Plant Circular RNA Database

Detail information of Os09g0109800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0109800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_038397
					
						Alias
						Os_ciR12027
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 882800-885581  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os09g0109800						
					
						Parent gene annotation
						
							Similar to Na+/H+ antiporter, probable CP0838. (Os09t0109800-01)
;Similar to Na+/H+ antiporter, probable CP0838. (Os09t0109800-02
);Divalent ion symporter domain containing protein. (Os09t010980
0-03);Similar to Na+/H+ antiporter, probable CP0838. (Os09t01098
00-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0109800_circ_g.3 						
					
						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
						Os09t0109800-04:3
Os09t0109800-01:3
Os09t0109800-02:3
Os09t0109800-03:3

General Information
CircRNA Name	Os09g0109800_circ_g.2
ID in PlantcircBase	osa_circ_038397
Alias	Os_ciR12027
Organism	Oryza sativa
Position	chr9: 882800-885581 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os09g0109800
Parent gene annotation	Similar to Na+/H+ antiporter, probable CP0838. (Os09t0109800-01) ;Similar to Na+/H+ antiporter, probable CP0838. (Os09t0109800-02 );Divalent ion symporter domain containing protein. (Os09t010980 0-03);Similar to Na+/H+ antiporter, probable CP0838. (Os09t01098 00-04)
Parent gene strand	+
Alternative splicing	Os09g0109800_circ_g.3
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	Os09t0109800-04:3 Os09t0109800-01:3 Os09t0109800-02:3 Os09t0109800-03:3

			
						 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  
						
							GATATCTGCAAATGCTGGGGGTGCATGGACACCAATTGGTGATGTGACGACCACTATGTTGTGG
ATTCATGGTCAGATTACAACGTTGAACACAATGCAGgctccatctactgatgtagcagttcaag
agttgagtcatacaaccgccgaagttagtgaaatagtctttttcttgctcggtgcaatgaccat
tgttgaga

