Plant Circular RNA Database

Detail information of Os03g0356700_circ_g.9

			
						 General Information
					
						CircRNA Name
						Os03g0356700_circ_g.9
					
						ID in PlantcircBase
						osa_circ_019896
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 13784905-13786031  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os03g0356700						
					
						Parent gene annotation
						
							Villin, villin/gelsolin superfamily protein, Actin binding prote
in, Regulation of plant architecture (Os03t0356700-01);Similar t
o predicted protein. (Os03t0356700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0356700_circ_g.5 Os03g0356700_circ_g.6 Os03g0356700_circ_g.7 Os03g0356700_circ_g.8 Os03g0356700_circ_g.10 						
					
						Support reads
						13
					
						Tissues
						seed
					
						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
						Os03t0356700-02:3
Os03t0356700-01:3

General Information
CircRNA Name	Os03g0356700_circ_g.9
ID in PlantcircBase	osa_circ_019896
Alias	NA
Organism	Oryza sativa
Position	chr3: 13784905-13786031 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os03g0356700
Parent gene annotation	Villin, villin/gelsolin superfamily protein, Actin binding prote in, Regulation of plant architecture (Os03t0356700-01);Similar t o predicted protein. (Os03t0356700-02)
Parent gene strand	+
Alternative splicing	Os03g0356700_circ_g.5 Os03g0356700_circ_g.6 Os03g0356700_circ_g.7 Os03g0356700_circ_g.8 Os03g0356700_circ_g.10
Support reads	13
Tissues	seed
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	Os03t0356700-02:3 Os03t0356700-01:3

			
						 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  
						
							CTTGTTTTAGCACAGGATATAATACTTTTCACCCTTGAAACAGATTCATGGAAATTCATTTCAG
AAGAAGCTTTCACTTCTTTTCGGAATGCGCTCAGAGgtcactgaaattttcaacttttcacaag
atgatttgctgactgaagacatgatggttcttgatacacatggggaagtctttgtttggatggg
tcagtgtg

						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
						
							GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATGATGGTTCTTGATA
CACATGGGGAAGTCTTTGTTTGGATGGGTCAGTGTGTGGATGCTAAAGAGAAGCAGAAGGCATT
TGAAATTGGCCAGGTATGATATGAAGATTTACTCTTGCTGACTTAAATATCATCATCTTTGCTC
AACTCAGCAATAACTGCTTTATTCTCAGAAATATGCAGAACATGCGGCGGCCTTCGAATCTCTT
TCTCCTGATGTGCCTCTGTACAAAGTCGTTGAAGGGAATGAACCATGCTTCTTCAGAACTTACT
TCTCCTGGGATAACACAAGATCTGTGGTATGCTATTGGATATTTACCACTATATCTTTTTTTCT
CAGTTCTATCAATTGGAACTTTGTATTTAAGAGATTTCACCTTGGAAGCAATTTTTCGTATAAG
AGATCTATCCTATGTTCGTAGTTCATATTTCCTTCTGAGCAGCTCTAAATGTCCATCAGTACTT
CAGTACATATGCATGTAGCTACACGGAGCTCCTTCAGTGTTTTGCTATATGTTTCATTCCCTGT
TTCTTAGCTAAACTAATAAATGCCTACCACATATATGTCTCATTAGATCAGCTATTATGTTTGG
GGTAGTTTTGTGGTGTGTATGCTTAGATTGTTGCCATGTTAAACATATGGTGTCGAATCCGACT
TAAGGGTGTCATAAGAAACAAGGAAAATTTCTTTTCGTTATGCTAATTTAGGTTGGTAGTCCTC
AATAGAAGTAAAAGGGACCTGGGGAGGCAAGAAAGGATCCAGTTGATTTTAAAATAATTTAAAT
TAATCTAAAGGACTGGAGAACAAGGACATCCTTGCCCATATGAATGAATGAATGTGCACAGTTG
CTATGAGGCTGGCACATGGAAGCTATCATGCTTTCTTCAATTATTTATTCATCAATTCTGCAAG
CTTATTTTTCAGTTTGGTTGTACTTGCCTATACTGTGGTATTTGGTCGTACCATTTCTTTGCTC
ACACTTGTTTTAGCACAGGATATAATACTTTTCACCCTTGAAACAGATTCATGGAAATTCATTT
CAGAAGAAGCTTTCACTTCTTTTCGGAATGCGCTCAGAG

