Plant Circular RNA Database

Detail information of Os02g0316900_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0316900_circ_g.3
					
						ID in PlantcircBase
						osa_circ_014451
					
						Alias
						Os02circ11657/Os_ciR1764
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 12575706-12576603  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os02g0316900						
					
						Parent gene annotation
						
							B-block binding subunit of TFIIIC domain containing protein. (Os
02t0316900-01);B-block binding subunit of TFIIIC domain containi
ng protein. (Os02t0316900-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0316900_circ_g.1 Os02g0316900_circ_g.2 Os02g0316900_circ_g.4 Os02g0316900_circ_g.5 						
					
						Support reads
						2/8/2
					
						Tissues
						panicle/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
						Os02t0316900-02:2
Os02t0316900-01:2

General Information
CircRNA Name	Os02g0316900_circ_g.3
ID in PlantcircBase	osa_circ_014451
Alias	Os02circ11657/Os_ciR1764
Organism	Oryza sativa
Position	chr2: 12575706-12576603 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os02g0316900
Parent gene annotation	B-block binding subunit of TFIIIC domain containing protein. (Os 02t0316900-01);B-block binding subunit of TFIIIC domain containi ng protein. (Os02t0316900-02)
Parent gene strand	+
Alternative splicing	Os02g0316900_circ_g.1 Os02g0316900_circ_g.2 Os02g0316900_circ_g.4 Os02g0316900_circ_g.5
Support reads	2/8/2
Tissues	panicle/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	Os02t0316900-02:2 Os02t0316900-01:2

			
						 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  
						
							TTTTCTTTCAGATAAAGTTGCCTTTCAGAGGAAGAGGCATTGCTGGCCCACGTCAATTTCTGAT
GATCGAAGACAGAAAAGGATTATTCACATATTAAAGcttggcaaacgtcttgggggaaagtaca
acaattcgaaagagctccatgatcgagtatcatctatgcatgatagattcaatctgactgtgga
ggttgaag

						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: 462
Transcript exons: 12575706-12576078,12576515-12576603
CTTGGCAAACGTCTTGGGGGAAAGTACAACAATTCGAAAGAGCTCCATGATCGAGTATCATCTA
TGCATGATAGATTCAATCTGACTGTGGAGGTTGAAGTCGTTGGCAAAAGTAAACAGGGCAGAGT
TTGGACTTCAAAAAATTTTTCGCTGTACAATGCTACTCTGCGAAATTGTGATGTGCCAGATGAT
CATGACTATTGTTCAGTATGGCCTCTCATTCCTTCTGAAGAACCGACTTCTGTTAGCCCATATG
GTTTTGTGGTTAATAACAAACTCTTGTTTGAAGAAGATTGTCATGATGAACCACCCGTACATCG
TCTCCTGAATAGCCATGAAGCTTGTGTTGGAGTTTCTCAACCAGTTGAACAAGATAAAGTTGCC
TTTCAGAGGAAGAGGCATTGCTGGCCCACGTCAATTTCTGATGATCGAAGACAGAAAAGGATTA
TTCACATATTAAAG
						
