Plant Circular RNA Database

Detail information of Os03g0773600_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0773600_circ_g.4
					
						ID in PlantcircBase
						osa_circ_022053
					
						Alias
						Os_ciR2286
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 32066144-32067831  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0773600						
					
						Parent gene annotation
						
							Kinesin, motor region domain containing protein. (Os03t0773600-0
1);Hypothetical conserved gene. (Os03t0773600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0773600_circ_g.1 Os03g0773600_circ_g.2 Os03g0773600_circ_g.3 Os03g0773600_circ_g.5 Os03g0773600_circ_g.6 Os03g0773600_circ_g.7 Os03g0773600_circ_g.8 Os03g0773600_circ_g.9 Os03g0773600_circ_g.10 Os03g0773600_circ_g.11 Os03g0773600_circ_g.12 Os03g0773600_circ_g.13 Os03g0773600_circ_g.14 Os03g0773600_circ_g.15 Os03g0773600_circ_g.16 Os03g0773600_circ_g.17 Os03g0773600_circ_g.18 Os03g0773600_circ_g.19 Os03g0773600_circ_g.20 						
					
						Support reads
						5/3
					
						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
						Os03t0773600-01:4

General Information
CircRNA Name	Os03g0773600_circ_g.4
ID in PlantcircBase	osa_circ_022053
Alias	Os_ciR2286
Organism	Oryza sativa
Position	chr3: 32066144-32067831 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0773600
Parent gene annotation	Kinesin, motor region domain containing protein. (Os03t0773600-0 1);Hypothetical conserved gene. (Os03t0773600-02)
Parent gene strand	+
Alternative splicing	Os03g0773600_circ_g.1 Os03g0773600_circ_g.2 Os03g0773600_circ_g.3 Os03g0773600_circ_g.5 Os03g0773600_circ_g.6 Os03g0773600_circ_g.7 Os03g0773600_circ_g.8 Os03g0773600_circ_g.9 Os03g0773600_circ_g.10 Os03g0773600_circ_g.11 Os03g0773600_circ_g.12 Os03g0773600_circ_g.13 Os03g0773600_circ_g.14 Os03g0773600_circ_g.15 Os03g0773600_circ_g.16 Os03g0773600_circ_g.17 Os03g0773600_circ_g.18 Os03g0773600_circ_g.19 Os03g0773600_circ_g.20
Support reads	5/3
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	Os03t0773600-01:4

			
						 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  
						
							TTGCTTAGGTTCACTCAGCAGATAAGATTCTTGAACTCTTGAACATAGGCAACAGTCGGCGCAA
GACAGAGAGCACAGAAGCAAACTCAACTTCTTCACGgatgtatataagaatatatcttctacaa
ttgctggtgtagttcaaggccttaatgcgacagtctttgcttatggttctactggaaggtacat
gctcactg

									
								

					

						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: 419
Transcript exons: 32066144-32066229,32066923-32067067,32067174-32067269,32
067740-32067831
GATGTATATAAGAATATATCTTCTACAATTGCTGGTGTAGTTCAAGGCCTTAATGCGACAGTCT
TTGCTTATGGTTCTACTGGAAGTGGGAAAACTTATACAATGGTTGGAACCCATAGTGATCCTGG
TCTTATGGTTCTGAGCTTTCGCACAATCTTTGATCTGGTAAAGAAGGATGACAGTAAAGATACG
TTTGAGGTCTCATGTTCATATCTTGAAGTGTACAATGAGGTTATCTATGATTTGCTTGAAAAAT
CGTCAGGTCACCTGGAGCTTCGTGAAGATCCTGTGCATGGTATAATGGTTGCTGGTTTAAGAAG
CATTAAGGTTCACTCAGCAGATAAGATTCTTGAACTCTTGAACATAGGCAACAGTCGGCGCAAG
ACAGAGAGCACAGAAGCAAACTCAACTTCTTCACG
						
					

