Plant Circular RNA Database

Detail information of Os06g0509100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0509100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_031020
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 18161907-18164269  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0509100						
					
						Parent gene annotation
						
							Serine/threonine protein kinase-related domain containing protei
n. (Os06t0509100-01);Similar to Mitogen-activated protein kinase
 17. (Os06t0509100-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0509100_circ_g.1 Os06g0509100_circ_g.2 						
					
						Support reads
						2
					
						Tissues
						shoot, 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
						Os06t0509100-02:5
Os06t0509100-01:7

General Information
CircRNA Name	Os06g0509100_circ_g.3
ID in PlantcircBase	osa_circ_031020
Alias	NA
Organism	Oryza sativa
Position	chr6: 18161907-18164269 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0509100
Parent gene annotation	Serine/threonine protein kinase-related domain containing protei n. (Os06t0509100-01);Similar to Mitogen-activated protein kinase 17. (Os06t0509100-02)
Parent gene strand	-
Alternative splicing	Os06g0509100_circ_g.1 Os06g0509100_circ_g.2
Support reads	2
Tissues	shoot, 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	Os06t0509100-02:5 Os06t0509100-01:7

			
						 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  
						
							GCACGATCTTCGCCGGCCACCACTCGGAGTGCCATGAATTCCGGCGATCGTGCGTCTTCCTCGT
CCTCACCGTCGACAAGAACATCACGTAGAAGAAGAGctcttctacctgagctgccagcagccca
gcagtacaaactcatccttaagcttcagcttgttccgattaccatcatgcaacctgatacaatt
acaatggt

									
								

					

						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
						
							CTCTTCTACCTGAGCTGCCAGCAGCCCAGCAGTACAAACTCATCCTTAAGCTTCAGCTTGTTCC
GATTACCATCATGCAACCTGATACAATTACAATGGTGGGCTATTATCATTAGCTCTCCTTTTTC
CCATCATAGAACAGAAAAATAAGGTGCACATTTTATAAAATAATAGGAAAAAAAGACATAGGAA
GTAGTACCAGGAGAAAGCACATAGGACGGGAATATAAGCACTTGTTTGTTTCATTAAAGTAAAC
ATACCTCATCCACAAATATGATAACGGGAGCTAATCGGCTAGCAAAGGAGAAAAGGGCCTTTGT
CAACTTCTCAGCATCTCCAAACCACTGTTCAAAGAAAACAGAGCGGTGAAGTGGTGCTCAGATG
GGAAATAAACCTTTATCTATATGGGACAGTGCAGGAGGATGAATCTTCTAAAGAATCTCAAAAT
TTACTTATTTGGTTCCGTGAATATAAGATACAGAGTGAAATGCAAACATCACAAATAGCATTTT
AGGAGAGCATTCTAAAAAATTGCATCCACCTACTCTGCCTGCATTTATGGATACCATACATTCA
ATCAAAAGAAGATTGTCCACCATCATCCTATGCCCCAACCACCCACTAAAAAATGACTAAAGAG
TGAGGATCCTTTGGTATGATCTAGGGACATACAGAGACTTCATGCATATGATAGGATTAACAGA
ACAGAAAAGGCCTCAACCTGTCAACTACATTCGTATAATCAATGTTTTAAGAAAAAGCAGGACC
CACTCAGTTCACATGTGAACTCAGAAGTCTCAATTTGGCGTGTGATGTTACAAAACGAAGCAAA
TCTTTTGAAAGCTTAAATTGCCATCTTAAATAGGTTGACAAGTTGGTCCCGTAGACAGACTGCC
CTTTTATCTAGAATTGTATATGCAGACTGTTTCACTTATCCTTTGATTTTTTATATGTCTATTC
TACATGTGTGTAGAACTTAAAAAAAACTGTTTTGCTTCACCTTTTATCCCTTTTGGTCGTGGGA
AACATAAATATGCACAAAAAAGTTTCAGATCCAAATCAAACATGTAAAGTTTATTCTATGGGCA
AAAAATGGCTGAGGGGGCCATAGGATCCACACCTGGAAACTTTTTAGTAAAAGGAACCCGAGGC
TTTTTCCTCATGTTGCTCAGGCATCATCGAGCTTTCTCATTCCGTATCTGCAACCCATTCAATA
AATGAATGTAAAGCACATCAATTATGTATTATTTCTACAAATTACGCCTTGTTTTTTTACAATA
AATACATGGAAGAAAATAGAGTCTGTCCTTGTGCGCTATGAATGCAATATGAAGTCGCTCAGGA
AAATATACCACTCAAAACAGTACCTACATTAATAACTTGAACTATATGATTCACTGTTAGTGAT
TTTGCAGGAAATTTGTACAGAAATATGAAACAGAGGCTGATGCCCAGCTTAAATATTAAATATA
GCTGCAAAGACTTCTTCATATAGAAGTGAACACACAGACTAATGAGGAGCGAATACATTGCACT
TGAGTGAACGTACAAGCTTGCAAGGATTGAATATACCTTAGCAAGGGATTCTGCTGGAGTGCCA
AGTAGATCAGTCATGAGATCCAATTGATGCACAACATTTTTCCCTGGAAAGAGTGGCTTTCCTG
TAAGCAGCTCTGCAAATATACATCCTATGCTCCAAATATCAATTGCAGGGGTGAACTGCAAAAG
CCAATGACAAAATATCAATCAAGATATCACCTAATGTGATAAATGTCTAAGAGATCATTCTCAA
AACACCGTTGCTCCACTAATCCAAACATATCATAGTAATATAACAATGTTGGAAGAAAAAATAA
TATAGCCATCACCATTGTTAAATGGAAACGAGCTAGATCACCAGAAACGCCCTGTCAAAATTGT
GCATCATATGATCCATCAGTTTACGTCGATAAAGAGACCTGATTTAGCTGAACGTGCTGAAAAA
CGTGTGTTGGTTGCGTGTGTGCATCTCTGATTGGTGTAGAGGCCGGAAGTTATAGTCTTTTATA
TTAAAAAAAAAGTGCATGCGGGGCTTACCCTGCTCCGAAATGCGCGACCTTCCCTGTAAATATG
AAAATTCAGACGAACACCATGAGCAAGAGGAATCAAGAACGGGTGGGTGAGAGGAGGGTGACAA
TGGCGGCAAGGCAGAGGCTGTACTGACCGTAGAGCTGGATGAGAGGCGGGGGGAGGAAGAAGGG
GACGACGGTGAAGCCCATCCACAGCACGATCTTCGCCGGCCACCACTCGGAGTGCCATGAATTC
CGGCGATCGTGCGTCTTCCTCGTCCTCACCGTCGACAAGAACATCACGTAGAAGAAGAG
						
