAAAACTTCCGATGAGTACACAAAGTTACAAACAGATGCTAACATGAA
GAACTTTCAAAGTTTGTCACCCTTATCTCTACAATACTATGTGTTGTGCGACATTTTGTTGATG
TAATAGAAGGTTAAAACGGGCTGGCTCAGCCTTCCGTTGATTGCTCAGAGAAAGATGAAATAAG
ATGTTTCAAAGTCTGTCAAACACATTTACCAATATGAGCTAAGTTAAACATTGCAAGAAGCAGA
CCGCCCTCCAATGAGTTTCCCATGAATATAGACGCAAATGCTGCCAGGGCCATGAGGACATGGA
TATTTATTTTTCCGTCTGCAATATTTACAAGAGCATCAAGTGCTGCAGAAAC
						
					

			
		

Sequences
Splice junction sequence	TTCCCATGAATATAGACGCAAATGCTGCCAGGGCCATGAGGACATGGATATTTATTTTTCCGTC TGCAATATTTACAAGAGCATCAAGTGCTGCAGAAACcttgcttgcaagagaactgatcgcagtt gcatatgctaatggagctacagccaatgcacatggagatgcagcaaccataagtcctagcccac ggtaaatt
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	CTTGCTTGCAAGAGAACTGATCGCAGTTGCATATGCTAATGGAGCTACAGCCAATGCACATGGA GATGCAGCAACCATAAGTCCTAGCCCACGGTAAATTGAGCCCCTACAAACTAAAGAAAATGTCA GTGCACAGAAAGCTTGATCATATAGTCAAATCAATCAGTTCAGTGCAAATTGCATGATCATCAA ACTTCTTTCTCCTACAATTAAACATATTGGTTCAGTACCCAGATCATTAAGAATAGCTCCCACC TAAAGCATATTCTACAATTATCAAAGGACCTAGTCAGATTTGATCAATTATATCTGTGACAAGA CATCTACAACACATAGTGTGACATTAGAAAAATACCTGAGTTGCCAAAAAAGGGCCACTTAAAG AGTAATGGTCCCAGAAGTGCGACAACTAAAGACAGGACCACAACAACTCTGCTATAGTGCTCTC CAAACTCATCTAGCCATCTTTGCAATTTGGGCTTGTTTAGCTGGCCTTCTTCTGTCAACTGGAC GATTCTGTTGAGTGTTGAATCCTCCCACGACTTGGTGACCTACAGAAAACATAGTTGAACAGAA GCATGAATACAATCATCTTGCAATGTGATGACAAGGTAAAATTATGGGGGAAAAGACAATCATA ATCTATTGCACTGACTTGCCACTGTACTTGAGAGAGAATCAGAGAATAGCAAATTCGTTACAAG TAACTACTAAACATTAAATGTAATGTTTTTTTTAATAATGTTAAAGCTAGCTTGCATCTGCTTC TCTTTTCATAAAATATTACAGAATCATGAATCATATGCCCATCTGCCATTGTTTGCTAGAGTAT GTAAAGTCAACTAAAGAGTGCATCGACCATAACTCCATAAGAGGATTATATTTTTCTGAGTACT CAACACAAAGAAATCAATAATTAAAGCCAGGATAGAAAAAATGAAGTAGACAGGGACTAGAGGA AGGGGTGGTAATGGACCCAACATTTTAGCCTACAAAATGTAACGGCTTGGTCTAAAACAGGTTG GGCTGAGATTTAATAGATATTTTAGCTAAAAATATTTAAGGGCTAAGGTGGGTTGTGAAAGGGC TCGTGGGCCCTAGCCCATTACCACCCCTAACTAGAGGACAAAATGAAGAAATAGCACTAAGTTG AAGAGATTTGTTCTATCTTCACTGAAGGTATGCAACCTTCACAATCATCATTCCTTCCAAGTTC CTGGCACCACCAGGTATAGCATCCCCAACTGTCCTTTCCAGAGGTTTTGTTTCACCAGTAAGGT GTTCAATAGTAACTGTCGATGAACCTTGGTAAACTTCTCCATCAACAGGCACAGCCTAAAGAAT ACAAAAACTGCACCATGATGAGATAAAATTTTGGAAAATCTAGAATAAAAGACTAGTATCAAAT GAAACAAAATGCAAGAAGTACTGTTACACTTAGATAGGGGGAAAAGAAAAAAGAAAACCTGAAC GATAAGAGAACATAAGTTACCAAAGGAAAACTGAATTATAGAACACAAAAGCTGGATAAAACAA CACACCTCGCCCGCTCTAACCAAAATATGAGAACCCACTTCCAGGTCATGCACAGGAACCTTGG TGTAACATAAATTTGCAAACTGTGCTGACTGGTCTCCACATGTTTCTAATAATAGTGCAAATTC TGGATGATTTTCTTTCAGTTCCCTCACATCTATCATTGACTTGCTTGTAAAGTGTTCTTCAGCT GTAAGCAATAAGAACAGAAAACTTCCGATGAGTACACAAAGTTACAAACAGATGCTAACATGAA GAACTTTCAAAGTTTGTCACCCTTATCTCTACAATACTATGTGTTGTGCGACATTTTGTTGATG TAATAGAAGGTTAAAACGGGCTGGCTCAGCCTTCCGTTGATTGCTCAGAGAAAGATGAAATAAG ATGTTTCAAAGTCTGTCAAACACATTTACCAATATGAGCTAAGTTAAACATTGCAAGAAGCAGA CCGCCCTCCAATGAGTTTCCCATGAATATAGACGCAAATGCTGCCAGGGCCATGAGGACATGGA TATTTATTTTTCCGTCTGCAATATTTACAAGAGCATCAAGTGCTGCAGAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.217403444

