Plant Circular RNA Database

Detail information of Os05g0257100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0257100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_027189
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 9590454-9592118  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0257100						
					
						Parent gene annotation
						
							Leucine-rich repeat, plant specific containing protein. (Os05t02
57100-01);Similar to SHR5-receptor-like kinase (Fragment). (Os05
t0257100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0256500_circ_igg.1 Os05g0257100_circ_ag.1 Os05g0258400_circ_igg.1 Os05g0258400_circ_g.1 Os05g0258400_circ_g.2 Os05g0258400_circ_g.3 Os05g0258400_circ_g.4 Os05g0258400_circ_g.5 Os05g0258400_circ_igg.6 Os05g0258400_circ_g.7 Os05g0258400_circ_igg.8 Os05g0258400_circ_igg.9 Os05g0258400_circ_igg.10 Os05g0258400_circ_ig.1 						
					
						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
						Os05t0257100-01:8

General Information
CircRNA Name	Os05g0257100_circ_g.1
ID in PlantcircBase	osa_circ_027189
Alias	NA
Organism	Oryza sativa
Position	chr5: 9590454-9592118 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0257100
Parent gene annotation	Leucine-rich repeat, plant specific containing protein. (Os05t02 57100-01);Similar to SHR5-receptor-like kinase (Fragment). (Os05 t0257100-02)
Parent gene strand	+
Alternative splicing	Os05g0256500_circ_igg.1 Os05g0257100_circ_ag.1 Os05g0258400_circ_igg.1 Os05g0258400_circ_g.1 Os05g0258400_circ_g.2 Os05g0258400_circ_g.3 Os05g0258400_circ_g.4 Os05g0258400_circ_g.5 Os05g0258400_circ_igg.6 Os05g0258400_circ_g.7 Os05g0258400_circ_igg.8 Os05g0258400_circ_igg.9 Os05g0258400_circ_igg.10 Os05g0258400_circ_ig.1
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	Os05t0257100-01:8

			
						 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  
						
							CAAGTAATATTACTGTTGCACTGCACAGGGACTTGAGTTTTAACAATTTCACTGGCCAAATTCC
TCAATCCATCCTGAATCTGGGAAGTCTTGAATTCCTgaacttggctttcaatccattatccggg
caacttccgaaggaaattgggaatctcacaaatcttctcatgttgtaagaggtcttttcttagt
tgttagat

									
								

					

						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
						
							GAACTTGGCTTTCAATCCATTATCCGGGCAACTTCCGAAGGAAATTGGGAATCTCACAAATCTT
CTCATGTTGTAAGAGGTCTTTTCTTAGTTGTTAGATAAATCCTCAACTATATTATGTACTGCCT
GAACTATTAGAATTATACATCAGATATTAATTGCATAACTTCTGACAACTAAACTTATAAATGA
AATTGTAACTCTTTTATATTAGGCACAGCGATGTTACCTCCCTTTTCTCAGTATTTCACATATG
ACTTGTTTGAGTAAAATTGACCTGATGAAGACTTGAAAATACTCCAATGGAGAATATTAGGGGG
GGTCCGGGGGTCAGATGGCTCATCTGCAAAACAATGCCTTTTTTTCTGCTATTATTTGAAGAGA
AATAATTTATATCAGTCTTGAAATATTTCATTTTGATTCAGGGGAGTTAGCTTTAACAATTTTA
CGGGTGAACTTCCTGAAGAACTGGGAAATTTGGTGAAACTTGAGCAGTTGTAAGATGCTTGACT
TCTAGCTTCCATTTCCTATACTTCTAAAAGAACTATAATTCGGAAGAGAAAGATCTGTTGTTGA
ACGTGATAATTTCAATGACAGGTACATTGATAGTTCTGGATTCAGCGGTCCATTCCCTTTGACG
TTTTCAAAGCTTCAGAGGCTGAAGATCTTGTACTGTTAATAACAGAGACTGGTCAGCTGTTTAT
GTTATTTTGTGTTCTCATATGCTTAATATCAAATATTTTGGTGTGCTTGCAGGAGGGCACAAGA
TAATGATTTCACAGGCAAAATACCTGATAATTTTGGCAGCATGAGTAGTTTGGAAGATATGTAA
GATCAGCTATATTAAGTTGTTAATAATACATTATTCAGTGTATATTATGCAGTAACAGATGGAA
ACTGTGCAATATAAATTTTTTGTATATGTTTCTCTTCTCTGTCCTGACTAAACAGACGTGCACA
CATGCATGCCAATAAGCTGGCCCTATGGCATGTTAATGCGTAGAGTTTTTATCTAGAATAGTTG
ACATGGAGAGCTTCTTTTTTTATTATATTAAAATAGACAGGCATATCTCCACATTTTATCTTAA
AGTATGAACTTGTAGGGCTTTCCAAGGAAATTCATTTGAAGGACCAATCCCAGCAAGTTTGTCA
AAATTAACCAAATTAACAAACTTGTAAGTACATTATCTTTTTTTTGTGCTATCAATCTCTAGAG
GGTTGAGATTGTCAAGCTTGATAACTGCTTCATGAAACGCAAATGAGCAGGCGAATTGGTGATA
TCGTAAATGGGAGCTCTTCACTGGCTTTTATAAGCAATCTCACCTCTTTGAGCAACATGTATGT
GATTCTTTTAACCAAATTCATGCAATATTGATAAAGTTACATGTAACGAGATTGGATTTCATTG
TTACAGGATATTAAGGAACTGTAGAATATCTGGTAATCTTGGACTAGTAGATTTCTCGAAGTTT
GCAAATCTAACATATCTGTAAGTTATCATTATGGACCATGTTCCAATTTATGATTCTATCGCGC
TCCTTTCCTGTATTTTTGAAGAATATGTTCAAGTAATATTACTGTTGCACTGCACAGGGACTTG
AGTTTTAACAATTTCACTGGCCAAATTCCTCAATCCATCCTGAATCTGGGAAGTCTTGAATTCC
T
						
