Plant Circular RNA Database

Detail information of Os08g0436000_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0436000_circ_g.3
					
						ID in PlantcircBase
						osa_circ_037167
					
						Alias
						Os08circ09922
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 21175368-21177091  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os08g0436000						
					
						Parent gene annotation
						
							Nucleotide-binding, alpha-beta plait domain containing protein. 
(Os08t0436000-01);Hypothetical conserved gene. (Os08t0436000-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0436000_circ_g.2 Os08g0436000_circ_g.4 Os08g0436000_circ_g.5 Os08g0436000_circ_g.6 						
					
						Support reads
						2
					
						Tissues
						leaf and panicle
					
						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  
						
							CT-AC							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
						Os08t0436000-01:7
Os08t0436000-02:6

General Information
CircRNA Name	Os08g0436000_circ_g.3
ID in PlantcircBase	osa_circ_037167
Alias	Os08circ09922
Organism	Oryza sativa
Position	chr8: 21175368-21177091 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os08g0436000
Parent gene annotation	Nucleotide-binding, alpha-beta plait domain containing protein. (Os08t0436000-01);Hypothetical conserved gene. (Os08t0436000-02)
Parent gene strand	-
Alternative splicing	Os08g0436000_circ_g.2 Os08g0436000_circ_g.4 Os08g0436000_circ_g.5 Os08g0436000_circ_g.6
Support reads	2
Tissues	leaf and panicle
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	CT-AC 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	Os08t0436000-01:7 Os08t0436000-02:6

			
						 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  
						
							TGTTTGAGTACTGGATATATACAGTTTTGCCACGAACTTGAGCAGGTTCTGAAGAAGAAGCATA
ATATGAAACCATTGAAATTGCCTGGTTTTGATCTGCctggatattgaattaaggcctgcattcc
accattcttctcaaacattgcaatcttttgaacagtaccaaaagcagagaacacctgaaattat
ctcataac

									
								

					

						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: 688
Transcript exons: 21175368-21175449,21175539-21175643,21175712-21175769,21
175873-21175968,21176049-21176122,21176195-21176257,2117
6882-21177091
CTGGATATTGAATTAAGGCCTGCATTCCACCATTCTTCTCAAACATTGCAATCTTTTGAACAGT
ACCAAAAGCAGAGAACACAGTATGTAGAACATCCACCGTCACAGCATACTGCATGTTCTCTATT
GAAGCCAAAAGCACATTGCTCTCAGGCTCCTTTATCTTCCCATCAGGGCCTAAAGTGGGCTGTG
CGATTCCCTCGATTGCTGTTGGATTCACAGGAAGATATGGATTCGTGTAATCCCTGCTACGATG
TGATTGAAACTTGATATTCAAATCCTTGTGCGCAGAAAAGGTTATGCGCAGGTGACAGGTGGGG
ACATGTTCAGGAAGTAAATATCTCGGGATGCTTCTTCCATCCAACGAATTTTTTGCTTCTAGTG
CAGTTGGAGCATCAGTATATTGGATAAGTGCCTGGAAACCAGCAGCCTTCTCAAAGGTTGCTAT
CTTGTGGACAAACCCAAATGCGGAAAATACCAAATGAATGACATCTATGCTAATATCATTAGGC
TGGACACCTTCAAAAGTGACAAGAAGAACATTGCCAGAGGAATCACCAGTTCCTTTATTGTTGG
TAATTTCTTGTCTGTTTGAGTACTGGATATATACAGTTTTGCCACGAACTTGAGCAGGTTCTGA
AGAAGAAGCATAATATGAAACCATTGAAATTGCCTGGTTTTGATCTGC
						
					