Conservation Information
Conserved circRNAs	NA
PMCS	0.217403444

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							28796190-28794181(+)
28796152-28794239(+)
28796184-28794148(-)
28794208-28796231(-)
						
					

						Potential amino acid sequence
						
							MDIYFSVCNIYKSIKCCRNLACKRTDRSCIC*(+)
MNIDANAARAMRTWIFIFPSAIFTRASSAAETLLARELIAVAYANGATANAHGDAATISPSPR*
(+)
MALAAFASIFMGNSLEGGLLLAMFNLAHIAEEHFTSKSMIDVRELKENHPEFALLLETCGDQSA
QFANLCYTKVPVHDLEVGSHILVRAGEAVPVDGEVYQGSSTVTIEHLTGETKPLERTVGDAIPG
GARNLEGMMIVKVTKSWEDSTLNRIVQLTEEGQLNKPKLQRWLDEFGEHYSRVVVVLSLVVALL
GPLLFKWPFFGNSVCRGSIYRGLGLMVAASPCALAVAPLAYATAISSLASKVSAALDALVNIAD
GKINIHVLMALAAFASIFMGNSLEGGLLLAMFNLAHIAEEHFTSKSMIDVRELKENHPEFALLL
ETCGDQSAQFANLCYTKVPVHDLEVGSHILVRAGEAVPVDGEVYQGSSTVTIEHLTGETKPLER
TVGDAIPGGARNLEGMMIVKVTKSWEDSTLNRIVQLTEEGQLNKPKLQRWLDEFGEHYSRVVVV
LSLVVALLGPLLFKWPFFGNSVCRGSIYRGLGLMVAASPCALAVAPLAYATAISSLASKVSAAL
DALVNIADGKINIHVLMALAAFASIFMGNSLEGGLLLAMFNLAHIAEEHFTSKSMIDVRELKEN
HPEFALLLETCGDQSAQFANLCYTKVPVHDLEVGSHILVRAGEAVPVDGEVYQGSSTVTIEHLT
GETKPLERTVGDAIPGGARNLEGMMIVKVTKSWEDSTLNRIVQLTEEGQLNKPKLQRWLDEFGE
HYSRVVVVLSLVVALLGPLLFKWPFFGNSVCRGSIYRGLGLMVAASPCALAVAPLAYATAISSL
ASKVSAALDALVNIADGKINIHVLMALAAFASIFMGNSLEGGLLLAMFNLAHIAEEHFTSKSMI
DVRELKENHPEFALLLETCGDQSAQFANLCYTKVPVHDLEVGSHILVRAGEAVPVDGEVYQGSS
TVTIEHLTGETKPLERTVGDAIPGGARNLEGMMIVKVTKSWEDSTLNRIVQLTEEGQLNKPKLQ
RWLDEFGEHYSRVVVVLSLVVALLGPLLFKWPFFGNSVCRGSIYRGLGLMVAASPCALAVAPLA
YATAISSLASK(-)
