Plant Circular RNA Database

Detail information of Os07g0486500_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os07g0486500_circ_g.5
					
						ID in PlantcircBase
						osa_circ_033845
					
						Alias
						Os07circ08343/Os_ciR899
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 17910126-17911531  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os07g0486500						
					
						Parent gene annotation
						
							RhoGAP domain containing protein. (Os07t0486500-01);RhoGAP domai
n containing protein. (Os07t0486500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0486500_circ_g.2 Os07g0486500_circ_g.3 Os07g0486500_circ_g.4 Os07g0486500_circ_g.6 Os07g0486500_circ_g.7 						
					
						Support reads
						3/21/10
					
						Tissues
						leaf and panicle/root/shoot, root, seed
					
						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
						Os07t0486500-02:4
Os07t0486500-01:4

General Information
CircRNA Name	Os07g0486500_circ_g.5
ID in PlantcircBase	osa_circ_033845
Alias	Os07circ08343/Os_ciR899
Organism	Oryza sativa
Position	chr7: 17910126-17911531 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os07g0486500
Parent gene annotation	RhoGAP domain containing protein. (Os07t0486500-01);RhoGAP domai n containing protein. (Os07t0486500-02)
Parent gene strand	+
Alternative splicing	Os07g0486500_circ_g.2 Os07g0486500_circ_g.3 Os07g0486500_circ_g.4 Os07g0486500_circ_g.6 Os07g0486500_circ_g.7
Support reads	3/21/10
Tissues	leaf and panicle/root/shoot, root, seed
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	Os07t0486500-02:4 Os07t0486500-01:4

			
						 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  
						
							GACTCTGGAACAGATTTGCGGAATCATCTTAGATTTACCCTAAAAGCACCTCCAAAAATTGTGG
ATACAACATCAAATACCACAGAATGGGATCTGTTAGtctttggtgttcccattgaagccaccgt
acaacgagagcaatctggtaaagctgtgcctctggtacttgtgagatgtgcagattatctggtt
atatcagg

									
								

					

						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: 205
Transcript exons: 17910126-17910196,17911398-17911531
TCTTTGGTGTTCCCATTGAAGCCACCGTACAACGAGAGCAATCTGGTAAAGCTGTGCCTCTGGT
ACTTGTGGGAATTTGCGCCTTTGATCATGTGGCAGCAAGGTGACTCTGGAACAGATTTGCGGAA
TCATCTTAGATTTACCCTAAAAGCACCTCCAAAAATTGTGGATACAACATCAAATACCACAGAA
TGGGATCTGTTAG
Transcript length: 233
Transcript exons: 17910126-17910206,17911380-17911531
TCTTTGGTGTTCCCATTGAAGCCACCGTACAACGAGAGCAATCTGGTAAAGCTGTGCCTCTGGT
ACTTGTGAGATGTGCAGCTCTCGTAGCCTTGCAGTGGAATTTGCGCCTTTGATCATGTGGCAGC
AAGGTGACTCTGGAACAGATTTGCGGAATCATCTTAGATTTACCCTAAAAGCACCTCCAAAAAT
TGTGGATACAACATCAAATACCACAGAATGGGATCTGTTAG
Transcript length: 579
Transcript exons: 17910126-17910224,17910304-17910381,17910470-17910714,17
911375-17911531
TCTTTGGTGTTCCCATTGAAGCCACCGTACAACGAGAGCAATCTGGTAAAGCTGTGCCTCTGGT
ACTTGTGAGATGTGCAGATTATCTGGTTATATCAGGTTTGAGTAATGAGTACTTGTTCAAATCA
GAGGGTGAAAAAAAAGTTCTTCAGCAATTAGTCTCTCTTTACAATGAAGATTCAGGTGCACCTT
TCCCTGATGGTGTAAACCCCATTGATGTGGCTGCACTGATAAAGTGCTATCTTGCTAGCATCCC
TGAGCCACTTACTACATTCTCTCTTTATGATGAACTTAGAGATGCAAGGGTTAGCATTGCAGAT
TTAAGAAATATACTGAAGAAGCTTCCCAATGTGAACTACATGACACTAGAGTTTGTTACAGCAC
TGCTACTTAGAGTAAGCCGTAAATCATCGCTTAACAAGATGGACTCTCGTAGCCTTGCAGTGGA
ATTTGCGCCTTTGATCATGTGGCAGCAAGGTGACTCTGGAACAGATTTGCGGAATCATCTTAGA
TTTACCCTAAAAGCACCTCCAAAAATTGTGGATACAACATCAAATACCACAGAATGGGATCTGT
TAG
						