						Genomic sequence
						
							CTGGATATTGAATTAAGGCCTGCATTCCACCATTCTTCTCAAACATTGCAATCTTTTGAACAGT
ACCAAAAGCAGAGAACACCTGAAATTATCTCATAACATGATTATATACTAATTTTGTCCTTATT
TTAGATAAAACACCTGGAGTCAGTAAGAATAAAATATACTTACAGTATGTAGAACATCCACCGT
CACAGCATACTGCATGTTCTCTATTGAAGCCAAAAGCACATTGCTCTCAGGCTCCTTTATCTTC
CCATCAGGGCCTAAAGTGGGCTGCATAACCTCCACTGTAAGGAAGGAGAGAAAGAACACAACGA
ATAGTATGAAATGTTAAAGCATACCTGTGCGATTCCCTCGATTGCTGTTGGATTCACAGGAAGA
TATGGATTCGTGTAATCCCTGTAACCAAACAGTTAGTGATGTGAATTTGAGTATTGTCTCATCA
AGCATATGCTAATGGAGGTTAAAATCAAATTTAAACATCGCCAGCTTCCCTCTTTACCTGCTAC
GATGTGATTGAAACTTGATATTCAAATCCTTGTGCGCAGAAAAGGTTATGCGCAGGTGACAGGT
GGGGACATGTTCAGGAAGTAAATATCTGCATGACTTGACATTTCAGTAATGCTGCATCGGAGGT
TTGTAGCGCATAATAATAATAGTTATAAAATGAAGTGCTACCTCGGGATGCTTCTTCCATCCAA
CGAATTTTTTGCTTCTAGTGCAGTTGGAGCATCAGTATATTGGATAAGTGCCTACGAAAATTCC
AGCTGATAAGCTGAACTTACAAGAATTATAGTAGCAGCTCAATATAAGAACTATCTTACCTGGA
AACCAGCAGCCTTCTCAAAGGTTGCTATCTTGTGGACAAACCCAAATGCGGAAAATACCTAAAA
CATTCACAAACCATTGCGACAAAAGATGAGGATACAAGTCCACTTTCGAGTTTCGACTAATCAG
TCGAAGAGCACATGCAAGATTATGCAGAAAGAGAAGGACATGGAGCATAGAACTGAATTGTACT
GAAGTAATGAACTTGGATGCTATTATTATATTAGTGAACATGCTATGCTGACAAGTCATATGAT
GCAGGATGACAAATTGAAGAAGTAATAAACCTGGTAGAAGAAAGAGGAGATTTTGAATTTCCCT
TGACATGGAGGTGCCATTTAAGTATCTTAACTGCCATACAATGTATGTGAAATAGGCAGTCTGC
AGTGCTTTTAAAGACTACGTGAATCATTAAGTTTTTCGCCAGGAATCAGTATGCATGTCCTAAA
GTCCATGGATTAACATTGTCTAGCAAGCATAACAAATCAATAATAGTGTGCATTTAGTAATTAG
TTTACATCAAGCCGGTTTTATTTTGATAAAGATATGTCCCGATAAAAAAAAGATCACTGTATCA
TAGCAACAGAGGCCCAAGTCAATTTTGAAATATAGGCAATATAAGTTTATTCCAACCAAGCTGT
TAGCTAAGTGAAGTGCATCACATGTAAAACATGCATACTTACCAAATGAATGACATCTATGCTA
ATATCATTAGGCTGGACACCTTCAAAAGTGACAAGAAGAACATTGCCAGAGGAATCACCAGTTC
CTTTATTGTTGGTAATTTCTTGTCTGTTTGAGTACTGGATATATACAGTTTTGCCACGAACTTG
AGCAGGTTCTGAAGAAGAAGCATAATATGAAACCATTGAAATTGCCTGGTTTTGATCTGC
						
					

			
		