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							GCTCCATCTACTGATGTAGCAGTTCAAGAGTTGAGTCATACAACCGCCGAAGTTAGTGAAATAG
TCTTTTTCTTGCTCGGTGCAATGACCATTGTTGAGATTGTTGATGCACATCAAGGATTTAAGCT
AGTGACTGACAATATATCTACTCGAAATCCAAGAACTCTTCTCTGGGTGGTGAGTTTTTTGTTT
TTTACATATGCTTTGATCATTGAATATTCTGTTATATTGGTAGATTGTATACGCTATAATTCTC
AATGACATAATTTCAATGGATGGGTTCCTGTTGTTGATGCCGTGTTACCAAAATGGCCTAGAAC
CACACTCTTTCTGAGGTTAAGAACAGATCTTTGTGCAGCTGAGTCTATAAGTTTTATTATCCTT
CCCCTCCCTTTTTGACAGGAGATCTGATTTATCCTTCTAATTCCTTCCAATCGCCACTCAGGCC
ATGATATGTAGCAAAACCAAATAAATTCTGCTGTCTATATGTGATATCAGCAAATGCAAGAGTT
TGTTCTGTGGATAAATAATTTTGACCATATTCATAGACAAATTCCAGTCTATACCCACAAAATG
CAAGAATGAATTGGATTACATTTTTATTTAGAAATAAAATCTTGACAAACATCCCTGAGATGTA
AATTTCTCGAGTACATGCTGAATTAATGTGGCATATGAATTACTATGCTTCCTAGAATAAACTG
TTAGTTCAATACTGGCAATATCATAAGCTTGTATCCTCTTTAGAACAAGGAGGTCAAGTATTTG
ATGTTAAAATTTTATCCACTGAGAATTCTGATTTTGGAAGAGGAGAAATATTTCCTTGAAATCC
AAAACTGGTTTGATATATTAATCTATTCTTATTTTTGTCCATGCACATTTTACTTCTCTTGTTC
TGAGTAACTTCTTTCATTATTTTTTATATGATAGATCATTTATTTCCTACTATTTCCTTATAGG
CAACTTCTAATCATGCCTTCATCTCTAGCTACATAATTTATTTGGTAAATAAAGGAAATATTTG
ATTTCATAAGCTAATCAATATTAAACCTTGGATTAATATATTCTTATTTCTGTTATTTTCATCA
TGTTGCTTTGTAACACAAGGATTTTTCTGTTTTCCAGATAGGGTTTGTAACTTTCTTCTTGAGT
TCTATCCTTGACAATTTGACTTCCACTATTGTGATGGTTTCATTGCTTCGGAAACTAGTACCTC
CATCAGAGTACAGAAAGTACGAATTTCCATAATCTCTTATATCACTTTTGTACATGCTCTGGTA
ATTTTTCTCTATTGTTTTGTACGGATTTGATTTTCAGTGGTCAAATACTTGCATGCTAAATAAA
TTCAATTATTTTATGTTTGCTCTGTTTACAGGATTAGTTTCAAAATATTGTGTTGGCATCTTTG
CATAGTTGTTTTTTCCATAAAAAAATTTTTATTCACTACAGGTTTAGCATTTTGACATTTCATT
GCTTGATTTTGCTTAATTGCTGTACGACCCACAGTTTGATCTTCTTACTCGTGCTATGCACATG
TCTTTGCTGAAGCTTTGTCGAACGAAATGTATTACACAAATGCTTGAAAATGATTTATATGTTG
ATAATATGTGGTTTGGTTGCAGTATATGTAGGCTGGTCCAGTTAAATATGAGTTACAGATGCTT
TTAAGGAAATATATTATACTAAACACAATTTAATAACTTACAGTATTTCTTCACATGTCTCAAG
AAATTTTCTTTATGATGATCGTCCCACCTTATTGCACAGAGCCACAGTATACCAAAGAGTTCAA
GTTAGTAGGGGAAGTATGTACTGCAGTTGATCATCTGGTTCAAGGGTGCAAGCACCGCAGGATT
GGGATGAGAATTATGATTTGAGGTCAGATCTCATCTTATGTTTGGGCAGGATTTAGGGATAGCA
GGGATGGTTATGGGATTTGGGATATAAGGTTAGATCTCATCTACTATTTGGATAGGGGAATTGA
GAAAATGATGGAGAGCTACGATCACCCCTATAATACCTAGGCCTAGCTCACTTCTGCTATCCCT
ATGTCCCTATGCCTTGACACCTCCCTGGTTTAGGCAAGAAATCTGCTTGAAAAGCTCCCCCCCC
CCCAAAAAAAAATAAATAAAAATGATGAGATAGTTTGAAATGTATGGAGAAGTTAAGATTAAAA
TCATATATGGTGGGACAAGAATTGAATAGGCAGTTAATCGGCTGACCTGCCAACCTCGAGAAAT
AAGAGCGAACCTTTTCCTTCCTCTTACCATGTAACGTTCCCTTTCGAACATGATTTTTTTTTCC
TGGATTCCTCTGTGCACTGAATTAATTTTTGCAAAATTCTACATTCCAAATTATGGTTCAAATG
TAACAGAAATAAGAGGCTCATAGTTGTAGCCAACATTCCATTTCTATTTCTCGAAGTTAGCTGT
TGTTAGGCCAGTCCATTACGTCCTTCTTGGTTTGTTTGAGGAATATTTTGTGCCAATTTGAGGT
GAACCTGGTGTGTCTTGCATACCTGCACCAAGTGGGATTTTTTTACACTAGGCATTTTGACATT
TAGCTTTTAATGTACACGACATCATAAGTTACAAGAAATTGTTTGGAAGAATGTCTTGCATCCT
GACCTCCTGAGTTTTCCCTATTGTTTTATTGGGACAGATTGTTAGGCGCTGTTGTTGTGATATC
TGCAAATGCTGGGGGTGCATGGACACCAATTGGTGATGTGACGACCACTATGTTGTGGATTCAT
GGTCAGATTACAACGTTGAACACAATGCAG
						
					

			
		