					

						Genomic sequence
						
							TCTTTGGTGTTCCCATTGAAGCCACCGTACAACGAGAGCAATCTGGTAAAGCTGTGCCTCTGGT
ACTTGTGAGATGTGCAGATTATCTGGTTATATCAGGTAAAATGCTGAAATTCAATAGAAGGTGG
TTTTATTACTACATTTTTTTCATACCTGACATTTAATTTGCTTTTATTAGGTTTGAGTAATGAG
TACTTGTTCAAATCAGAGGGTGAAAAAAAAGTTCTTCAGCAATTAGTCTCTCTTTACAATGAAG
GTACCATTTTCATTCATTATGTTTGAACTTAGATTTTGTGATCATGATTCATTGTTGTGATCTT
TGTAAGTTTATTGTTGTTTTGCAGATTCAGGTGCACCTTTCCCTGATGGTGTAAACCCCATTGA
TGTGGCTGCACTGATAAAGTGCTATCTTGCTAGCATCCCTGAGCCACTTACTACATTCTCTCTT
TATGATGAACTTAGAGATGCAAGGGTTAGCATTGCAGATTTAAGAAATATACTGAAGAAGCTTC
CCAATGTGAACTACATGACACTAGAGTTTGTTACAGCACTGCTACTTAGAGTAAGCCGTAAATC
ATCGCTTAACAAGGTATATCTTATTCTTATTTCACCTCTGCATAAATCACAACTTTTATTTAAT
TTGAAATGGTTCATATTATGGTTGTTTGGGCACTTCTGTAAACCTGGCACTTTTACTGAGCAAT
GATTAATGCCTGAGTCATGTTTTTCTTTCTTTTCGGTTCGTGGACAGGATAGTAAAGTGTAATT
GAGTTCAGAATGCAGAATGCTTAAAAGAGTCACTGCAAACACTTCAGAACACCAAACACTTGCC
TATTAATCGCCAGTTTTTATGTCTTATACAGGAAATCAGTTGCTAATTGTATCTTACATAACTT
ATCTTGTTTACATCACTGCTTTGATTGACTTGAACGATACTTTTATTCAATGTTTGATATATTT
GACAGCCACTTACTATATGGTTCAAGACAATAGCTAGCAGCAATCAGTTTAAGAAATAATAATC
TCAGTTCCAAGTCTCTTTTTCATGGATCCGTGGGTCACATAGCACAACTTTTCACTATTAGTCT
CTTTATAATTTAGTAATTTGCATTTGGTACCCACTCGCATGATGGCTTTATTTGTGTTTCTCTT
GTTGATATCTTTGCTCTTCATTCATCATGGTAGTATTTGATCTAACACATTAAACTAGATCTTT
AAACAATTTACATAAGATTTTATTCAAATGCAGATGGACTCTCGTAGCCTTGCAGTGGAATTTG
CGCCTTTGATCATGTGGCAGCAAGGTGACTCTGGAACAGATTTGCGGAATCATCTTAGATTTAC
CCTAAAAGCACCTCCAAAAATTGTGGATACAACATCAAATACCACAGAATGGGATCTGTTAG
						
					

			
		

