Plant Circular RNA Database

Detail information of Os01g0563000_circ_g.12

			
						 General Information
					
						CircRNA Name
						Os01g0563000_circ_g.12
					
						ID in PlantcircBase
						osa_circ_002248
					
						Alias
						Os_ciR1583
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 21431623-21438305  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0563000						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os01t0563000-01);Peptidyl-prolyl c
is-trans isomerase, FKBP-type domain containing protein. (Os01t0
563000-02);Hypothetical conserved gene. (Os01t0563000-03);Hypoth
etical conserved gene. (Os01t0563000-04);Hypothetical conserved 
gene. (Os01t0563000-05);Hypothetical conserved gene. (Os01t05630
00-06)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0563000_circ_igg.1 Os01g0563000_circ_igg.2 Os01g0563000_circ_igg.3 Os01g0563000_circ_igg.4 Os01g0563000_circ_g.1 Os01g0563000_circ_g.2 Os01g0563000_circ_g.3 Os01g0563000_circ_g.4 Os01g0563000_circ_g.5 Os01g0563000_circ_g.6 Os01g0563000_circ_g.7 Os01g0563000_circ_g.8 Os01g0563000_circ_g.9 Os01g0563000_circ_g.10 Os01g0563000_circ_g.11 Os01g0563000_circ_g.13 Os01g0563000_circ_g.14 						
					
						Support reads
						9/11
					
						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
						Os01t0563000-06:2
Os01t0563000-02:4
Os01t0563000-01:2
Os01t0563000-04:4
Os01t0563000-05:4

General Information
CircRNA Name	Os01g0563000_circ_g.12
ID in PlantcircBase	osa_circ_002248
Alias	Os_ciR1583
Organism	Oryza sativa
Position	chr1: 21431623-21438305 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0563000
Parent gene annotation	Hypothetical conserved gene. (Os01t0563000-01);Peptidyl-prolyl c is-trans isomerase, FKBP-type domain containing protein. (Os01t0 563000-02);Hypothetical conserved gene. (Os01t0563000-03);Hypoth etical conserved gene. (Os01t0563000-04);Hypothetical conserved gene. (Os01t0563000-05);Hypothetical conserved gene. (Os01t05630 00-06)
Parent gene strand	+
Alternative splicing	Os01g0563000_circ_igg.1 Os01g0563000_circ_igg.2 Os01g0563000_circ_igg.3 Os01g0563000_circ_igg.4 Os01g0563000_circ_g.1 Os01g0563000_circ_g.2 Os01g0563000_circ_g.3 Os01g0563000_circ_g.4 Os01g0563000_circ_g.5 Os01g0563000_circ_g.6 Os01g0563000_circ_g.7 Os01g0563000_circ_g.8 Os01g0563000_circ_g.9 Os01g0563000_circ_g.10 Os01g0563000_circ_g.11 Os01g0563000_circ_g.13 Os01g0563000_circ_g.14
Support reads	9/11
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	Os01t0563000-06:2 Os01t0563000-02:4 Os01t0563000-01:2 Os01t0563000-04:4 Os01t0563000-05:4

			
						 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  
						
							CGATGTGGCTAATGTGCAAGCCCAGCAGCAGCAAACGTTGTTGCAGGAATTTCCTGATGGTTCC
TCAAGAGACCCGGACGCAATGCAGCGAGGCTTTGAGtgcggttgctcggcaaacttcaagatgg
aactgtttttgatcgtagaggttacggcgacgatgaaccgttcgagttcgtggtagatgaaggt
gcagtatt

									
								

					

