Plant Circular RNA Database

Detail information of Os08g0203600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0203600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_036337
					
						Alias
						Os_ciR2002
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 6034973-6035541  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os08g0203600						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os08t0203600-01);Hypothetical cons
erved gene. (Os08t0203600-02);Hypothetical conserved gene. (Os08
t0203600-03);Similar to SHR5-receptor-like kinase (Fragment). (O
s08t0203600-04);Similar to SHR5-receptor-like kinase (Fragment).
 (Os08t0203600-05);Similar to SHR5-receptor-like kinase (Fragmen
t). (Os08t0203600-06)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0203100_circ_ag.1 Os08g0203100_circ_ag.2 Os08g0203100_circ_ag.3 Os08g0203100_circ_ag.4 Os08g0203100_circ_ig.1 Os08g0203300_circ_igg.1 Os08g0203150_circ_ag.1 Os08g0203201_circ_ag.1 Os08g0203201_circ_ig.1 Os08g0203201_circ_ig.2 Os08g0203300_circ_g.1 Os08g0203300_circ_g.2 Os08g0203300_circ_g.3 Os08g0203300_circ_ag.1 Os08g0203300_circ_ag.2 Os08g0203300_circ_g.3 Os08g0203300_circ_g.4 Os08g0203300_circ_ag.5 Os08g0203300_circ_ag.6 Os08g0203300_circ_g.7 Os08g0203400_circ_ag.1 Os08g0203400_circ_ag.2 Os08g0203400_circ_ag.3 Os08g0203400_circ_ag.4 Os08g0203400_circ_ag.5 Os08g0203400_circ_ag.6 Os08g0203400_circ_ag.7 Os08g0203600_circ_g.1 Os08g0203600_circ_g.2 Os08g0203600_circ_g.4 Os08g0203600_circ_g.5 Os08g0203600_circ_ag.1 Os08g0203700_circ_g.1 Os08g0203700_circ_g.2 Os08g0203700_circ_g.3 Os08g0203700_circ_g.4 Os08g0203700_circ_g.5 						
					
						Support reads
						4/1
					
						Tissues
						root/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  
						
							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
						Os08t0203600-02:4
Os08t0203600-04:3
Os08t0203600-01:2
Os08t0203600-03:3

General Information
CircRNA Name	Os08g0203600_circ_g.3
ID in PlantcircBase	osa_circ_036337
Alias	Os_ciR2002
Organism	Oryza sativa
Position	chr8: 6034973-6035541 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os08g0203600
Parent gene annotation	Hypothetical conserved gene. (Os08t0203600-01);Hypothetical cons erved gene. (Os08t0203600-02);Hypothetical conserved gene. (Os08 t0203600-03);Similar to SHR5-receptor-like kinase (Fragment). (O s08t0203600-04);Similar to SHR5-receptor-like kinase (Fragment). (Os08t0203600-05);Similar to SHR5-receptor-like kinase (Fragmen t). (Os08t0203600-06)
Parent gene strand	+
Alternative splicing	Os08g0203100_circ_ag.1 Os08g0203100_circ_ag.2 Os08g0203100_circ_ag.3 Os08g0203100_circ_ag.4 Os08g0203100_circ_ig.1 Os08g0203300_circ_igg.1 Os08g0203150_circ_ag.1 Os08g0203201_circ_ag.1 Os08g0203201_circ_ig.1 Os08g0203201_circ_ig.2 Os08g0203300_circ_g.1 Os08g0203300_circ_g.2 Os08g0203300_circ_g.3 Os08g0203300_circ_ag.1 Os08g0203300_circ_ag.2 Os08g0203300_circ_g.3 Os08g0203300_circ_g.4 Os08g0203300_circ_ag.5 Os08g0203300_circ_ag.6 Os08g0203300_circ_g.7 Os08g0203400_circ_ag.1 Os08g0203400_circ_ag.2 Os08g0203400_circ_ag.3 Os08g0203400_circ_ag.4 Os08g0203400_circ_ag.5 Os08g0203400_circ_ag.6 Os08g0203400_circ_ag.7 Os08g0203600_circ_g.1 Os08g0203600_circ_g.2 Os08g0203600_circ_g.4 Os08g0203600_circ_g.5 Os08g0203600_circ_ag.1 Os08g0203700_circ_g.1 Os08g0203700_circ_g.2 Os08g0203700_circ_g.3 Os08g0203700_circ_g.4 Os08g0203700_circ_g.5
Support reads	4/1
Tissues	root/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	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	Os08t0203600-02:4 Os08t0203600-04:3 Os08t0203600-01:2 Os08t0203600-03:3

			
						 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  
						
							CATGTTTCATCATCTTGTATTCTACCCAATTCAGGTTTCTTGGGAACAATAGCCTAACCGGAGG
ACTGCCAGATGGGATAAGCCCTTCACTAAAAAACTTacggattggagatattgtaagtgggagc
tcttcatttgcctttgtcagtagtctgacgtctttgaatatcctgtatgtgacacttaaattct
aactatac