Sequences
Splice junction sequence	GATATCTGCAAATGCTGGGGGTGCATGGACACCAATTGGTGATGTGACGACCACTATGTTGTGG ATTCATGGTCAGATTACAACGTTGAACACAATGCAGgctccatctactgatgtagcagttcaag agttgagtcatacaaccgccgaagttagtgaaatagtctttttcttgctcggtgcaatgaccat tgttgaga
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GCTCCATCTACTGATGTAGCAGTTCAAGAGTTGAGTCATACAACCGCCGAAGTTAGTGAAATAG TCTTTTTCTTGCTCGGTGCAATGACCATTGTTGAGATTGTTGATGCACATCAAGGATTTAAGCT AGTGACTGACAATATATCTACTCGAAATCCAAGAACTCTTCTCTGGGTGGTGAGTTTTTTGTTT TTTACATATGCTTTGATCATTGAATATTCTGTTATATTGGTAGATTGTATACGCTATAATTCTC AATGACATAATTTCAATGGATGGGTTCCTGTTGTTGATGCCGTGTTACCAAAATGGCCTAGAAC CACACTCTTTCTGAGGTTAAGAACAGATCTTTGTGCAGCTGAGTCTATAAGTTTTATTATCCTT CCCCTCCCTTTTTGACAGGAGATCTGATTTATCCTTCTAATTCCTTCCAATCGCCACTCAGGCC ATGATATGTAGCAAAACCAAATAAATTCTGCTGTCTATATGTGATATCAGCAAATGCAAGAGTT TGTTCTGTGGATAAATAATTTTGACCATATTCATAGACAAATTCCAGTCTATACCCACAAAATG CAAGAATGAATTGGATTACATTTTTATTTAGAAATAAAATCTTGACAAACATCCCTGAGATGTA AATTTCTCGAGTACATGCTGAATTAATGTGGCATATGAATTACTATGCTTCCTAGAATAAACTG TTAGTTCAATACTGGCAATATCATAAGCTTGTATCCTCTTTAGAACAAGGAGGTCAAGTATTTG ATGTTAAAATTTTATCCACTGAGAATTCTGATTTTGGAAGAGGAGAAATATTTCCTTGAAATCC AAAACTGGTTTGATATATTAATCTATTCTTATTTTTGTCCATGCACATTTTACTTCTCTTGTTC TGAGTAACTTCTTTCATTATTTTTTATATGATAGATCATTTATTTCCTACTATTTCCTTATAGG CAACTTCTAATCATGCCTTCATCTCTAGCTACATAATTTATTTGGTAAATAAAGGAAATATTTG ATTTCATAAGCTAATCAATATTAAACCTTGGATTAATATATTCTTATTTCTGTTATTTTCATCA TGTTGCTTTGTAACACAAGGATTTTTCTGTTTTCCAGATAGGGTTTGTAACTTTCTTCTTGAGT TCTATCCTTGACAATTTGACTTCCACTATTGTGATGGTTTCATTGCTTCGGAAACTAGTACCTC CATCAGAGTACAGAAAGTACGAATTTCCATAATCTCTTATATCACTTTTGTACATGCTCTGGTA ATTTTTCTCTATTGTTTTGTACGGATTTGATTTTCAGTGGTCAAATACTTGCATGCTAAATAAA TTCAATTATTTTATGTTTGCTCTGTTTACAGGATTAGTTTCAAAATATTGTGTTGGCATCTTTG CATAGTTGTTTTTTCCATAAAAAAATTTTTATTCACTACAGGTTTAGCATTTTGACATTTCATT GCTTGATTTTGCTTAATTGCTGTACGACCCACAGTTTGATCTTCTTACTCGTGCTATGCACATG TCTTTGCTGAAGCTTTGTCGAACGAAATGTATTACACAAATGCTTGAAAATGATTTATATGTTG ATAATATGTGGTTTGGTTGCAGTATATGTAGGCTGGTCCAGTTAAATATGAGTTACAGATGCTT TTAAGGAAATATATTATACTAAACACAATTTAATAACTTACAGTATTTCTTCACATGTCTCAAG AAATTTTCTTTATGATGATCGTCCCACCTTATTGCACAGAGCCACAGTATACCAAAGAGTTCAA GTTAGTAGGGGAAGTATGTACTGCAGTTGATCATCTGGTTCAAGGGTGCAAGCACCGCAGGATT GGGATGAGAATTATGATTTGAGGTCAGATCTCATCTTATGTTTGGGCAGGATTTAGGGATAGCA GGGATGGTTATGGGATTTGGGATATAAGGTTAGATCTCATCTACTATTTGGATAGGGGAATTGA GAAAATGATGGAGAGCTACGATCACCCCTATAATACCTAGGCCTAGCTCACTTCTGCTATCCCT ATGTCCCTATGCCTTGACACCTCCCTGGTTTAGGCAAGAAATCTGCTTGAAAAGCTCCCCCCCC CCCAAAAAAAAATAAATAAAAATGATGAGATAGTTTGAAATGTATGGAGAAGTTAAGATTAAAA TCATATATGGTGGGACAAGAATTGAATAGGCAGTTAATCGGCTGACCTGCCAACCTCGAGAAAT AAGAGCGAACCTTTTCCTTCCTCTTACCATGTAACGTTCCCTTTCGAACATGATTTTTTTTTCC TGGATTCCTCTGTGCACTGAATTAATTTTTGCAAAATTCTACATTCCAAATTATGGTTCAAATG TAACAGAAATAAGAGGCTCATAGTTGTAGCCAACATTCCATTTCTATTTCTCGAAGTTAGCTGT TGTTAGGCCAGTCCATTACGTCCTTCTTGGTTTGTTTGAGGAATATTTTGTGCCAATTTGAGGT GAACCTGGTGTGTCTTGCATACCTGCACCAAGTGGGATTTTTTTACACTAGGCATTTTGACATT TAGCTTTTAATGTACACGACATCATAAGTTACAAGAAATTGTTTGGAAGAATGTCTTGCATCCT GACCTCCTGAGTTTTCCCTATTGTTTTATTGGGACAGATTGTTAGGCGCTGTTGTTGTGATATC TGCAAATGCTGGGGGTGCATGGACACCAATTGGTGATGTGACGACCACTATGTTGTGGATTCAT GGTCAGATTACAACGTTGAACACAATGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.116866116

