Plant Circular RNA Database

Detail information of Os01g0911200_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os01g0911200_circ_g.7
					
						ID in PlantcircBase
						osa_circ_005411
					
						Alias
						Os_ciR1586
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 39702073-39702446  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, circseq_cup, find_circ
					
						Parent gene
						
							Os01g0911200						
					
						Parent gene annotation
						
							Ribophorin II family protein. (Os01t0911200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0911200_circ_g.5 Os01g0911200_circ_g.6 Os01g0911200_circ_g.8 Os01g0911200_circ_g.9 Os01g0911200_circ_g.10 Os01g0911200_circ_g.11 Os01g0911200_circ_g.12 Os01g0911200_circ_g.13 Os01g0911200_circ_g.14 						
					
						Support reads
						9/5/8
					
						Tissues
						root/root/shoot, root, 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
						Os01t0911200-01:2

General Information
CircRNA Name	Os01g0911200_circ_g.7
ID in PlantcircBase	osa_circ_005411
Alias	Os_ciR1586
Organism	Oryza sativa
Position	chr1: 39702073-39702446 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, circseq_cup, find_circ
Parent gene	Os01g0911200
Parent gene annotation	Ribophorin II family protein. (Os01t0911200-01)
Parent gene strand	+
Alternative splicing	Os01g0911200_circ_g.5 Os01g0911200_circ_g.6 Os01g0911200_circ_g.8 Os01g0911200_circ_g.9 Os01g0911200_circ_g.10 Os01g0911200_circ_g.11 Os01g0911200_circ_g.12 Os01g0911200_circ_g.13 Os01g0911200_circ_g.14
Support reads	9/5/8
Tissues	root/root/shoot, root, 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	Os01t0911200-01:2

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: CCAGGCTGTTGATCCATTCTC
 R: GCAAGCTCCAGGTCATATCT
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	Yes 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	F: CCAGGCTGTTGATCCATTCTC R: GCAAGCTCCAGGTCATATCT 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  
						
							ATCGCACATATTCCGTTCACCAGAGAAGAGGCCACCCAAGGAACTCTCATTTGCGTTTACGGGC
CTCACGCTTCTGCCTATTGTTGGGTTCTTGATTGGGgactttcttggtttggtggagaaattct
actacctttctggaagatatgacctggagcttgcagttggtgatgctgcaatggtatgtaacca
tgttactg

						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: 306
Transcript exons: 39702073-39702153,39702222-39702446
GACTTTCTTGGTTTGGTGGAGAAATTCTACTACCTTTCTGGAAGATATGACCTGGAGCTTGCAG
TTGGTGATGCTGCAATGGAGAATTCATTTCTACGAGCCCTTGGCCATATTGAATTGGACCTGCC
TGAGGCCCCAGAAAAAGCCCCAAAGCCTCCGGCCCAGGCTGTTGATCCATTCTCAAAATTTGGT
CCGAAGAAGGAAATATCGCACATATTCCGTTCACCAGAGAAGAGGCCACCCAAGGAACTCTCAT
TTGCGTTTACGGGCCTCACGCTTCTGCCTATTGTTGGGTTCTTGATTGGG
						
						Genomic sequence
						
							GACTTTCTTGGTTTGGTGGAGAAATTCTACTACCTTTCTGGAAGATATGACCTGGAGCTTGCAG
TTGGTGATGCTGCAATGGTATGTAACCATGTTACTGGACTCTCATTCCCGTTTTGTTGCCCTTG
CTGATTTCTTTTTGTTCTCAGGAGAATTCATTTCTACGAGCCCTTGGCCATATTGAATTGGACC
TGCCTGAGGCCCCAGAAAAAGCCCCAAAGCCTCCGGCCCAGGCTGTTGATCCATTCTCAAAATT
TGGTCCGAAGAAGGAAATATCGCACATATTCCGTTCACCAGAGAAGAGGCCACCCAAGGAACTC
TCATTTGCGTTTACGGGCCTCACGCTTCTGCCTATTGTTGGGTTCTTGATTGGG