Sequences
Splice junction sequence	GACTCTGGAACAGATTTGCGGAATCATCTTAGATTTACCCTAAAAGCACCTCCAAAAATTGTGG ATACAACATCAAATACCACAGAATGGGATCTGTTAGtctttggtgttcccattgaagccaccgt acaacgagagcaatctggtaaagctgtgcctctggtacttgtgagatgtgcagattatctggtt atatcagg
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: 205 Transcript exons: 17910126-17910196,17911398-17911531 TCTTTGGTGTTCCCATTGAAGCCACCGTACAACGAGAGCAATCTGGTAAAGCTGTGCCTCTGGT ACTTGTGGGAATTTGCGCCTTTGATCATGTGGCAGCAAGGTGACTCTGGAACAGATTTGCGGAA TCATCTTAGATTTACCCTAAAAGCACCTCCAAAAATTGTGGATACAACATCAAATACCACAGAA TGGGATCTGTTAG Transcript length: 233 Transcript exons: 17910126-17910206,17911380-17911531 TCTTTGGTGTTCCCATTGAAGCCACCGTACAACGAGAGCAATCTGGTAAAGCTGTGCCTCTGGT ACTTGTGAGATGTGCAGCTCTCGTAGCCTTGCAGTGGAATTTGCGCCTTTGATCATGTGGCAGC AAGGTGACTCTGGAACAGATTTGCGGAATCATCTTAGATTTACCCTAAAAGCACCTCCAAAAAT TGTGGATACAACATCAAATACCACAGAATGGGATCTGTTAG Transcript length: 579 Transcript exons: 17910126-17910224,17910304-17910381,17910470-17910714,17 911375-17911531 TCTTTGGTGTTCCCATTGAAGCCACCGTACAACGAGAGCAATCTGGTAAAGCTGTGCCTCTGGT ACTTGTGAGATGTGCAGATTATCTGGTTATATCAGGTTTGAGTAATGAGTACTTGTTCAAATCA GAGGGTGAAAAAAAAGTTCTTCAGCAATTAGTCTCTCTTTACAATGAAGATTCAGGTGCACCTT TCCCTGATGGTGTAAACCCCATTGATGTGGCTGCACTGATAAAGTGCTATCTTGCTAGCATCCC TGAGCCACTTACTACATTCTCTCTTTATGATGAACTTAGAGATGCAAGGGTTAGCATTGCAGAT TTAAGAAATATACTGAAGAAGCTTCCCAATGTGAACTACATGACACTAGAGTTTGTTACAGCAC TGCTACTTAGAGTAAGCCGTAAATCATCGCTTAACAAGATGGACTCTCGTAGCCTTGCAGTGGA ATTTGCGCCTTTGATCATGTGGCAGCAAGGTGACTCTGGAACAGATTTGCGGAATCATCTTAGA TTTACCCTAAAAGCACCTCCAAAAATTGTGGATACAACATCAAATACCACAGAATGGGATCTGT TAG
Genomic sequence	TCTTTGGTGTTCCCATTGAAGCCACCGTACAACGAGAGCAATCTGGTAAAGCTGTGCCTCTGGT ACTTGTGAGATGTGCAGATTATCTGGTTATATCAGGTAAAATGCTGAAATTCAATAGAAGGTGG TTTTATTACTACATTTTTTTCATACCTGACATTTAATTTGCTTTTATTAGGTTTGAGTAATGAG TACTTGTTCAAATCAGAGGGTGAAAAAAAAGTTCTTCAGCAATTAGTCTCTCTTTACAATGAAG GTACCATTTTCATTCATTATGTTTGAACTTAGATTTTGTGATCATGATTCATTGTTGTGATCTT TGTAAGTTTATTGTTGTTTTGCAGATTCAGGTGCACCTTTCCCTGATGGTGTAAACCCCATTGA TGTGGCTGCACTGATAAAGTGCTATCTTGCTAGCATCCCTGAGCCACTTACTACATTCTCTCTT TATGATGAACTTAGAGATGCAAGGGTTAGCATTGCAGATTTAAGAAATATACTGAAGAAGCTTC CCAATGTGAACTACATGACACTAGAGTTTGTTACAGCACTGCTACTTAGAGTAAGCCGTAAATC ATCGCTTAACAAGGTATATCTTATTCTTATTTCACCTCTGCATAAATCACAACTTTTATTTAAT TTGAAATGGTTCATATTATGGTTGTTTGGGCACTTCTGTAAACCTGGCACTTTTACTGAGCAAT GATTAATGCCTGAGTCATGTTTTTCTTTCTTTTCGGTTCGTGGACAGGATAGTAAAGTGTAATT GAGTTCAGAATGCAGAATGCTTAAAAGAGTCACTGCAAACACTTCAGAACACCAAACACTTGCC TATTAATCGCCAGTTTTTATGTCTTATACAGGAAATCAGTTGCTAATTGTATCTTACATAACTT ATCTTGTTTACATCACTGCTTTGATTGACTTGAACGATACTTTTATTCAATGTTTGATATATTT GACAGCCACTTACTATATGGTTCAAGACAATAGCTAGCAGCAATCAGTTTAAGAAATAATAATC TCAGTTCCAAGTCTCTTTTTCATGGATCCGTGGGTCACATAGCACAACTTTTCACTATTAGTCT CTTTATAATTTAGTAATTTGCATTTGGTACCCACTCGCATGATGGCTTTATTTGTGTTTCTCTT GTTGATATCTTTGCTCTTCATTCATCATGGTAGTATTTGATCTAACACATTAAACTAGATCTTT AAACAATTTACATAAGATTTTATTCAAATGCAGATGGACTCTCGTAGCCTTGCAGTGGAATTTG CGCCTTTGATCATGTGGCAGCAAGGTGACTCTGGAACAGATTTGCGGAATCATCTTAGATTTAC CCTAAAAGCACCTCCAAAAATTGTGGATACAACATCAAATACCACAGAATGGGATCTGTTAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017079 						
					