					

			
		

Sequences
Splice junction sequence	GCACGATCTTCGCCGGCCACCACTCGGAGTGCCATGAATTCCGGCGATCGTGCGTCTTCCTCGT CCTCACCGTCGACAAGAACATCACGTAGAAGAAGAGctcttctacctgagctgccagcagccca gcagtacaaactcatccttaagcttcagcttgttccgattaccatcatgcaacctgatacaatt acaatggt
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	CTCTTCTACCTGAGCTGCCAGCAGCCCAGCAGTACAAACTCATCCTTAAGCTTCAGCTTGTTCC GATTACCATCATGCAACCTGATACAATTACAATGGTGGGCTATTATCATTAGCTCTCCTTTTTC CCATCATAGAACAGAAAAATAAGGTGCACATTTTATAAAATAATAGGAAAAAAAGACATAGGAA GTAGTACCAGGAGAAAGCACATAGGACGGGAATATAAGCACTTGTTTGTTTCATTAAAGTAAAC ATACCTCATCCACAAATATGATAACGGGAGCTAATCGGCTAGCAAAGGAGAAAAGGGCCTTTGT CAACTTCTCAGCATCTCCAAACCACTGTTCAAAGAAAACAGAGCGGTGAAGTGGTGCTCAGATG GGAAATAAACCTTTATCTATATGGGACAGTGCAGGAGGATGAATCTTCTAAAGAATCTCAAAAT TTACTTATTTGGTTCCGTGAATATAAGATACAGAGTGAAATGCAAACATCACAAATAGCATTTT AGGAGAGCATTCTAAAAAATTGCATCCACCTACTCTGCCTGCATTTATGGATACCATACATTCA ATCAAAAGAAGATTGTCCACCATCATCCTATGCCCCAACCACCCACTAAAAAATGACTAAAGAG TGAGGATCCTTTGGTATGATCTAGGGACATACAGAGACTTCATGCATATGATAGGATTAACAGA ACAGAAAAGGCCTCAACCTGTCAACTACATTCGTATAATCAATGTTTTAAGAAAAAGCAGGACC CACTCAGTTCACATGTGAACTCAGAAGTCTCAATTTGGCGTGTGATGTTACAAAACGAAGCAAA TCTTTTGAAAGCTTAAATTGCCATCTTAAATAGGTTGACAAGTTGGTCCCGTAGACAGACTGCC CTTTTATCTAGAATTGTATATGCAGACTGTTTCACTTATCCTTTGATTTTTTATATGTCTATTC TACATGTGTGTAGAACTTAAAAAAAACTGTTTTGCTTCACCTTTTATCCCTTTTGGTCGTGGGA AACATAAATATGCACAAAAAAGTTTCAGATCCAAATCAAACATGTAAAGTTTATTCTATGGGCA AAAAATGGCTGAGGGGGCCATAGGATCCACACCTGGAAACTTTTTAGTAAAAGGAACCCGAGGC TTTTTCCTCATGTTGCTCAGGCATCATCGAGCTTTCTCATTCCGTATCTGCAACCCATTCAATA AATGAATGTAAAGCACATCAATTATGTATTATTTCTACAAATTACGCCTTGTTTTTTTACAATA AATACATGGAAGAAAATAGAGTCTGTCCTTGTGCGCTATGAATGCAATATGAAGTCGCTCAGGA AAATATACCACTCAAAACAGTACCTACATTAATAACTTGAACTATATGATTCACTGTTAGTGAT TTTGCAGGAAATTTGTACAGAAATATGAAACAGAGGCTGATGCCCAGCTTAAATATTAAATATA GCTGCAAAGACTTCTTCATATAGAAGTGAACACACAGACTAATGAGGAGCGAATACATTGCACT