						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: 316
Transcript exons: 21431623-21431713,21433183-21433322,21438221-21438305
TGCGGTTGCTCGGCAAACTTCAAGATGGAACTGTTTTTGATCGTAGAGGTTACGGCGACGATGA
ACCGTTCGAGTTCGTGGTAGATGAAGGATTTAATAAAACTGCTGTCCATCCCAACATCAGAAAT
TGATGCACAGCTGGAAGAAATGTGGATTTCCTGCACTTTTAAAGCGGCTAAGTGCGCAATCCAG
CTAGGGTGCTACATGCAAGCATCGTGCTATTACAGCGAGGCAAGCCCAGCAGCAGCAAACGTTG
TTGCAGGAATTTCCTGATGGTTCCTCAAGAGACCCGGACGCAATGCAGCGAGGCTTTGAG
Transcript length: 698
Transcript exons: 21431623-21431712,21431817-21431995,21433005-21433322,21
438195-21438305
TGCGGTTGCTCGGCAAACTTCAAGATGGAACTGTTTTTGATCGTAGAGGTTACGGCGACGATGA
ACCGTTCGAGTTCGTGGTAGATGAAGGTCAAGTTATTGATGGCCTGGATGAATCTGTAATGACA
ATGGAGGAGGGAGAAGTTGCCGAGTTCACTATTCCACCCCAGCACGCATTTGATGCCGTTGGGT
CAGATCAGCATCAGTTTGCCTTTGTGCCGCGCAATGCAACCGTCGTCTACAAGATCGAGCTCTT
GTCCGTCGTTAATGAGAAACATCCGTTGTACATTCCGAGCCGTGATGAAATTGTTGAATATGCA
AGTAGGAAGGAAGAGGAAGGGGACATATACTTTAACTTGGGTAAACATTTGAGAGCTCACAGGA
GATATTTCAAGGCCAGACAAATCATTGAATATTCACGCTTCGGGGTAAGGAGAGGGAAAATTAA
TTTAATAAAACTGCTGTCCATCCCAACATCAGAAATTGATGCACAGCTGGAAGAAATGTGGATT
TCCTGCACTTTTAAAGCGGCTAAGTGCGCAATCCAGCTAGGGTGCTACATGCAAGCATCGTGCT
ATTACAGCGAGGTGCTGAACTACGATGTGGCTAATGTGCAAGCCCAGCAGCAGCAAACGTTGTT
GCAGGAATTTCCTGATGGTTCCTCAAGAGACCCGGACGCAATGCAGCGAGGCTTTGAG
Transcript length: 723
Transcript exons: 21431623-21431712,21431817-21432020,21433005-21433322,21
438195-21438305
TGCGGTTGCTCGGCAAACTTCAAGATGGAACTGTTTTTGATCGTAGAGGTTACGGCGACGATGA
ACCGTTCGAGTTCGTGGTAGATGAAGGTCAAGTTATTGATGGCCTGGATGAATCTGTAATGACA
ATGGAGGAGGGAGAAGTTGCCGAGTTCACTATTCCACCCCAGCACGCATTTGATGCCGTTGGGT
CAGATCAGCATCAGTTTGCCTTTGTGCCGCGCAATGCAACCGTCGTCTACAAGATCGAGCTCTT
GTCCGTCGTTAATGTACGTTATTATGTTCGTATTACTGGAGAAACATCCGTTGTACATTCCGAG
CCGTGATGAAATTGTTGAATATGCAAGTAGGAAGGAAGAGGAAGGGGACATATACTTTAACTTG
GGTAAACATTTGAGAGCTCACAGGAGATATTTCAAGGCCAGACAAATCATTGAATATTCACGCT
TCGGGGTAAGGAGAGGGAAAATTAATTTAATAAAACTGCTGTCCATCCCAACATCAGAAATTGA
TGCACAGCTGGAAGAAATGTGGATTTCCTGCACTTTTAAAGCGGCTAAGTGCGCAATCCAGCTA
GGGTGCTACATGCAAGCATCGTGCTATTACAGCGAGGTGCTGAACTACGATGTGGCTAATGTGC
AAGCCCAGCAGCAGCAAACGTTGTTGCAGGAATTTCCTGATGGTTCCTCAAGAGACCCGGACGC
AATGCAGCGAGGCTTTGAG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	CGATGTGGCTAATGTGCAAGCCCAGCAGCAGCAAACGTTGTTGCAGGAATTTCCTGATGGTTCC TCAAGAGACCCGGACGCAATGCAGCGAGGCTTTGAGtgcggttgctcggcaaacttcaagatgg aactgtttttgatcgtagaggttacggcgacgatgaaccgttcgagttcgtggtagatgaaggt gcagtatt
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: 316 Transcript exons: 21431623-21431713,21433183-21433322,21438221-21438305 TGCGGTTGCTCGGCAAACTTCAAGATGGAACTGTTTTTGATCGTAGAGGTTACGGCGACGATGA ACCGTTCGAGTTCGTGGTAGATGAAGGATTTAATAAAACTGCTGTCCATCCCAACATCAGAAAT TGATGCACAGCTGGAAGAAATGTGGATTTCCTGCACTTTTAAAGCGGCTAAGTGCGCAATCCAG CTAGGGTGCTACATGCAAGCATCGTGCTATTACAGCGAGGCAAGCCCAGCAGCAGCAAACGTTG TTGCAGGAATTTCCTGATGGTTCCTCAAGAGACCCGGACGCAATGCAGCGAGGCTTTGAG Transcript length: 698 Transcript exons: 21431623-21431712,21431817-21431995,21433005-21433322,21 438195-21438305 TGCGGTTGCTCGGCAAACTTCAAGATGGAACTGTTTTTGATCGTAGAGGTTACGGCGACGATGA ACCGTTCGAGTTCGTGGTAGATGAAGGTCAAGTTATTGATGGCCTGGATGAATCTGTAATGACA ATGGAGGAGGGAGAAGTTGCCGAGTTCACTATTCCACCCCAGCACGCATTTGATGCCGTTGGGT CAGATCAGCATCAGTTTGCCTTTGTGCCGCGCAATGCAACCGTCGTCTACAAGATCGAGCTCTT GTCCGTCGTTAATGAGAAACATCCGTTGTACATTCCGAGCCGTGATGAAATTGTTGAATATGCA AGTAGGAAGGAAGAGGAAGGGGACATATACTTTAACTTGGGTAAACATTTGAGAGCTCACAGGA GATATTTCAAGGCCAGACAAATCATTGAATATTCACGCTTCGGGGTAAGGAGAGGGAAAATTAA TTTAATAAAACTGCTGTCCATCCCAACATCAGAAATTGATGCACAGCTGGAAGAAATGTGGATT TCCTGCACTTTTAAAGCGGCTAAGTGCGCAATCCAGCTAGGGTGCTACATGCAAGCATCGTGCT ATTACAGCGAGGTGCTGAACTACGATGTGGCTAATGTGCAAGCCCAGCAGCAGCAAACGTTGTT GCAGGAATTTCCTGATGGTTCCTCAAGAGACCCGGACGCAATGCAGCGAGGCTTTGAG Transcript length: 723 Transcript exons: 21431623-21431712,21431817-21432020,21433005-21433322,21 438195-21438305 TGCGGTTGCTCGGCAAACTTCAAGATGGAACTGTTTTTGATCGTAGAGGTTACGGCGACGATGA ACCGTTCGAGTTCGTGGTAGATGAAGGTCAAGTTATTGATGGCCTGGATGAATCTGTAATGACA ATGGAGGAGGGAGAAGTTGCCGAGTTCACTATTCCACCCCAGCACGCATTTGATGCCGTTGGGT CAGATCAGCATCAGTTTGCCTTTGTGCCGCGCAATGCAACCGTCGTCTACAAGATCGAGCTCTT GTCCGTCGTTAATGTACGTTATTATGTTCGTATTACTGGAGAAACATCCGTTGTACATTCCGAG CCGTGATGAAATTGTTGAATATGCAAGTAGGAAGGAAGAGGAAGGGGACATATACTTTAACTTG GGTAAACATTTGAGAGCTCACAGGAGATATTTCAAGGCCAGACAAATCATTGAATATTCACGCT TCGGGGTAAGGAGAGGGAAAATTAATTTAATAAAACTGCTGTCCATCCCAACATCAGAAATTGA TGCACAGCTGGAAGAAATGTGGATTTCCTGCACTTTTAAAGCGGCTAAGTGCGCAATCCAGCTA GGGTGCTACATGCAAGCATCGTGCTATTACAGCGAGGTGCTGAACTACGATGTGGCTAATGTGC AAGCCCAGCAGCAGCAAACGTTGTTGCAGGAATTTCCTGATGGTTCCTCAAGAGACCCGGACGC AATGCAGCGAGGCTTTGAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.418780877

