Plant Circular RNA Database

Detail information of Os04g0658000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0658000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_025756
					
						Alias
						Os_ciR9652
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 33560233-33561840  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os04g0658000						
					
						Parent gene annotation
						
							Similar to OSIGBa0132E09-OSIGBa0108L24.1 protein. (Os04t0658000-
01);Similar to Possible apospory-associated like protein. (Os04t
0658000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0658000_circ_g.2 Os04g0658000_circ_g.3 Os04g0658000_circ_g.4 Os04g0658000_circ_g.5 Os04g0658000_circ_g.6 						
					
						Support reads
						2
					
						Tissues
						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
						Os04t0658000-02:6
Os04t0658000-01:2

General Information
CircRNA Name	Os04g0658000_circ_g.1
ID in PlantcircBase	osa_circ_025756
Alias	Os_ciR9652
Organism	Oryza sativa
Position	chr4: 33560233-33561840 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os04g0658000
Parent gene annotation	Similar to OSIGBa0132E09-OSIGBa0108L24.1 protein. (Os04t0658000- 01);Similar to Possible apospory-associated like protein. (Os04t 0658000-02)
Parent gene strand	+
Alternative splicing	Os04g0658000_circ_g.2 Os04g0658000_circ_g.3 Os04g0658000_circ_g.4 Os04g0658000_circ_g.5 Os04g0658000_circ_g.6
Support reads	2
Tissues	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	Os04t0658000-02:6 Os04t0658000-01:2

			
						 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  
						
							TTGGACAGAATATATCTGGGCACACCGTCAAAAATTGCCATTATTGATCATGAGAAGAAAAGAA
CATTTGTTGTGAGGAAAGGTGGCCTTCCTGATGCTGgtgtacctgtatggcggccatgtcacat
catggaaagatgagcatggagaggagctgctttttgttagtaataaggtgatattatttcctat
ctttagta

									
								

					

						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: 1223
Transcript exons: 33560233-33560307,33560693-33561840
GTGTACCTGTATGGCGGCCATGTCACATCATGGAAAGATGAGCATGGAGAGGAGCTGCTTTTTG
TTAGTAATAAGGCTATTTTCAAACCTCCAAAAGCTATACGTGGAGGGATACCAATCTGCTTTCC
TCAGGTCCGTGCTTTTCCTTTCCTGCATTTTTTTTTTGCTCGTAATCTCTTCCGCTTTCTCAAA
TTTTAATTTTGCTCAGTACTTCGTATTCTAGTTTTCCAACTTCGGAAATCTGGACCCACATGGC
TTTGCAAGGAACAGGACCTGGAGTGTTGAAAATGATCCACCACCATTTCCAGTACCAACTTCTA
ATAAAGCTTACGTCGATTTAATCCTTACGCATACTGAAGAAGATCTAAAGATCTGGCCACATAG
GTGGGCATATACTAAATAATTACATGTTAATAGTAAATTAATTACCATTGTAAGATAATTGAAA
GTTTTTTTCCCTCTATTTCTTATCATATAATTGTTTTAGTAGAAGACAAGGTAGCTGTTCACAT
GGATCAGTAAAAGCAAATCCTTTATTTCAGTTACGAGTTCCGTCTGAGAGTTGCACTTGGACCT
GGTGGAGATCTGATGCTGACTTCACGTATAAGAAATACCAATGCAGATGGAAAGCCATTCTCAT
TTACATTTGCATATCACACATACTTTTCAATATCTGATATCAGGTACACTTGTTTAACTCTCGA
CAAAGCCCATCAGTTCTGAAAAATTCATTTCAAAGGCACAGTGCAGTATTGGAAGTGATCATGT
TTATTATCCACCTAATATGTTTGTCTAAAATGTGGGCTTAATTAATGGAAAATGTTTCTGTATG
TTTATCCACAATGAAGAATTCCTTTTCCATTTCAAATGTATTTCCATAGACATACAGAAACAAT
TTCTTCATTGTGCATAACTTTATGCTAATATTTCAGCGAGGTGCGAGTAGAAGGCCTGGAAACT
CTGGATTACCTAGACAACTTACAAGAGAGAAATCGATACACTGAACAAGGGGATGCAATTGTTT
TTGAATCTGAAGTGCGTTAACAAAACATTTGAACCTTACACTATCCTTCATTTTTCTTTGCATT
CTAACTAAGGAAGCAAATGCAAACTTATTGTACAGTTGGACAGAATATATCTGGGCACACCGTC
AAAAATTGCCATTATTGATCATGAGAAGAAAAGAACATTTGTTGTGAGGAAAGGTGGCCTTCCT
GATGCTG
Transcript length: 637
Transcript exons: 33560233-33560307,33560693-33560749,33560841-33561001,33
561160-33561300,33561550-33561652,33561741-33561840
GTGTACCTGTATGGCGGCCATGTCACATCATGGAAAGATGAGCATGGAGAGGAGCTGCTTTTTG
TTAGTAATAAGGCTATTTTCAAACCTCCAAAAGCTATACGTGGAGGGATACCAATCTGCTTTCC
TCAGTTTTCCAACTTCGGAAATCTGGACCCACATGGCTTTGCAAGGAACAGGACCTGGAGTGTT
GAAAATGATCCACCACCATTTCCAGTACCAACTTCTAATAAAGCTTACGTCGATTTAATCCTTA
CGCATACTGAAGAAGATCTAAAGATCTGGCCACATAGTTACGAGTTCCGTCTGAGAGTTGCACT
TGGACCTGGTGGAGATCTGATGCTGACTTCACGTATAAGAAATACCAATGCAGATGGAAAGCCA
TTCTCATTTACATTTGCATATCACACATACTTTTCAATATCTGATATCAGCGAGGTGCGAGTAG
AAGGCCTGGAAACTCTGGATTACCTAGACAACTTACAAGAGAGAAATCGATACACTGAACAAGG
GGATGCAATTGTTTTTGAATCTGAATTGGACAGAATATATCTGGGCACACCGTCAAAAATTGCC
ATTATTGATCATGAGAAGAAAAGAACATTTGTTGTGAGGAAAGGTGGCCTTCCTGATGCTG
						
