Plant Circular RNA Database

Detail information of Os05g0235300_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os05g0235300_circ_g.5
					
						ID in PlantcircBase
						osa_circ_027120
					
						Alias
						Os05circ05987/Os_ciR10291
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 8282783-8283753  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os05g0235300						
					
						Parent gene annotation
						
							Serine/threonine (Ser/Thr) protein kinase, Modulation of thylako
id membrane lipid biosynthesis, homeostasis (Os05t0235300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0235300_circ_g.4 						
					
						Support reads
						2/2
					
						Tissues
						leaf/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  
						
							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
						Os05t0235300-01:4

General Information
CircRNA Name	Os05g0235300_circ_g.5
ID in PlantcircBase	osa_circ_027120
Alias	Os05circ05987/Os_ciR10291
Organism	Oryza sativa
Position	chr5: 8282783-8283753 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	Os05g0235300
Parent gene annotation	Serine/threonine (Ser/Thr) protein kinase, Modulation of thylako id membrane lipid biosynthesis, homeostasis (Os05t0235300-01)
Parent gene strand	+
Alternative splicing	Os05g0235300_circ_g.4
Support reads	2/2
Tissues	leaf/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	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	Os05t0235300-01:4

			
						 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  
						
							ACCAGATATTGCAGGAAAATATGTTGTTGCAGCAGTAACTGGGTATTTCTACTCTATTGCTTGC
GCATCCACGACAAAAGGTGTTGATGATAGCTTACAGgtgtggcaagccttacttgctgttagag
agttggttctccctcctaatgaagacagagacacctggataaaatttgccaaactttgctggaa
gagtggcc

									
								

					

						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: 651
Transcript exons: 8282783-8282923,8283003-8283131,8283229-8283394,8283539-
8283753
GTGTGGCAAGCCTTACTTGCTGTTAGAGAGTTGGTTCTCCCTCCTAATGAAGACAGAGACACCT
GGATAAAATTTGCCAAACTTTGCTGGAAGAGTGGCCGCATTAGTCAGGCTAAATCTACCTTAGT
CAAACTCTTACAGTTTGATCCAGAATCTTCCCCTGAATTGACGCTGTATCATGGACATCCTCAA
GTAGTCCTGGCATACCTGAAGTACCAGTATGCTGTTGGAGATGAGCTTAAACGAAGGGACGCGT
TTTGCAGGCTACAGGATTTGTCTGTGCAGCTTGCTACCGCAACAAATAGTTATTCTGGAACATT
AGCAAGCCAGGTTGCCACATCAAATGCTGGAGTACCACTTATTGCTCGCGTCTATTTGACACTT
GCTAGCTGGAAGAGAGCATTATCACCTGGGTTAGACGATGATTCTATTCAAGAAATATTGGTCT
CTTACAAAAATGCCACACTTAATGCCAAGGACTGGGGCAAGGCATGGCACTTATGGGCCTTGTT
CAACACTGAAGTCATGTCCCGCTATACTTTGCGTGGTCGACCAGATATTGCAGGAAAATATGTT
GTTGCAGCAGTAACTGGGTATTTCTACTCTATTGCTTGCGCATCCACGACAAAAGGTGTTGATG
ATAGCTTACAG
						
					

						Genomic sequence
						
							GTGTGGCAAGCCTTACTTGCTGTTAGAGAGTTGGTTCTCCCTCCTAATGAAGACAGAGACACCT
GGATAAAATTTGCCAAACTTTGCTGGAAGAGTGGCCGCATTAGTCAGGCTAAATCTACCTTAGT
CAAACTCTTACAGGTAGGCTTTAGTCATTCTTCATCAGTGTGTCTGTGCTACTCCCTCCTATAA
AATAGTTAATTCCTGTGTCAAAATGCAGTTTGATCCAGAATCTTCCCCTGAATTGACGCTGTAT
CATGGACATCCTCAAGTAGTCCTGGCATACCTGAAGTACCAGTATGCTGTTGGAGATGAGCTTA
AACGAAGGGACGCGTTTTGCAGGCTACAGGTGAGCTTGTTATTGTCCTTCGTCTTTGACCCCAA
GTTGCAGAATTATTCTGCATTTAAGTGGTTTTTTATACTTCCTTTTTGGTTTTGTGGTATAGGA
TTTGTCTGTGCAGCTTGCTACCGCAACAAATAGTTATTCTGGAACATTAGCAAGCCAGGTTGCC
ACATCAAATGCTGGAGTACCACTTATTGCTCGCGTCTATTTGACACTTGCTAGCTGGAAGAGAG
CATTATCACCTGGGTTAGACGATGATTCTATTCAAGGTCTGAATAACTTCAGTTTATTTCCCTC
TTGAGGGGTGGGTGGGCAAGATTGCCTACCAAAGTATTGAGACTTGAAAAAATAGTTATTTTAC
TTTTTGTCTGCCTGCCCGTTTTGATGTAAATATACTTTTTTTCTTTATCCAGAAATATTGGTCT
CTTACAAAAATGCCACACTTAATGCCAAGGACTGGGGCAAGGCATGGCACTTATGGGCCTTGTT
CAACACTGAAGTCATGTCCCGCTATACTTTGCGTGGTCGACCAGATATTGCAGGAAAATATGTT
GTTGCAGCAGTAACTGGGTATTTCTACTCTATTGCTTGCGCATCCACGACAAAAGGTGTTGATG
ATAGCTTACAG
						