						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
						
							ACGGATTGGAGATATTGTAAGTGGGAGCTCTTCATTTGCCTTTGTCAGTAGTCTGACGTCTTTG
AATATCCTGTATGTGACACTTAAATTCTAACTATACATCTTGCAATTTTATATATTGACAAAGT
AATAACTTGCTAATACCGAATACTTTTTACAGTGTATTGAGGAACTGCAGGATATCTGGAGACC
TTGGAGCAGTAGACTTTTCAAAGTTCACAAAATTAGCCTTCCTGTACGTTTTTCATTATGGGTC
ATAGCACAATCCATGAAACTCTTGGTGTTTTTTCTGAAATTTCATGTGAAGTGTCTGTTCAAGT
ATGCTGTCTTGTGGCACAGGGACTTGAGTTTTAACAATATCTCGGGCAAAGTTCCTCAATCAAT
TCTGAATCTACAAATGCTTACAGACCTGTAAGGAATTCTTTCTGGAGGTTATTACATCTACAGA
AACATATGTTATATTGATGACCATGTTTCATCATCTTGTATTCTACCCAATTCAGGTTTCTTGG
GAACAATAGCCTAACCGGAGGACTGCCAGATGGGATAAGCCCTTCACTAAAAAACTT

Sequences
Splice junction sequence	CATGTTTCATCATCTTGTATTCTACCCAATTCAGGTTTCTTGGGAACAATAGCCTAACCGGAGG ACTGCCAGATGGGATAAGCCCTTCACTAAAAAACTTacggattggagatattgtaagtgggagc tcttcatttgcctttgtcagtagtctgacgtctttgaatatcctgtatgtgacacttaaattct aactatac
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	ACGGATTGGAGATATTGTAAGTGGGAGCTCTTCATTTGCCTTTGTCAGTAGTCTGACGTCTTTG AATATCCTGTATGTGACACTTAAATTCTAACTATACATCTTGCAATTTTATATATTGACAAAGT AATAACTTGCTAATACCGAATACTTTTTACAGTGTATTGAGGAACTGCAGGATATCTGGAGACC TTGGAGCAGTAGACTTTTCAAAGTTCACAAAATTAGCCTTCCTGTACGTTTTTCATTATGGGTC ATAGCACAATCCATGAAACTCTTGGTGTTTTTTCTGAAATTTCATGTGAAGTGTCTGTTCAAGT ATGCTGTCTTGTGGCACAGGGACTTGAGTTTTAACAATATCTCGGGCAAAGTTCCTCAATCAAT TCTGAATCTACAAATGCTTACAGACCTGTAAGGAATTCTTTCTGGAGGTTATTACATCTACAGA AACATATGTTATATTGATGACCATGTTTCATCATCTTGTATTCTACCCAATTCAGGTTTCTTGG GAACAATAGCCTAACCGGAGGACTGCCAGATGGGATAAGCCCTTCACTAAAAAACTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018324 						
					
						PMCS
						0.115699297

Conservation Information
Conserved circRNAs	osi_circ_018324
PMCS	0.115699297

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6035371-6035538(+)
6035009-6035376(-)
						
						Potential amino acid sequence
						
							MLTDLFLGNNSLTGGLPDGISPSLKNLRIGDIVSGSSSFAFVSSLTSLNILVLRNCRISGDLGA
VDFSKFTKLAFLDLSFNNISGKVPQSILNLQMLTDLFLGNNSLTGGLPDGISPSLKNLRIGDIV
SGSSSFAFVSSLTSLNILVLRNCRISGDLGAVDFSKFTKLAFLDLSFNNISGKVPQSILNLQML
TDLFLGNNSLTGGLPDGISPSLKNLRIGDIVSGSSSFAFVSSLTSLNILVLRNCRISGDLGAVD
FSKFTKLAFLDLSFNNISGKVPQSILNLQMLTDLFLGNNSLTGGLPDGISPSLKN(+)
MKSSHLQYLQSVSFLVKGLSHLAVLRLGYCSQETGL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6035371-6035538(+) 6035009-6035376(-)
Potential amino acid sequence	MLTDLFLGNNSLTGGLPDGISPSLKNLRIGDIVSGSSSFAFVSSLTSLNILVLRNCRISGDLGA VDFSKFTKLAFLDLSFNNISGKVPQSILNLQMLTDLFLGNNSLTGGLPDGISPSLKNLRIGDIV SGSSSFAFVSSLTSLNILVLRNCRISGDLGAVDFSKFTKLAFLDLSFNNISGKVPQSILNLQML TDLFLGNNSLTGGLPDGISPSLKNLRIGDIVSGSSSFAFVSSLTSLNILVLRNCRISGDLGAVD FSKFTKLAFLDLSFNNISGKVPQSILNLQMLTDLFLGNNSLTGGLPDGISPSLKN(+) MKSSHLQYLQSVSFLVKGLSHLAVLRLGYCSQETGL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os08g0203600_circ_g.3

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