					

						Genomic sequence
						
							GTGTACCTGTATGGCGGCCATGTCACATCATGGAAAGATGAGCATGGAGAGGAGCTGCTTTTTG
TTAGTAATAAGGTGATATTATTTCCTATCTTTAGTATGGGCAATTGGGCACATCTCAGTGCCTC
TAAAATTCTTCCATCATTGTTTTGGCTGTACCATAAGCCTGTCTGAGAGACTGATACTAGGCTA
ATTCAACTGGTAGAATATGATCCTTACCCTTAATTTCATTATCATCCAGACATGCATACCTATT
CTCATAAACCATGTACCTCTTTGTTATCGTCCACCTTATGTTTTTGTGGTAATGATGTGACAAA
GATTGTATTGCCACATCCCTGCTACTCATTTGACCTCGACATGGCAATAAAATTTGATTATGAA
TCTTACTGGATTTTTTTATTCCATGTATTTCTTTAATTGCCTAAGAGTTGCTTGGCTGATGCCT
GTGTTCTCTCAGGCTATTTTCAAACCTCCAAAAGCTATACGTGGAGGGATACCAATCTGCTTTC
CTCAGGTCCGTGCTTTTCCTTTCCTGCATTTTTTTTTTGCTCGTAATCTCTTCCGCTTTCTCAA
ATTTTAATTTTGCTCAGTACTTCGTATTCTAGTTTTCCAACTTCGGAAATCTGGACCCACATGG
CTTTGCAAGGAACAGGACCTGGAGTGTTGAAAATGATCCACCACCATTTCCAGTACCAACTTCT
AATAAAGCTTACGTCGATTTAATCCTTACGCATACTGAAGAAGATCTAAAGATCTGGCCACATA
GGTGGGCATATACTAAATAATTACATGTTAATAGTAAATTAATTACCATTGTAAGATAATTGAA
AGTTTTTTTCCCTCTATTTCTTATCATATAATTGTTTTAGTAGAAGACAAGGTAGCTGTTCACA
TGGATCAGTAAAAGCAAATCCTTTATTTCAGTTACGAGTTCCGTCTGAGAGTTGCACTTGGACC
TGGTGGAGATCTGATGCTGACTTCACGTATAAGAAATACCAATGCAGATGGAAAGCCATTCTCA
TTTACATTTGCATATCACACATACTTTTCAATATCTGATATCAGGTACACTTGTTTAACTCTCG
ACAAAGCCCATCAGTTCTGAAAAATTCATTTCAAAGGCACAGTGCAGTATTGGAAGTGATCATG
TTTATTATCCACCTAATATGTTTGTCTAAAATGTGGGCTTAATTAATGGAAAATGTTTCTGTAT
GTTTATCCACAATGAAGAATTCCTTTTCCATTTCAAATGTATTTCCATAGACATACAGAAACAA
TTTCTTCATTGTGCATAACTTTATGCTAATATTTCAGCGAGGTGCGAGTAGAAGGCCTGGAAAC
TCTGGATTACCTAGACAACTTACAAGAGAGAAATCGATACACTGAACAAGGGGATGCAATTGTT
TTTGAATCTGAAGTGCGTTAACAAAACATTTGAACCTTACACTATCCTTCATTTTTCTTTGCAT
TCTAACTAAGGAAGCAAATGCAAACTTATTGTACAGTTGGACAGAATATATCTGGGCACACCGT
CAAAAATTGCCATTATTGATCATGAGAAGAAAAGAACATTTGTTGTGAGGAAAGGTGGCCTTCC
TGATGCTG
						