					

			
		

Sequences
Splice junction sequence	ACCAGATATTGCAGGAAAATATGTTGTTGCAGCAGTAACTGGGTATTTCTACTCTATTGCTTGC GCATCCACGACAAAAGGTGTTGATGATAGCTTACAGgtgtggcaagccttacttgctgttagag agttggttctccctcctaatgaagacagagacacctggataaaatttgccaaactttgctggaa gagtggcc
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: 651 Transcript exons: 8282783-8282923,8283003-8283131,8283229-8283394,8283539- 8283753 GTGTGGCAAGCCTTACTTGCTGTTAGAGAGTTGGTTCTCCCTCCTAATGAAGACAGAGACACCT GGATAAAATTTGCCAAACTTTGCTGGAAGAGTGGCCGCATTAGTCAGGCTAAATCTACCTTAGT CAAACTCTTACAGTTTGATCCAGAATCTTCCCCTGAATTGACGCTGTATCATGGACATCCTCAA GTAGTCCTGGCATACCTGAAGTACCAGTATGCTGTTGGAGATGAGCTTAAACGAAGGGACGCGT TTTGCAGGCTACAGGATTTGTCTGTGCAGCTTGCTACCGCAACAAATAGTTATTCTGGAACATT AGCAAGCCAGGTTGCCACATCAAATGCTGGAGTACCACTTATTGCTCGCGTCTATTTGACACTT GCTAGCTGGAAGAGAGCATTATCACCTGGGTTAGACGATGATTCTATTCAAGAAATATTGGTCT CTTACAAAAATGCCACACTTAATGCCAAGGACTGGGGCAAGGCATGGCACTTATGGGCCTTGTT CAACACTGAAGTCATGTCCCGCTATACTTTGCGTGGTCGACCAGATATTGCAGGAAAATATGTT GTTGCAGCAGTAACTGGGTATTTCTACTCTATTGCTTGCGCATCCACGACAAAAGGTGTTGATG ATAGCTTACAG
Genomic sequence	GTGTGGCAAGCCTTACTTGCTGTTAGAGAGTTGGTTCTCCCTCCTAATGAAGACAGAGACACCT GGATAAAATTTGCCAAACTTTGCTGGAAGAGTGGCCGCATTAGTCAGGCTAAATCTACCTTAGT CAAACTCTTACAGGTAGGCTTTAGTCATTCTTCATCAGTGTGTCTGTGCTACTCCCTCCTATAA AATAGTTAATTCCTGTGTCAAAATGCAGTTTGATCCAGAATCTTCCCCTGAATTGACGCTGTAT CATGGACATCCTCAAGTAGTCCTGGCATACCTGAAGTACCAGTATGCTGTTGGAGATGAGCTTA AACGAAGGGACGCGTTTTGCAGGCTACAGGTGAGCTTGTTATTGTCCTTCGTCTTTGACCCCAA GTTGCAGAATTATTCTGCATTTAAGTGGTTTTTTATACTTCCTTTTTGGTTTTGTGGTATAGGA TTTGTCTGTGCAGCTTGCTACCGCAACAAATAGTTATTCTGGAACATTAGCAAGCCAGGTTGCC ACATCAAATGCTGGAGTACCACTTATTGCTCGCGTCTATTTGACACTTGCTAGCTGGAAGAGAG CATTATCACCTGGGTTAGACGATGATTCTATTCAAGGTCTGAATAACTTCAGTTTATTTCCCTC TTGAGGGGTGGGTGGGCAAGATTGCCTACCAAAGTATTGAGACTTGAAAAAATAGTTATTTTAC TTTTTGTCTGCCTGCCCGTTTTGATGTAAATATACTTTTTTTCTTTATCCAGAAATATTGGTCT CTTACAAAAATGCCACACTTAATGCCAAGGACTGGGGCAAGGCATGGCACTTATGGGCCTTGTT CAACACTGAAGTCATGTCCCGCTATACTTTGCGTGGTCGACCAGATATTGCAGGAAAATATGTT GTTGCAGCAGTAACTGGGTATTTCTACTCTATTGCTTGCGCATCCACGACAAAAGGTGTTGATG ATAGCTTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006086* osi_circ_016069 						
					