					

			
		

Sequences
Splice junction sequence	CAAGTAATATTACTGTTGCACTGCACAGGGACTTGAGTTTTAACAATTTCACTGGCCAAATTCC TCAATCCATCCTGAATCTGGGAAGTCTTGAATTCCTgaacttggctttcaatccattatccggg caacttccgaaggaaattgggaatctcacaaatcttctcatgttgtaagaggtcttttcttagt tgttagat
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	GAACTTGGCTTTCAATCCATTATCCGGGCAACTTCCGAAGGAAATTGGGAATCTCACAAATCTT CTCATGTTGTAAGAGGTCTTTTCTTAGTTGTTAGATAAATCCTCAACTATATTATGTACTGCCT GAACTATTAGAATTATACATCAGATATTAATTGCATAACTTCTGACAACTAAACTTATAAATGA AATTGTAACTCTTTTATATTAGGCACAGCGATGTTACCTCCCTTTTCTCAGTATTTCACATATG ACTTGTTTGAGTAAAATTGACCTGATGAAGACTTGAAAATACTCCAATGGAGAATATTAGGGGG GGTCCGGGGGTCAGATGGCTCATCTGCAAAACAATGCCTTTTTTTCTGCTATTATTTGAAGAGA AATAATTTATATCAGTCTTGAAATATTTCATTTTGATTCAGGGGAGTTAGCTTTAACAATTTTA CGGGTGAACTTCCTGAAGAACTGGGAAATTTGGTGAAACTTGAGCAGTTGTAAGATGCTTGACT TCTAGCTTCCATTTCCTATACTTCTAAAAGAACTATAATTCGGAAGAGAAAGATCTGTTGTTGA ACGTGATAATTTCAATGACAGGTACATTGATAGTTCTGGATTCAGCGGTCCATTCCCTTTGACG TTTTCAAAGCTTCAGAGGCTGAAGATCTTGTACTGTTAATAACAGAGACTGGTCAGCTGTTTAT GTTATTTTGTGTTCTCATATGCTTAATATCAAATATTTTGGTGTGCTTGCAGGAGGGCACAAGA TAATGATTTCACAGGCAAAATACCTGATAATTTTGGCAGCATGAGTAGTTTGGAAGATATGTAA GATCAGCTATATTAAGTTGTTAATAATACATTATTCAGTGTATATTATGCAGTAACAGATGGAA ACTGTGCAATATAAATTTTTTGTATATGTTTCTCTTCTCTGTCCTGACTAAACAGACGTGCACA CATGCATGCCAATAAGCTGGCCCTATGGCATGTTAATGCGTAGAGTTTTTATCTAGAATAGTTG ACATGGAGAGCTTCTTTTTTTATTATATTAAAATAGACAGGCATATCTCCACATTTTATCTTAA AGTATGAACTTGTAGGGCTTTCCAAGGAAATTCATTTGAAGGACCAATCCCAGCAAGTTTGTCA AAATTAACCAAATTAACAAACTTGTAAGTACATTATCTTTTTTTTGTGCTATCAATCTCTAGAG GGTTGAGATTGTCAAGCTTGATAACTGCTTCATGAAACGCAAATGAGCAGGCGAATTGGTGATA TCGTAAATGGGAGCTCTTCACTGGCTTTTATAAGCAATCTCACCTCTTTGAGCAACATGTATGT GATTCTTTTAACCAAATTCATGCAATATTGATAAAGTTACATGTAACGAGATTGGATTTCATTG TTACAGGATATTAAGGAACTGTAGAATATCTGGTAATCTTGGACTAGTAGATTTCTCGAAGTTT GCAAATCTAACATATCTGTAAGTTATCATTATGGACCATGTTCCAATTTATGATTCTATCGCGC TCCTTTCCTGTATTTTTGAAGAATATGTTCAAGTAATATTACTGTTGCACTGCACAGGGACTTG AGTTTTAACAATTTCACTGGCCAAATTCCTCAATCCATCCTGAATCTGGGAAGTCTTGAATTCC T