					

			
		

Sequences
Splice junction sequence	TTGGACAGAATATATCTGGGCACACCGTCAAAAATTGCCATTATTGATCATGAGAAGAAAAGAA CATTTGTTGTGAGGAAAGGTGGCCTTCCTGATGCTGgtgtacctgtatggcggccatgtcacat catggaaagatgagcatggagaggagctgctttttgttagtaataaggtgatattatttcctat ctttagta
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: 1223 Transcript exons: 33560233-33560307,33560693-33561840 GTGTACCTGTATGGCGGCCATGTCACATCATGGAAAGATGAGCATGGAGAGGAGCTGCTTTTTG TTAGTAATAAGGCTATTTTCAAACCTCCAAAAGCTATACGTGGAGGGATACCAATCTGCTTTCC TCAGGTCCGTGCTTTTCCTTTCCTGCATTTTTTTTTTGCTCGTAATCTCTTCCGCTTTCTCAAA TTTTAATTTTGCTCAGTACTTCGTATTCTAGTTTTCCAACTTCGGAAATCTGGACCCACATGGC TTTGCAAGGAACAGGACCTGGAGTGTTGAAAATGATCCACCACCATTTCCAGTACCAACTTCTA ATAAAGCTTACGTCGATTTAATCCTTACGCATACTGAAGAAGATCTAAAGATCTGGCCACATAG GTGGGCATATACTAAATAATTACATGTTAATAGTAAATTAATTACCATTGTAAGATAATTGAAA GTTTTTTTCCCTCTATTTCTTATCATATAATTGTTTTAGTAGAAGACAAGGTAGCTGTTCACAT GGATCAGTAAAAGCAAATCCTTTATTTCAGTTACGAGTTCCGTCTGAGAGTTGCACTTGGACCT GGTGGAGATCTGATGCTGACTTCACGTATAAGAAATACCAATGCAGATGGAAAGCCATTCTCAT TTACATTTGCATATCACACATACTTTTCAATATCTGATATCAGGTACACTTGTTTAACTCTCGA CAAAGCCCATCAGTTCTGAAAAATTCATTTCAAAGGCACAGTGCAGTATTGGAAGTGATCATGT TTATTATCCACCTAATATGTTTGTCTAAAATGTGGGCTTAATTAATGGAAAATGTTTCTGTATG TTTATCCACAATGAAGAATTCCTTTTCCATTTCAAATGTATTTCCATAGACATACAGAAACAAT TTCTTCATTGTGCATAACTTTATGCTAATATTTCAGCGAGGTGCGAGTAGAAGGCCTGGAAACT CTGGATTACCTAGACAACTTACAAGAGAGAAATCGATACACTGAACAAGGGGATGCAATTGTTT TTGAATCTGAAGTGCGTTAACAAAACATTTGAACCTTACACTATCCTTCATTTTTCTTTGCATT CTAACTAAGGAAGCAAATGCAAACTTATTGTACAGTTGGACAGAATATATCTGGGCACACCGTC AAAAATTGCCATTATTGATCATGAGAAGAAAAGAACATTTGTTGTGAGGAAAGGTGGCCTTCCT GATGCTG Transcript length: 637 Transcript exons: 33560233-33560307,33560693-33560749,33560841-33561001,33 561160-33561300,33561550-33561652,33561741-33561840 GTGTACCTGTATGGCGGCCATGTCACATCATGGAAAGATGAGCATGGAGAGGAGCTGCTTTTTG TTAGTAATAAGGCTATTTTCAAACCTCCAAAAGCTATACGTGGAGGGATACCAATCTGCTTTCC TCAGTTTTCCAACTTCGGAAATCTGGACCCACATGGCTTTGCAAGGAACAGGACCTGGAGTGTT GAAAATGATCCACCACCATTTCCAGTACCAACTTCTAATAAAGCTTACGTCGATTTAATCCTTA CGCATACTGAAGAAGATCTAAAGATCTGGCCACATAGTTACGAGTTCCGTCTGAGAGTTGCACT TGGACCTGGTGGAGATCTGATGCTGACTTCACGTATAAGAAATACCAATGCAGATGGAAAGCCA TTCTCATTTACATTTGCATATCACACATACTTTTCAATATCTGATATCAGCGAGGTGCGAGTAG AAGGCCTGGAAACTCTGGATTACCTAGACAACTTACAAGAGAGAAATCGATACACTGAACAAGG GGATGCAATTGTTTTTGAATCTGAATTGGACAGAATATATCTGGGCACACCGTCAAAAATTGCC ATTATTGATCATGAGAAGAAAAGAACATTTGTTGTGAGGAAAGGTGGCCTTCCTGATGCTG