Sequences
Splice junction sequence	ATCGCACATATTCCGTTCACCAGAGAAGAGGCCACCCAAGGAACTCTCATTTGCGTTTACGGGC CTCACGCTTCTGCCTATTGTTGGGTTCTTGATTGGGgactttcttggtttggtggagaaattct actacctttctggaagatatgacctggagcttgcagttggtgatgctgcaatggtatgtaacca tgttactg
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: 306 Transcript exons: 39702073-39702153,39702222-39702446 GACTTTCTTGGTTTGGTGGAGAAATTCTACTACCTTTCTGGAAGATATGACCTGGAGCTTGCAG TTGGTGATGCTGCAATGGAGAATTCATTTCTACGAGCCCTTGGCCATATTGAATTGGACCTGCC TGAGGCCCCAGAAAAAGCCCCAAAGCCTCCGGCCCAGGCTGTTGATCCATTCTCAAAATTTGGT CCGAAGAAGGAAATATCGCACATATTCCGTTCACCAGAGAAGAGGCCACCCAAGGAACTCTCAT TTGCGTTTACGGGCCTCACGCTTCTGCCTATTGTTGGGTTCTTGATTGGG
Genomic sequence	GACTTTCTTGGTTTGGTGGAGAAATTCTACTACCTTTCTGGAAGATATGACCTGGAGCTTGCAG TTGGTGATGCTGCAATGGTATGTAACCATGTTACTGGACTCTCATTCCCGTTTTGTTGCCCTTG CTGATTTCTTTTTGTTCTCAGGAGAATTCATTTCTACGAGCCCTTGGCCATATTGAATTGGACC TGCCTGAGGCCCCAGAAAAAGCCCCAAAGCCTCCGGCCCAGGCTGTTGATCCATTCTCAAAATT TGGTCCGAAGAAGGAAATATCGCACATATTCCGTTCACCAGAGAAGAGGCCACCCAAGGAACTC TCATTTGCGTTTACGGGCCTCACGCTTCTGCCTATTGTTGGGTTCTTGATTGGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_011104 						
					
						PMCS
						0.403407598

Conservation Information
Conserved circRNAs	osi_circ_011104
PMCS	0.403407598

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							39702152-39702443(+)
39702398-39702426(-)
						
						Potential amino acid sequence
						
							MENSFLRALGHIELDLPEAPEKAPKPPAQAVDPFSKFGPKKEISHIFRSPEKRPPKELSFAFTG
LTLLPIVGFLIGDFLGLVEKFYYLSGRYDLELAVGDAAMENSFLRALGHIELDLPEAPEKAPKP
PAQAVDPFSKFGPKKEISHIFRSPEKRPPKELSFAFTGLTLLPIVGFLIGDFLGLVEKFYYLSG
RYDLELAVGDAAMENSFLRALGHIELDLPEAPEKAPKPPAQAVDPFSKFGPKKEISHIFRSPEK
RPPKELSFAFTGLTLLPIVGFLIGDFLGLVEKFYYLSGRYDLELAVGDAAMENSFLRALGHIEL
DLPEAPEKAPKPPAQAVDPFSKFGPKKEISHIFRSPEKRPPKELSFAFTGLTLLPIVGFLIG(+
)
MRVPWVASSLVNGICAIFPSSDQILRMDQQPGPEALGLFLGPQAGPIQYGQGLVEMNSPLQHHQ
LQAPGHIFQKGSRISPPNQESPQSRTQQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	39702152-39702443(+) 39702398-39702426(-)
Potential amino acid sequence	MENSFLRALGHIELDLPEAPEKAPKPPAQAVDPFSKFGPKKEISHIFRSPEKRPPKELSFAFTG LTLLPIVGFLIGDFLGLVEKFYYLSGRYDLELAVGDAAMENSFLRALGHIELDLPEAPEKAPKP PAQAVDPFSKFGPKKEISHIFRSPEKRPPKELSFAFTGLTLLPIVGFLIGDFLGLVEKFYYLSG RYDLELAVGDAAMENSFLRALGHIELDLPEAPEKAPKPPAQAVDPFSKFGPKKEISHIFRSPEK RPPKELSFAFTGLTLLPIVGFLIGDFLGLVEKFYYLSGRYDLELAVGDAAMENSFLRALGHIEL DLPEAPEKAPKPPAQAVDPFSKFGPKKEISHIFRSPEKRPPKELSFAFTGLTLLPIVGFLIG(+ ) MRVPWVASSLVNGICAIFPSSDQILRMDQQPGPEALGLFLGPQAGPIQYGQGLVEMNSPLQHHQ LQAPGHIFQKGSRISPPNQESPQSRTQQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os01g0911200_circ_g.7

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