						PMCS
						0.483077332

Conservation Information
Conserved circRNAs	osi_circ_006086* osi_circ_016069
PMCS	0.483077332

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8283629-8283750(+)
8283741-8282849(+)
8282888-8283704(-)
						
						Potential amino acid sequence
						
							MSRYTLRGRPDIAGKYVVAAVTGYFYSIACASTTKGVDDSLQVWQALLAVRELVLPPNEDRDTW
IKFAKLCWKSGRISQAKSTLVKLLQFDPESSPELTLYHGHPQVVLAYLKYQYAVGDELKRRDAF
CRLQDLSVQLATATNSYSGTLASQVATSNAGVPLIARVYLTLASWKRALSPGLDDDSIQEILVS
YKNATLNAKDWGKAWHLWALFNTEVMSRYTLRGRPDIAGKYVVAAVTGYFYSIACASTTKGVDD
SLQVWQALLAVRELVLPPNEDRDTWIKFAKLCWKSGRISQAKSTLVKLLQFDPESSPELTLYHG
HPQVVLAYLKYQYAVGDELKRRDAFCRLQDLSVQLATATNSYSGTLASQVATSNAGVPLIARVY
LTLASWKRALSPGLDDDSIQEILVSYKNATLNAKDWGKAWHLWALFNTEVMSRYTLRGRPDIAG
KYVVAAVTGYFYSIACASTTKGVDDSLQVWQALLAVRELVLPPNEDRDTWIKFAKLCWKSGRIS
QAKSTLVKLLQFDPESSPELTLYHGHPQVVLAYLKYQYAVGDELKRRDAFCRLQDLSVQLATAT
NSYSGTLASQVATSNAGVPLIARVYLTLASWKRALSPGLDDDSIQEILVSYKNATLNAKDWGKA
WHLWALFNTEVMSRYTLRGRPDIAGKYVVAAVTGYFYSIACASTTKGVDDSLQ(+)
MIAYRCGKPYLLLESWFSLLMKTETPG*(+)
MRPLFQQSLANFIQVSLSSLGGRTNSLTASKACHTCKLSSTPFVVDAQAIE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8283629-8283750(+) 8283741-8282849(+) 8282888-8283704(-)
Potential amino acid sequence	MSRYTLRGRPDIAGKYVVAAVTGYFYSIACASTTKGVDDSLQVWQALLAVRELVLPPNEDRDTW IKFAKLCWKSGRISQAKSTLVKLLQFDPESSPELTLYHGHPQVVLAYLKYQYAVGDELKRRDAF CRLQDLSVQLATATNSYSGTLASQVATSNAGVPLIARVYLTLASWKRALSPGLDDDSIQEILVS YKNATLNAKDWGKAWHLWALFNTEVMSRYTLRGRPDIAGKYVVAAVTGYFYSIACASTTKGVDD SLQVWQALLAVRELVLPPNEDRDTWIKFAKLCWKSGRISQAKSTLVKLLQFDPESSPELTLYHG HPQVVLAYLKYQYAVGDELKRRDAFCRLQDLSVQLATATNSYSGTLASQVATSNAGVPLIARVY LTLASWKRALSPGLDDDSIQEILVSYKNATLNAKDWGKAWHLWALFNTEVMSRYTLRGRPDIAG KYVVAAVTGYFYSIACASTTKGVDDSLQVWQALLAVRELVLPPNEDRDTWIKFAKLCWKSGRIS QAKSTLVKLLQFDPESSPELTLYHGHPQVVLAYLKYQYAVGDELKRRDAFCRLQDLSVQLATAT NSYSGTLASQVATSNAGVPLIARVYLTLASWKRALSPGLDDDSIQEILVSYKNATLNAKDWGKA WHLWALFNTEVMSRYTLRGRPDIAGKYVVAAVTGYFYSIACASTTKGVDDSLQ(+) MIAYRCGKPYLLLESWFSLLMKTETPG(+) MRPLFQQSLANFIQVSLSSLGGRTNSLTASKACHTCKLSSTPFVVDAQAIE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015

circRNA

Detail information of Os05g0235300_circ_g.5

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