						Genomic sequence
						
							CTTGGCAAACGTCTTGGGGGAAAGTACAACAATTCGAAAGAGCTCCATGATCGAGTATCATCTA
TGCATGATAGATTCAATCTGACTGTGGAGGTTGAAGTCGTTGGCAAAAGTAAACAGGGCAGAGT
TTGGACTTCAAAAAATTTTTCGCTGTACAATGCTACTCTGCGAAATTGTGATGTGCCAGATGAT
CATGACTATTGTTCAGTATGGCCTCTCATTCCTTCTGAAGAACCGACTTCTGTTAGCCCATATG
GTTTTGTGGTTAATAACAAACTCTTGTTTGAAGAAGATTGTCATGATGAACCACCCGTACATCG
TCTCCTGAATAGCCATGAAGCTTGTGTTGGAGTTTCTCAACCAGTTGAACAAGGTACATCATTC
TAAATTCCTGTCAGTTCTTTTTTTCTCTCTCTAAAATAGTGACACGATCATGCATTACAATGGG
CCCATATGACTGGGAATAGGCTGGGGGTGTGCATGTAGGATAAAACACATGATCCAACTTTTGT
TTTTCTGTTAACCAACCACTTGGTTTTCTATCTTGTTTATCTGAAGAGGTGTTGGTACAACATG
AGGGGAGGGTTGGACGGATGATTCCCCTTTTTATAGTAAGAAATTGTGCTTAGTGTTTCTTTGG
AAACTACTGTGCTGCTGTAAGAGCTTGTGGTCTCTGTGCCCATAGATCCAAAAGGCCCATAGAA
AACCTAGAGTTTCAATCTTTGATGCATGAGCACCTTATTGAAATCAACAGAGTAGGACAGAGTA
CAGTTTTGCTCAATTAAGGTGATCCTTTTTTTTTCTTTCAGATAAAGTTGCCTTTCAGAGGAAG
AGGCATTGCTGGCCCACGTCAATTTCTGATGATCGAAGACAGAAAAGGATTATTCACATATTAA
AG

Sequences
Splice junction sequence	TTTTCTTTCAGATAAAGTTGCCTTTCAGAGGAAGAGGCATTGCTGGCCCACGTCAATTTCTGAT GATCGAAGACAGAAAAGGATTATTCACATATTAAAGcttggcaaacgtcttgggggaaagtaca acaattcgaaagagctccatgatcgagtatcatctatgcatgatagattcaatctgactgtgga ggttgaag
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: 462 Transcript exons: 12575706-12576078,12576515-12576603 CTTGGCAAACGTCTTGGGGGAAAGTACAACAATTCGAAAGAGCTCCATGATCGAGTATCATCTA TGCATGATAGATTCAATCTGACTGTGGAGGTTGAAGTCGTTGGCAAAAGTAAACAGGGCAGAGT TTGGACTTCAAAAAATTTTTCGCTGTACAATGCTACTCTGCGAAATTGTGATGTGCCAGATGAT CATGACTATTGTTCAGTATGGCCTCTCATTCCTTCTGAAGAACCGACTTCTGTTAGCCCATATG GTTTTGTGGTTAATAACAAACTCTTGTTTGAAGAAGATTGTCATGATGAACCACCCGTACATCG TCTCCTGAATAGCCATGAAGCTTGTGTTGGAGTTTCTCAACCAGTTGAACAAGATAAAGTTGCC TTTCAGAGGAAGAGGCATTGCTGGCCCACGTCAATTTCTGATGATCGAAGACAGAAAAGGATTA TTCACATATTAAAG
Genomic sequence	CTTGGCAAACGTCTTGGGGGAAAGTACAACAATTCGAAAGAGCTCCATGATCGAGTATCATCTA TGCATGATAGATTCAATCTGACTGTGGAGGTTGAAGTCGTTGGCAAAAGTAAACAGGGCAGAGT TTGGACTTCAAAAAATTTTTCGCTGTACAATGCTACTCTGCGAAATTGTGATGTGCCAGATGAT CATGACTATTGTTCAGTATGGCCTCTCATTCCTTCTGAAGAACCGACTTCTGTTAGCCCATATG GTTTTGTGGTTAATAACAAACTCTTGTTTGAAGAAGATTGTCATGATGAACCACCCGTACATCG TCTCCTGAATAGCCATGAAGCTTGTGTTGGAGTTTCTCAACCAGTTGAACAAGGTACATCATTC TAAATTCCTGTCAGTTCTTTTTTTCTCTCTCTAAAATAGTGACACGATCATGCATTACAATGGG CCCATATGACTGGGAATAGGCTGGGGGTGTGCATGTAGGATAAAACACATGATCCAACTTTTGT TTTTCTGTTAACCAACCACTTGGTTTTCTATCTTGTTTATCTGAAGAGGTGTTGGTACAACATG AGGGGAGGGTTGGACGGATGATTCCCCTTTTTATAGTAAGAAATTGTGCTTAGTGTTTCTTTGG AAACTACTGTGCTGCTGTAAGAGCTTGTGGTCTCTGTGCCCATAGATCCAAAAGGCCCATAGAA AACCTAGAGTTTCAATCTTTGATGCATGAGCACCTTATTGAAATCAACAGAGTAGGACAGAGTA CAGTTTTGCTCAATTAAGGTGATCCTTTTTTTTTCTTTCAGATAAAGTTGCCTTTCAGAGGAAG AGGCATTGCTGGCCCACGTCAATTTCTGATGATCGAAGACAGAAAAGGATTATTCACATATTAA AG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003858* osi_circ_011591 						
					