						PMCS
						0.413533647

Conservation Information
Conserved circRNAs	osi_circ_017079
PMCS	0.413533647

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17910653-17911528(+)
17910143-17911457(-)
						
						Potential amino acid sequence
						
							MTLEFVTALLLRVSRKSSLNKMDSRSLAVEFAPLIMWQQGDSGTDLRNHLRFTLKAPPKIVDTT
SNTTEWDLLVFGVPIEATVQREQSGKAVPLVLVRCADYLVISGLSNEYLFKSEGEKKVLQQLVS
LYNEDSGAPFPDGVNPIDVAALIKCYLASIPEPLTTFSLYDELRDARVSIADLRNILKKLPNVN
YMTLEFVTALLLRVSRKSSLNKMDSRSLAVEFAPLIMWQQGDSGTDLRNHLRFTLKAPPKIVDT
TSNTTEWDLLVFGVPIEATVQREQSGKAVPLVLVRCADYLVISGLSNEYLFKSEGEKKVLQQLV
SLYNEDSGAPFPDGVNPIDVAALIKCYLASIPEPLTTFSLYDELRDARVSIADLRNILKKLPNV
NYMTLEFVTALLLRVSRKSSLNKMDSRSLAVEFAPLIMWQQGDSGTDLRNHLRFTLKAPPKIVD
TTSNTTEWDLLVFGVPIEATVQREQSGKAVPLVLVRCADYLVISGLSNEYLFKSEGEKKVLQQL
VSLYNEDSGAPFPDGVNPIDVAALIKCYLASIPEPLTTFSLYDELRDARVSIADLRNILKKLPN
VNYMTLEFVTALLLRVSRKSSLNKMDSRSLAVEFAPLIMWQQGDSGTDLRNHLRFTLKAPPKIV
DTTSNTTEWDLL(+)
MGTPKTNRSHSVVFDVVSTIFGGAFRVNLR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to Pi-starvation

Functional Information
Coding potential	Y
Potential coding position	17910653-17911528(+) 17910143-17911457(-)
Potential amino acid sequence	MTLEFVTALLLRVSRKSSLNKMDSRSLAVEFAPLIMWQQGDSGTDLRNHLRFTLKAPPKIVDTT SNTTEWDLLVFGVPIEATVQREQSGKAVPLVLVRCADYLVISGLSNEYLFKSEGEKKVLQQLVS LYNEDSGAPFPDGVNPIDVAALIKCYLASIPEPLTTFSLYDELRDARVSIADLRNILKKLPNVN YMTLEFVTALLLRVSRKSSLNKMDSRSLAVEFAPLIMWQQGDSGTDLRNHLRFTLKAPPKIVDT TSNTTEWDLLVFGVPIEATVQREQSGKAVPLVLVRCADYLVISGLSNEYLFKSEGEKKVLQQLV SLYNEDSGAPFPDGVNPIDVAALIKCYLASIPEPLTTFSLYDELRDARVSIADLRNILKKLPNV NYMTLEFVTALLLRVSRKSSLNKMDSRSLAVEFAPLIMWQQGDSGTDLRNHLRFTLKAPPKIVD TTSNTTEWDLLVFGVPIEATVQREQSGKAVPLVLVRCADYLVISGLSNEYLFKSEGEKKVLQQL VSLYNEDSGAPFPDGVNPIDVAALIKCYLASIPEPLTTFSLYDELRDARVSIADLRNILKKLPN VNYMTLEFVTALLLRVSRKSSLNKMDSRSLAVEFAPLIMWQQGDSGTDLRNHLRFTLKAPPKIV DTTSNTTEWDLL(+) MGTPKTNRSHSVVFDVVSTIFGGAFRVNLR*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to Pi-starvation

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

circRNA

Detail information of Os07g0486500_circ_g.5

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