Sequences
Splice junction sequence	CTTGTTTTAGCACAGGATATAATACTTTTCACCCTTGAAACAGATTCATGGAAATTCATTTCAG AAGAAGCTTTCACTTCTTTTCGGAATGCGCTCAGAGgtcactgaaattttcaacttttcacaag atgatttgctgactgaagacatgatggttcttgatacacatggggaagtctttgtttggatggg tcagtgtg
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	GTCACTGAAATTTTCAACTTTTCACAAGATGATTTGCTGACTGAAGACATGATGGTTCTTGATA CACATGGGGAAGTCTTTGTTTGGATGGGTCAGTGTGTGGATGCTAAAGAGAAGCAGAAGGCATT TGAAATTGGCCAGGTATGATATGAAGATTTACTCTTGCTGACTTAAATATCATCATCTTTGCTC AACTCAGCAATAACTGCTTTATTCTCAGAAATATGCAGAACATGCGGCGGCCTTCGAATCTCTT TCTCCTGATGTGCCTCTGTACAAAGTCGTTGAAGGGAATGAACCATGCTTCTTCAGAACTTACT TCTCCTGGGATAACACAAGATCTGTGGTATGCTATTGGATATTTACCACTATATCTTTTTTTCT CAGTTCTATCAATTGGAACTTTGTATTTAAGAGATTTCACCTTGGAAGCAATTTTTCGTATAAG AGATCTATCCTATGTTCGTAGTTCATATTTCCTTCTGAGCAGCTCTAAATGTCCATCAGTACTT CAGTACATATGCATGTAGCTACACGGAGCTCCTTCAGTGTTTTGCTATATGTTTCATTCCCTGT TTCTTAGCTAAACTAATAAATGCCTACCACATATATGTCTCATTAGATCAGCTATTATGTTTGG GGTAGTTTTGTGGTGTGTATGCTTAGATTGTTGCCATGTTAAACATATGGTGTCGAATCCGACT TAAGGGTGTCATAAGAAACAAGGAAAATTTCTTTTCGTTATGCTAATTTAGGTTGGTAGTCCTC AATAGAAGTAAAAGGGACCTGGGGAGGCAAGAAAGGATCCAGTTGATTTTAAAATAATTTAAAT TAATCTAAAGGACTGGAGAACAAGGACATCCTTGCCCATATGAATGAATGAATGTGCACAGTTG CTATGAGGCTGGCACATGGAAGCTATCATGCTTTCTTCAATTATTTATTCATCAATTCTGCAAG CTTATTTTTCAGTTTGGTTGTACTTGCCTATACTGTGGTATTTGGTCGTACCATTTCTTTGCTC ACACTTGTTTTAGCACAGGATATAATACTTTTCACCCTTGAAACAGATTCATGGAAATTCATTT CAGAAGAAGCTTTCACTTCTTTTCGGAATGCGCTCAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.138707631

Conservation Information
Conserved circRNAs	NA
PMCS	0.138707631

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13784954-13786028(+)
13785980-13784941(+)
13784956-13785994(-)
						
						Potential amino acid sequence
						
							MMVLDTHGEVFVWMGQCVDAKEKQKAFEIGQKYAEHAAAFESLSPDVPLYKVVEGNEPCFFRTY
FSWDNTRSVIHGNSFQKKLSLLFGMRSEVTEIFNFSQDDLLTEDMMVLDTHGEVFVWMGQCVDA
KEKQKAFEIGQKYAEHAAAFESLSPDVPLYKVVEGNEPCFFRTYFSWDNTRSVIHGNSFQKKLS
LLFGMRSEVTEIFNFSQDDLLTEDMMVLDTHGEVFVWMGQCVDAKEKQKAFEIGQKYAEHAAAF
ESLSPDVPLYKVVEGNEPCFFRTYFSWDNTRSVIHGNSFQKKLSLLFGMRSEVTEIFNFSQDDL
LTEDMMVLDTHGEVFVWMGQCVDAKEKQKAFEIGQKYAEHAAAFESLSPDVPLYKVVEGNEPCF
FRTYFSWDNTRSVIHGNSFQKKLSLLFGMRSE(+)
MEIHFRRSFHFFSECAQRSLKFSTFHKMIC*(+)
MSSVSKSSCEKLKISVTSERIPKRSESFF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13784954-13786028(+) 13785980-13784941(+) 13784956-13785994(-)
Potential amino acid sequence	MMVLDTHGEVFVWMGQCVDAKEKQKAFEIGQKYAEHAAAFESLSPDVPLYKVVEGNEPCFFRTY FSWDNTRSVIHGNSFQKKLSLLFGMRSEVTEIFNFSQDDLLTEDMMVLDTHGEVFVWMGQCVDA KEKQKAFEIGQKYAEHAAAFESLSPDVPLYKVVEGNEPCFFRTYFSWDNTRSVIHGNSFQKKLS LLFGMRSEVTEIFNFSQDDLLTEDMMVLDTHGEVFVWMGQCVDAKEKQKAFEIGQKYAEHAAAF ESLSPDVPLYKVVEGNEPCFFRTYFSWDNTRSVIHGNSFQKKLSLLFGMRSEVTEIFNFSQDDL LTEDMMVLDTHGEVFVWMGQCVDAKEKQKAFEIGQKYAEHAAAFESLSPDVPLYKVVEGNEPCF FRTYFSWDNTRSVIHGNSFQKKLSLLFGMRSE(+) MEIHFRRSFHFFSECAQRSLKFSTFHKMIC(+) MSSVSKSSCEKLKISVTSERIPKRSESFF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0356700_circ_g.9

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