Sequences
Splice junction sequence	TGTTTGAGTACTGGATATATACAGTTTTGCCACGAACTTGAGCAGGTTCTGAAGAAGAAGCATA ATATGAAACCATTGAAATTGCCTGGTTTTGATCTGCctggatattgaattaaggcctgcattcc accattcttctcaaacattgcaatcttttgaacagtaccaaaagcagagaacacctgaaattat ctcataac
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: 688 Transcript exons: 21175368-21175449,21175539-21175643,21175712-21175769,21 175873-21175968,21176049-21176122,21176195-21176257,2117 6882-21177091 CTGGATATTGAATTAAGGCCTGCATTCCACCATTCTTCTCAAACATTGCAATCTTTTGAACAGT ACCAAAAGCAGAGAACACAGTATGTAGAACATCCACCGTCACAGCATACTGCATGTTCTCTATT GAAGCCAAAAGCACATTGCTCTCAGGCTCCTTTATCTTCCCATCAGGGCCTAAAGTGGGCTGTG CGATTCCCTCGATTGCTGTTGGATTCACAGGAAGATATGGATTCGTGTAATCCCTGCTACGATG TGATTGAAACTTGATATTCAAATCCTTGTGCGCAGAAAAGGTTATGCGCAGGTGACAGGTGGGG ACATGTTCAGGAAGTAAATATCTCGGGATGCTTCTTCCATCCAACGAATTTTTTGCTTCTAGTG CAGTTGGAGCATCAGTATATTGGATAAGTGCCTGGAAACCAGCAGCCTTCTCAAAGGTTGCTAT CTTGTGGACAAACCCAAATGCGGAAAATACCAAATGAATGACATCTATGCTAATATCATTAGGC TGGACACCTTCAAAAGTGACAAGAAGAACATTGCCAGAGGAATCACCAGTTCCTTTATTGTTGG TAATTTCTTGTCTGTTTGAGTACTGGATATATACAGTTTTGCCACGAACTTGAGCAGGTTCTGA AGAAGAAGCATAATATGAAACCATTGAAATTGCCTGGTTTTGATCTGC
Genomic sequence	CTGGATATTGAATTAAGGCCTGCATTCCACCATTCTTCTCAAACATTGCAATCTTTTGAACAGT ACCAAAAGCAGAGAACACCTGAAATTATCTCATAACATGATTATATACTAATTTTGTCCTTATT TTAGATAAAACACCTGGAGTCAGTAAGAATAAAATATACTTACAGTATGTAGAACATCCACCGT CACAGCATACTGCATGTTCTCTATTGAAGCCAAAAGCACATTGCTCTCAGGCTCCTTTATCTTC CCATCAGGGCCTAAAGTGGGCTGCATAACCTCCACTGTAAGGAAGGAGAGAAAGAACACAACGA ATAGTATGAAATGTTAAAGCATACCTGTGCGATTCCCTCGATTGCTGTTGGATTCACAGGAAGA TATGGATTCGTGTAATCCCTGTAACCAAACAGTTAGTGATGTGAATTTGAGTATTGTCTCATCA AGCATATGCTAATGGAGGTTAAAATCAAATTTAAACATCGCCAGCTTCCCTCTTTACCTGCTAC GATGTGATTGAAACTTGATATTCAAATCCTTGTGCGCAGAAAAGGTTATGCGCAGGTGACAGGT GGGGACATGTTCAGGAAGTAAATATCTGCATGACTTGACATTTCAGTAATGCTGCATCGGAGGT TTGTAGCGCATAATAATAATAGTTATAAAATGAAGTGCTACCTCGGGATGCTTCTTCCATCCAA CGAATTTTTTGCTTCTAGTGCAGTTGGAGCATCAGTATATTGGATAAGTGCCTACGAAAATTCC AGCTGATAAGCTGAACTTACAAGAATTATAGTAGCAGCTCAATATAAGAACTATCTTACCTGGA AACCAGCAGCCTTCTCAAAGGTTGCTATCTTGTGGACAAACCCAAATGCGGAAAATACCTAAAA CATTCACAAACCATTGCGACAAAAGATGAGGATACAAGTCCACTTTCGAGTTTCGACTAATCAG TCGAAGAGCACATGCAAGATTATGCAGAAAGAGAAGGACATGGAGCATAGAACTGAATTGTACT GAAGTAATGAACTTGGATGCTATTATTATATTAGTGAACATGCTATGCTGACAAGTCATATGAT GCAGGATGACAAATTGAAGAAGTAATAAACCTGGTAGAAGAAAGAGGAGATTTTGAATTTCCCT TGACATGGAGGTGCCATTTAAGTATCTTAACTGCCATACAATGTATGTGAAATAGGCAGTCTGC AGTGCTTTTAAAGACTACGTGAATCATTAAGTTTTTCGCCAGGAATCAGTATGCATGTCCTAAA GTCCATGGATTAACATTGTCTAGCAAGCATAACAAATCAATAATAGTGTGCATTTAGTAATTAG TTTACATCAAGCCGGTTTTATTTTGATAAAGATATGTCCCGATAAAAAAAAGATCACTGTATCA TAGCAACAGAGGCCCAAGTCAATTTTGAAATATAGGCAATATAAGTTTATTCCAACCAAGCTGT TAGCTAAGTGAAGTGCATCACATGTAAAACATGCATACTTACCAAATGAATGACATCTATGCTA ATATCATTAGGCTGGACACCTTCAAAAGTGACAAGAAGAACATTGCCAGAGGAATCACCAGTTC CTTTATTGTTGGTAATTTCTTGTCTGTTTGAGTACTGGATATATACAGTTTTGCCACGAACTTG AGCAGGTTCTGAAGAAGAAGCATAATATGAAACCATTGAAATTGCCTGGTTTTGATCTGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007759* 						
					
						PMCS
						0.249800802

Conservation Information
Conserved circRNAs	osi_circ_007759*
PMCS	0.249800802

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21177069-21176972(-)
						
						Potential amino acid sequence
						
							MVSYYASSSEPAQVRGKTVYIQYSNRQEITNNKGTGDSSGNVLLVTFEGVQPNDISIDVIHLVF
SAFGFVHKIATFEKAAGFQALIQYTDAPTALEAKNSLDGRSIPRYLLPEHVPTCHLRITFSAHK
DLNIKFQSHRSRDYTNPYLPVNPTAIEGIAQPTLGPDGKIKEPESNVLLASIENMQYAVTVDVL
HTVFSAFGTVQKIAMFEKNGGMQALIQYPGRSKPGNFNGFILCFFFRTCSSSWQNCIYPVLKQT
RNYQQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21177069-21176972(-)
Potential amino acid sequence	MVSYYASSSEPAQVRGKTVYIQYSNRQEITNNKGTGDSSGNVLLVTFEGVQPNDISIDVIHLVF SAFGFVHKIATFEKAAGFQALIQYTDAPTALEAKNSLDGRSIPRYLLPEHVPTCHLRITFSAHK DLNIKFQSHRSRDYTNPYLPVNPTAIEGIAQPTLGPDGKIKEPESNVLLASIENMQYAVTVDVL HTVFSAFGTVQKIAMFEKNGGMQALIQYPGRSKPGNFNGFILCFFFRTCSSSWQNCIYPVLKQT RNYQQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os08g0436000_circ_g.3

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