MCIGCSSISICNCDQFSCKQGFCST*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	28796190-28794181(+) 28796152-28794239(+) 28796184-28794148(-) 28794208-28796231(-)
Potential amino acid sequence	MDIYFSVCNIYKSIKCCRNLACKRTDRSCIC(+) MNIDANAARAMRTWIFIFPSAIFTRASSAAETLLARELIAVAYANGATANAHGDAATISPSPR (+) MALAAFASIFMGNSLEGGLLLAMFNLAHIAEEHFTSKSMIDVRELKENHPEFALLLETCGDQSA QFANLCYTKVPVHDLEVGSHILVRAGEAVPVDGEVYQGSSTVTIEHLTGETKPLERTVGDAIPG GARNLEGMMIVKVTKSWEDSTLNRIVQLTEEGQLNKPKLQRWLDEFGEHYSRVVVVLSLVVALL GPLLFKWPFFGNSVCRGSIYRGLGLMVAASPCALAVAPLAYATAISSLASKVSAALDALVNIAD GKINIHVLMALAAFASIFMGNSLEGGLLLAMFNLAHIAEEHFTSKSMIDVRELKENHPEFALLL ETCGDQSAQFANLCYTKVPVHDLEVGSHILVRAGEAVPVDGEVYQGSSTVTIEHLTGETKPLER TVGDAIPGGARNLEGMMIVKVTKSWEDSTLNRIVQLTEEGQLNKPKLQRWLDEFGEHYSRVVVV LSLVVALLGPLLFKWPFFGNSVCRGSIYRGLGLMVAASPCALAVAPLAYATAISSLASKVSAAL DALVNIADGKINIHVLMALAAFASIFMGNSLEGGLLLAMFNLAHIAEEHFTSKSMIDVRELKEN HPEFALLLETCGDQSAQFANLCYTKVPVHDLEVGSHILVRAGEAVPVDGEVYQGSSTVTIEHLT GETKPLERTVGDAIPGGARNLEGMMIVKVTKSWEDSTLNRIVQLTEEGQLNKPKLQRWLDEFGE HYSRVVVVLSLVVALLGPLLFKWPFFGNSVCRGSIYRGLGLMVAASPCALAVAPLAYATAISSL ASKVSAALDALVNIADGKINIHVLMALAAFASIFMGNSLEGGLLLAMFNLAHIAEEHFTSKSMI DVRELKENHPEFALLLETCGDQSAQFANLCYTKVPVHDLEVGSHILVRAGEAVPVDGEVYQGSS TVTIEHLTGETKPLERTVGDAIPGGARNLEGMMIVKVTKSWEDSTLNRIVQLTEEGQLNKPKLQ RWLDEFGEHYSRVVVVLSLVVALLGPLLFKWPFFGNSVCRGSIYRGLGLMVAASPCALAVAPLA YATAISSLASK(-) MCIGCSSISICNCDQFSCKQGFCST*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os06g0690700_circ_g.4

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