Conservation Information
Conserved circRNAs	NA
PMCS	0.116866116

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							882885-885578(+)
882915-885467(-)
						
						Potential amino acid sequence
						
							MTIVEIVDAHQGFKLVTDNISTRNPRTLLWVIGFVTFFLSSILDNLTSTIVMVSLLRKLVPPSE
YRKLLGAVVVISANAGGAWTPIGDVTTTMLWIHGQITTLNTMQAPSTDVAVQELSHTTAEVSEI
VFFLLGAMTIVEIVDAHQGFKLVTDNISTRNPRTLLWVIGFVTFFLSSILDNLTSTIVMVSLLR
KLVPPSEYRKLLGAVVVISANAGGAWTPIGDVTTTMLWIHGQITTLNTMQAPSTDVAVQELSHT
TAEVSEIVFFLLGAMTIVEIVDAHQGFKLVTDNISTRNPRTLLWVIGFVTFFLSSILDNLTSTI
VMVSLLRKLVPPSEYRKLLGAVVVISANAGGAWTPIGDVTTTMLWIHGQITTLNTMQAPSTDVA
VQELSHTTAEVSEIVFFLLGAMTIVEIVDAHQGFKLVTDNISTRNPRTLLWVIGFVTFFLSSIL
DNLTSTIVMVSLLRKLVPPSEYRKLLGAVVVISANAGGAWTPIGDVTTTMLWIHGQITTLNTMQ
(+)
MCINNLNNGHCTEQEKDYFTNFGGCMTQLLNCYISRWSLHCVQRCNLTMNPQHSGRHITNWCPC
TPSICRYHNNSA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	882885-885578(+) 882915-885467(-)
Potential amino acid sequence	MTIVEIVDAHQGFKLVTDNISTRNPRTLLWVIGFVTFFLSSILDNLTSTIVMVSLLRKLVPPSE YRKLLGAVVVISANAGGAWTPIGDVTTTMLWIHGQITTLNTMQAPSTDVAVQELSHTTAEVSEI VFFLLGAMTIVEIVDAHQGFKLVTDNISTRNPRTLLWVIGFVTFFLSSILDNLTSTIVMVSLLR KLVPPSEYRKLLGAVVVISANAGGAWTPIGDVTTTMLWIHGQITTLNTMQAPSTDVAVQELSHT TAEVSEIVFFLLGAMTIVEIVDAHQGFKLVTDNISTRNPRTLLWVIGFVTFFLSSILDNLTSTI VMVSLLRKLVPPSEYRKLLGAVVVISANAGGAWTPIGDVTTTMLWIHGQITTLNTMQAPSTDVA VQELSHTTAEVSEIVFFLLGAMTIVEIVDAHQGFKLVTDNISTRNPRTLLWVIGFVTFFLSSIL DNLTSTIVMVSLLRKLVPPSEYRKLLGAVVVISANAGGAWTPIGDVTTTMLWIHGQITTLNTMQ (+) MCINNLNNGHCTEQEKDYFTNFGGCMTQLLNCYISRWSLHCVQRCNLTMNPQHSGRHITNWCPC TPSICRYHNNSA*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os09g0109800_circ_g.2

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