						PMCS
						0.362136405

Conservation Information
Conserved circRNAs	osi_circ_003858* osi_circ_011591
PMCS	0.362136405

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12575770-12576600(+)
12575768-12576589(-)
						
						Potential amino acid sequence
						
							MHDRFNLTVEVEVVGKSKQGRVWTSKNFSLYNATLRNCDVPDDHDYCSVWPLIPSEEPTSVSPY
GFVVNNKLLFEEDCHDEPPVHRLLNSHEACVGVSQPVEQDKVAFQRKRHCWPTSISDDRRQKRI
IHILKLGKRLGGKYNNSKELHDRVSSMHDRFNLTVEVEVVGKSKQGRVWTSKNFSLYNATLRNC
DVPDDHDYCSVWPLIPSEEPTSVSPYGFVVNNKLLFEEDCHDEPPVHRLLNSHEACVGVSQPVE
QDKVAFQRKRHCWPTSISDDRRQKRIIHILKLGKRLGGKYNNSKELHDRVSSMHDRFNLTVEVE
VVGKSKQGRVWTSKNFSLYNATLRNCDVPDDHDYCSVWPLIPSEEPTSVSPYGFVVNNKLLFEE
DCHDEPPVHRLLNSHEACVGVSQPVEQDKVAFQRKRHCWPTSISDDRRQKRIIHILKLGKRLGG
KYNNSKELHDRVSSMHDRFNLTVEVEVVGKSKQGRVWTSKNFSLYNATLRNCDVPDDHDYCSVW
PLIPSEEPTSVSPYGFVVNNKLLFEEDCHDEPPVHRLLNSHEACVGVSQPVEQDKVAFQRKRHC
WPTSISDDRRQKRIIHILK(+)
MILDHGALSNCCTFPQDVCQALICE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12575770-12576600(+) 12575768-12576589(-)
Potential amino acid sequence	MHDRFNLTVEVEVVGKSKQGRVWTSKNFSLYNATLRNCDVPDDHDYCSVWPLIPSEEPTSVSPY GFVVNNKLLFEEDCHDEPPVHRLLNSHEACVGVSQPVEQDKVAFQRKRHCWPTSISDDRRQKRI IHILKLGKRLGGKYNNSKELHDRVSSMHDRFNLTVEVEVVGKSKQGRVWTSKNFSLYNATLRNC DVPDDHDYCSVWPLIPSEEPTSVSPYGFVVNNKLLFEEDCHDEPPVHRLLNSHEACVGVSQPVE QDKVAFQRKRHCWPTSISDDRRQKRIIHILKLGKRLGGKYNNSKELHDRVSSMHDRFNLTVEVE VVGKSKQGRVWTSKNFSLYNATLRNCDVPDDHDYCSVWPLIPSEEPTSVSPYGFVVNNKLLFEE DCHDEPPVHRLLNSHEACVGVSQPVEQDKVAFQRKRHCWPTSISDDRRQKRIIHILKLGKRLGG KYNNSKELHDRVSSMHDRFNLTVEVEVVGKSKQGRVWTSKNFSLYNATLRNCDVPDDHDYCSVW PLIPSEEPTSVSPYGFVVNNKLLFEEDCHDEPPVHRLLNSHEACVGVSQPVEQDKVAFQRKRHC WPTSISDDRRQKRIIHILK(+) MILDHGALSNCCTFPQDVCQALICE*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os02g0316900_circ_g.3

Address

Any questions?

Supported by