Conservation Information
Conserved circRNAs	NA
PMCS	0.418780877

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21431908-21431703(+)
21438209-21431659(+)
						
						Potential amino acid sequence
						
							MPLGQISISLPLCRAMQPSSTRSSSCPSLMYVIMFVLLEKHPLYIPSRDEIVEYASRKEEEGDI
YFNLGKHLRAHRRYFKARQIIEYSRFGVRRGKINLIKLLSIPTSEIDAQLEEMWISCTFKAAKC
AIQLGCYMQASCYYSEVLNYDVANVQAQQQQTLLQEFPDGSSRDPDAMQRGFECGCSANFKMEL
FLIVEVTATMNRSSSW*(+)
MWLMCKPSSSKRCCRNFLMVPQETRTQCSEALSAVARQTSRWNCF*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21431908-21431703(+) 21438209-21431659(+)
Potential amino acid sequence	MPLGQISISLPLCRAMQPSSTRSSSCPSLMYVIMFVLLEKHPLYIPSRDEIVEYASRKEEEGDI YFNLGKHLRAHRRYFKARQIIEYSRFGVRRGKINLIKLLSIPTSEIDAQLEEMWISCTFKAAKC AIQLGCYMQASCYYSEVLNYDVANVQAQQQQTLLQEFPDGSSRDPDAMQRGFECGCSANFKMEL FLIVEVTATMNRSSSW(+) MWLMCKPSSSKRCCRNFLMVPQETRTQCSEALSAVARQTSRWNCF(+)
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 Os01g0563000_circ_g.12

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