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.410782141

Conservation Information
Conserved circRNAs	NA
PMCS	0.410782141

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9590522-9592115(+)
9591058-9592085(-)
						
						Potential amino acid sequence
						
							MLGVSFNNFTGELPEELGNLVKLEQLYIDSSGFSGPFPLTFSKLQRLKILRAQDNDFTGKIPDN
FGSMSSLEDMAFQGNSFEGPIPASLSKLTKLTNLRIGDIVNGSSSLAFISNLTSLSNMILRNCR
ISGNLGLVDFSKFANLTYLDLSFNNFTGQIPQSILNLGSLEFLNLAFNPLSGQLPKEIGNLTNL
LMLGVSFNNFTGELPEELGNLVKLEQLYIDSSGFSGPFPLTFSKLQRLKILRAQDNDFTGKIPD
NFGSMSSLEDMAFQGNSFEGPIPASLSKLTKLTNLRIGDIVNGSSSLAFISNLTSLSNMILRNC
RISGNLGLVDFSKFANLTYLDLSFNNFTGQIPQSILNLGSLEFLNLAFNPLSGQLPKEIGNLTN
LLMLGVSFNNFTGELPEELGNLVKLEQLYIDSSGFSGPFPLTFSKLQRLKILRAQDNDFTGKIP
DNFGSMSSLEDMAFQGNSFEGPIPASLSKLTKLTNLRIGDIVNGSSSLAFISNLTSLSNMILRN
CRISGNLGLVDFSKFANLTYLDLSFNNFTGQIPQSILNLGSLEFLNLAFNPLSGQLPKEIGNLT
NLLMLGVSFNNFTGELPEELGNLVKLEQLYIDSSGFSGPFPLTFSKLQRLKILRAQDNDFTGKI
PDNFGSMSSLEDMAFQGNSFEGPIPASLSKLTKLTNLRIGDIVNGSSSLAFISNLTSLSNMILR
NCRISGNLGLVDFSKFANLTYLDLSFNNFTGQIPQSILNLGSLEF(+)
MYNCSSFTKFPSSSGSSPVKLLKLTPNMRRFVRFPISFGSCPDNGLKAKFRNSRLPRFRMD*(-
)
						
						Sponge-miRNAs
						
							osa-miR2919 osa-miR2095-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9590522-9592115(+) 9591058-9592085(-)
Potential amino acid sequence	MLGVSFNNFTGELPEELGNLVKLEQLYIDSSGFSGPFPLTFSKLQRLKILRAQDNDFTGKIPDN FGSMSSLEDMAFQGNSFEGPIPASLSKLTKLTNLRIGDIVNGSSSLAFISNLTSLSNMILRNCR ISGNLGLVDFSKFANLTYLDLSFNNFTGQIPQSILNLGSLEFLNLAFNPLSGQLPKEIGNLTNL LMLGVSFNNFTGELPEELGNLVKLEQLYIDSSGFSGPFPLTFSKLQRLKILRAQDNDFTGKIPD NFGSMSSLEDMAFQGNSFEGPIPASLSKLTKLTNLRIGDIVNGSSSLAFISNLTSLSNMILRNC RISGNLGLVDFSKFANLTYLDLSFNNFTGQIPQSILNLGSLEFLNLAFNPLSGQLPKEIGNLTN LLMLGVSFNNFTGELPEELGNLVKLEQLYIDSSGFSGPFPLTFSKLQRLKILRAQDNDFTGKIP DNFGSMSSLEDMAFQGNSFEGPIPASLSKLTKLTNLRIGDIVNGSSSLAFISNLTSLSNMILRN CRISGNLGLVDFSKFANLTYLDLSFNNFTGQIPQSILNLGSLEFLNLAFNPLSGQLPKEIGNLT NLLMLGVSFNNFTGELPEELGNLVKLEQLYIDSSGFSGPFPLTFSKLQRLKILRAQDNDFTGKI PDNFGSMSSLEDMAFQGNSFEGPIPASLSKLTKLTNLRIGDIVNGSSSLAFISNLTSLSNMILR NCRISGNLGLVDFSKFANLTYLDLSFNNFTGQIPQSILNLGSLEF(+) MYNCSSFTKFPSSSGSSPVKLLKLTPNMRRFVRFPISFGSCPDNGLKAKFRNSRLPRFRMD*(- )
Sponge-miRNAs	osa-miR2919 osa-miR2095-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0257100_circ_g.1

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