Genomic sequence	GTGTACCTGTATGGCGGCCATGTCACATCATGGAAAGATGAGCATGGAGAGGAGCTGCTTTTTG TTAGTAATAAGGTGATATTATTTCCTATCTTTAGTATGGGCAATTGGGCACATCTCAGTGCCTC TAAAATTCTTCCATCATTGTTTTGGCTGTACCATAAGCCTGTCTGAGAGACTGATACTAGGCTA ATTCAACTGGTAGAATATGATCCTTACCCTTAATTTCATTATCATCCAGACATGCATACCTATT CTCATAAACCATGTACCTCTTTGTTATCGTCCACCTTATGTTTTTGTGGTAATGATGTGACAAA GATTGTATTGCCACATCCCTGCTACTCATTTGACCTCGACATGGCAATAAAATTTGATTATGAA TCTTACTGGATTTTTTTATTCCATGTATTTCTTTAATTGCCTAAGAGTTGCTTGGCTGATGCCT GTGTTCTCTCAGGCTATTTTCAAACCTCCAAAAGCTATACGTGGAGGGATACCAATCTGCTTTC CTCAGGTCCGTGCTTTTCCTTTCCTGCATTTTTTTTTTGCTCGTAATCTCTTCCGCTTTCTCAA ATTTTAATTTTGCTCAGTACTTCGTATTCTAGTTTTCCAACTTCGGAAATCTGGACCCACATGG CTTTGCAAGGAACAGGACCTGGAGTGTTGAAAATGATCCACCACCATTTCCAGTACCAACTTCT AATAAAGCTTACGTCGATTTAATCCTTACGCATACTGAAGAAGATCTAAAGATCTGGCCACATA GGTGGGCATATACTAAATAATTACATGTTAATAGTAAATTAATTACCATTGTAAGATAATTGAA AGTTTTTTTCCCTCTATTTCTTATCATATAATTGTTTTAGTAGAAGACAAGGTAGCTGTTCACA TGGATCAGTAAAAGCAAATCCTTTATTTCAGTTACGAGTTCCGTCTGAGAGTTGCACTTGGACC TGGTGGAGATCTGATGCTGACTTCACGTATAAGAAATACCAATGCAGATGGAAAGCCATTCTCA TTTACATTTGCATATCACACATACTTTTCAATATCTGATATCAGGTACACTTGTTTAACTCTCG ACAAAGCCCATCAGTTCTGAAAAATTCATTTCAAAGGCACAGTGCAGTATTGGAAGTGATCATG TTTATTATCCACCTAATATGTTTGTCTAAAATGTGGGCTTAATTAATGGAAAATGTTTCTGTAT GTTTATCCACAATGAAGAATTCCTTTTCCATTTCAAATGTATTTCCATAGACATACAGAAACAA TTTCTTCATTGTGCATAACTTTATGCTAATATTTCAGCGAGGTGCGAGTAGAAGGCCTGGAAAC TCTGGATTACCTAGACAACTTACAAGAGAGAAATCGATACACTGAACAAGGGGATGCAATTGTT TTTGAATCTGAAGTGCGTTAACAAAACATTTGAACCTTACACTATCCTTCATTTTTCTTTGCAT TCTAACTAAGGAAGCAAATGCAAACTTATTGTACAGTTGGACAGAATATATCTGGGCACACCGT CAAAAATTGCCATTATTGATCATGAGAAGAAAAGAACATTTGTTGTGAGGAAAGGTGGCCTTCC TGATGCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.264463547

Conservation Information
Conserved circRNAs	NA
PMCS	0.264463547

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							33561836-33560812(+)
33560255-33561783(-)
						
						Potential amino acid sequence
						
							MLVYLYGGHVTSWKDEHGEELLFVSNKAIFKPPKAIRGGIPICFPQVRAFPFLHFFFARNLFRF
LKF*(+)
MAAIQVHQHQEGHLSSQQMFFSSHDQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	33561836-33560812(+) 33560255-33561783(-)
Potential amino acid sequence	MLVYLYGGHVTSWKDEHGEELLFVSNKAIFKPPKAIRGGIPICFPQVRAFPFLHFFFARNLFRF LKF(+) MAAIQVHQHQEGHLSSQQMFFSSHDQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os04g0658000_circ_g.1

Address

Any questions?

Supported by