						Genomic sequence
						
							GATGTATATAAGAATATATCTTCTACAATTGCTGGTGTAGTTCAAGGCCTTAATGCGACAGTCT
TTGCTTATGGTTCTACTGGAAGGTACATGCTCACTGGATAGTTTTGTTGTTTGCAAGCATACTG
CCTGCTGCACATATTGCTATCATCACACATACTGCCGTAAATTTCTGAACCCTGAATTATCTCA
TTTGCTGCTATTGTTAGATATGGTTTACATTTGAAAAACTTGCTACACTCAGTTGGTATGATAT
GAAAGTGTTTCTTCAAATCAACCACATTATGTTTGCCTGATTTCCTCTTATGTTTTTTTCCTTT
GAGATGCCTAACTTAAAACTATTGTGAATTTGTGATATGTGATATATACTATATCTGCTGAGTT
CACCTCATGCCAATTGTAAACAAAATCATGATTATGTTTAGTCCATTGCCATTCTTGTTTTGTG
AAACTTAAATAAATGCTAAAACAAACTGAGACCATCCTACCTTTTCAGTAAACTTGAACTTTGG
TAAGAAAGGCTTCTTTAGTTTTTTTTTAATCATGACATAATATGAAAAATATGACTTAGCCACT
TTACGGAGCTTCCTTGGTGAAGCTATTATACTATTTGGGCAAGTTCATTTTTCCTTTTTATGGG
AATCCACGCTCATCATTGTGTCCATTAATAATGAAGTTTTACAAATACTTCAATACTGATCTAG
AAGCTGAAATGGCTCTTATTAGTATTACGCTTCATATGCATAATGTGAAATATTCTGTTATTTG
TGATTGTGCAGTGGGAAAACTTATACAATGGTTGGAACCCATAGTGATCCTGGTCTTATGGTTC
TGAGCTTTCGCACAATCTTTGATCTGGTAAAGAAGGATGACAGTAAAGATACGTTTGAGGTCTC
ATGTTCATATCTTGAAGTGTACAATGAGGTAATGTGCAATATATAGTTTCTTAAAAAAGTTAAC
TATTAGTCCTTAAATTCTCTATACTACATATAAACTTTCGTGAAAAAACTCTGTGCTTTCTGAA
TTCCAGGTTATCTATGATTTGCTTGAAAAATCGTCAGGTCACCTGGAGCTTCGTGAAGATCCTG
TGCATGGTATAATGGTTGCTGGTTTAAGAAGCATTAAGGTTTCTAGCTTCCTCTAATCTGTTTA
ATTTTTGTGATAATTAGAAAACAAATGCCTTGTAGTAATAGTGTCAATTCTGGCATTTTTTGTT
TTGTTTTCTTCATATTTTTTTGGCCATCCTAATGCTTGTAACCTCTTTTGTGCATATAATATCC
TCTCGTCATTGAGCCAATTAAGGAAGAGATGATTTTTAAGTTGCACTATTTAATTTATCTGCAT
GGTTTTTTTTTTGTCCTTTCTGGAAGAAATACTTGTAGATACCAACCCTTTCAGACTTCTTCAG
CTATTTATTCATCTTTTTTCTTTTAATGATTAGTTCATACAACCAATTTCTGCCCTTTGTAACA
ACAGCAAGTGGTCTACTGTGTTTGCATGCCATTCCTCATCATATTCGTAAAAATAGGCCTAGTC
AACATTCCATTCACCTCTACATATAAGAATATTTTGATGATCAATCTTTTATTTGCTTAGGTTC
ACTCAGCAGATAAGATTCTTGAACTCTTGAACATAGGCAACAGTCGGCGCAAGACAGAGAGCAC
AGAAGCAAACTCAACTTCTTCACG
						
					

			
		