TGAGTGAACGTACAAGCTTGCAAGGATTGAATATACCTTAGCAAGGGATTCTGCTGGAGTGCCA AGTAGATCAGTCATGAGATCCAATTGATGCACAACATTTTTCCCTGGAAAGAGTGGCTTTCCTG TAAGCAGCTCTGCAAATATACATCCTATGCTCCAAATATCAATTGCAGGGGTGAACTGCAAAAG CCAATGACAAAATATCAATCAAGATATCACCTAATGTGATAAATGTCTAAGAGATCATTCTCAA AACACCGTTGCTCCACTAATCCAAACATATCATAGTAATATAACAATGTTGGAAGAAAAAATAA TATAGCCATCACCATTGTTAAATGGAAACGAGCTAGATCACCAGAAACGCCCTGTCAAAATTGT GCATCATATGATCCATCAGTTTACGTCGATAAAGAGACCTGATTTAGCTGAACGTGCTGAAAAA CGTGTGTTGGTTGCGTGTGTGCATCTCTGATTGGTGTAGAGGCCGGAAGTTATAGTCTTTTATA TTAAAAAAAAAGTGCATGCGGGGCTTACCCTGCTCCGAAATGCGCGACCTTCCCTGTAAATATG AAAATTCAGACGAACACCATGAGCAAGAGGAATCAAGAACGGGTGGGTGAGAGGAGGGTGACAA TGGCGGCAAGGCAGAGGCTGTACTGACCGTAGAGCTGGATGAGAGGCGGGGGGAGGAAGAAGGG GACGACGGTGAAGCCCATCCACAGCACGATCTTCGCCGGCCACCACTCGGAGTGCCATGAATTC CGGCGATCGTGCGTCTTCCTCGTCCTCACCGTCGACAAGAACATCACGTAGAAGAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016258 						
					
						PMCS
						0.130750409

Conservation Information
Conserved circRNAs	osi_circ_016258
PMCS	0.130750409

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18164204-18162180(+)
18161951-18163084(-)
						
						Potential amino acid sequence
						
							MNSGDRASSSSSPSTRTSRRRRALLPELPAAQQYKLILKLQLVPITIMQPHPQI*(+)
MSLYCWAAGSSGRRALLLRDVLVDGEDEEDARSPEFMALRVVAGEDRAVDGLHRRPLLPPPASH
PALREGRAFRSRGVSGDLARFHLTMFTPAIDIWSIGCIFAELLTGKPLFPGKNVVHQLDLMTDL
LGTPAESLAKIRNEKAR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18164204-18162180(+) 18161951-18163084(-)
Potential amino acid sequence	MNSGDRASSSSSPSTRTSRRRRALLPELPAAQQYKLILKLQLVPITIMQPHPQI(+) MSLYCWAAGSSGRRALLLRDVLVDGEDEEDARSPEFMALRVVAGEDRAVDGLHRRPLLPPPASH PALREGRAFRSRGVSGDLARFHLTMFTPAIDIWSIGCIFAELLTGKPLFPGKNVVHQLDLMTDL LGTPAESLAKIRNEKAR(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0509100_circ_g.3

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