Sequences
Splice junction sequence	TTGCTTAGGTTCACTCAGCAGATAAGATTCTTGAACTCTTGAACATAGGCAACAGTCGGCGCAA GACAGAGAGCACAGAAGCAAACTCAACTTCTTCACGgatgtatataagaatatatcttctacaa ttgctggtgtagttcaaggccttaatgcgacagtctttgcttatggttctactggaaggtacat gctcactg
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: 419 Transcript exons: 32066144-32066229,32066923-32067067,32067174-32067269,32 067740-32067831 GATGTATATAAGAATATATCTTCTACAATTGCTGGTGTAGTTCAAGGCCTTAATGCGACAGTCT TTGCTTATGGTTCTACTGGAAGTGGGAAAACTTATACAATGGTTGGAACCCATAGTGATCCTGG TCTTATGGTTCTGAGCTTTCGCACAATCTTTGATCTGGTAAAGAAGGATGACAGTAAAGATACG TTTGAGGTCTCATGTTCATATCTTGAAGTGTACAATGAGGTTATCTATGATTTGCTTGAAAAAT CGTCAGGTCACCTGGAGCTTCGTGAAGATCCTGTGCATGGTATAATGGTTGCTGGTTTAAGAAG CATTAAGGTTCACTCAGCAGATAAGATTCTTGAACTCTTGAACATAGGCAACAGTCGGCGCAAG ACAGAGAGCACAGAAGCAAACTCAACTTCTTCACG
Genomic sequence	GATGTATATAAGAATATATCTTCTACAATTGCTGGTGTAGTTCAAGGCCTTAATGCGACAGTCT TTGCTTATGGTTCTACTGGAAGGTACATGCTCACTGGATAGTTTTGTTGTTTGCAAGCATACTG CCTGCTGCACATATTGCTATCATCACACATACTGCCGTAAATTTCTGAACCCTGAATTATCTCA TTTGCTGCTATTGTTAGATATGGTTTACATTTGAAAAACTTGCTACACTCAGTTGGTATGATAT GAAAGTGTTTCTTCAAATCAACCACATTATGTTTGCCTGATTTCCTCTTATGTTTTTTTCCTTT GAGATGCCTAACTTAAAACTATTGTGAATTTGTGATATGTGATATATACTATATCTGCTGAGTT CACCTCATGCCAATTGTAAACAAAATCATGATTATGTTTAGTCCATTGCCATTCTTGTTTTGTG AAACTTAAATAAATGCTAAAACAAACTGAGACCATCCTACCTTTTCAGTAAACTTGAACTTTGG TAAGAAAGGCTTCTTTAGTTTTTTTTTAATCATGACATAATATGAAAAATATGACTTAGCCACT TTACGGAGCTTCCTTGGTGAAGCTATTATACTATTTGGGCAAGTTCATTTTTCCTTTTTATGGG AATCCACGCTCATCATTGTGTCCATTAATAATGAAGTTTTACAAATACTTCAATACTGATCTAG AAGCTGAAATGGCTCTTATTAGTATTACGCTTCATATGCATAATGTGAAATATTCTGTTATTTG TGATTGTGCAGTGGGAAAACTTATACAATGGTTGGAACCCATAGTGATCCTGGTCTTATGGTTC TGAGCTTTCGCACAATCTTTGATCTGGTAAAGAAGGATGACAGTAAAGATACGTTTGAGGTCTC ATGTTCATATCTTGAAGTGTACAATGAGGTAATGTGCAATATATAGTTTCTTAAAAAAGTTAAC TATTAGTCCTTAAATTCTCTATACTACATATAAACTTTCGTGAAAAAACTCTGTGCTTTCTGAA TTCCAGGTTATCTATGATTTGCTTGAAAAATCGTCAGGTCACCTGGAGCTTCGTGAAGATCCTG TGCATGGTATAATGGTTGCTGGTTTAAGAAGCATTAAGGTTTCTAGCTTCCTCTAATCTGTTTA ATTTTTGTGATAATTAGAAAACAAATGCCTTGTAGTAATAGTGTCAATTCTGGCATTTTTTGTT TTGTTTTCTTCATATTTTTTTGGCCATCCTAATGCTTGTAACCTCTTTTGTGCATATAATATCC TCTCGTCATTGAGCCAATTAAGGAAGAGATGATTTTTAAGTTGCACTATTTAATTTATCTGCAT GGTTTTTTTTTTGTCCTTTCTGGAAGAAATACTTGTAGATACCAACCCTTTCAGACTTCTTCAG CTATTTATTCATCTTTTTTCTTTTAATGATTAGTTCATACAACCAATTTCTGCCCTTTGTAACA ACAGCAAGTGGTCTACTGTGTTTGCATGCCATTCCTCATCATATTCGTAAAAATAGGCCTAGTC AACATTCCATTCACCTCTACATATAAGAATATTTTGATGATCAATCTTTTATTTGCTTAGGTTC ACTCAGCAGATAAGATTCTTGAACTCTTGAACATAGGCAACAGTCGGCGCAAGACAGAGAGCAC AGAAGCAAACTCAACTTCTTCACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013703 						
					
						PMCS
						0.339639366

Conservation Information
Conserved circRNAs	osi_circ_013703
PMCS	0.339639366

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							32066940-32066180(+)
32066955-32067744(-)
						
						Potential amino acid sequence
						
							MVGTHSDPGLMVLSFRTIFDLVKKDDSKDTFEVSCSYLEVYNEVIYDLLEKSSGHLELREDPVH
GIMVAGLRSIKVHSADKILELLNIGNSRRKTESTEANSTSSRMYIRIYLLQLLV*(+)
MGSNHCISFPTSSRTISKDCRIKALNYTSNCRRYILIYIREEVEFASVLSVLRRLLPMFKSSRI
LSAE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	32066940-32066180(+) 32066955-32067744(-)
Potential amino acid sequence	MVGTHSDPGLMVLSFRTIFDLVKKDDSKDTFEVSCSYLEVYNEVIYDLLEKSSGHLELREDPVH GIMVAGLRSIKVHSADKILELLNIGNSRRKTESTEANSTSSRMYIRIYLLQLLV(+) MGSNHCISFPTSSRTISKDCRIKALNYTSNCRRYILIYIREEVEFASVLSVLRRLLPMFKSSRI LSAE(-)
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 Os03g0773600_circ_g.4

Address

Any questions?

Supported by