Plant Circular RNA Database

Detail information of Os09g0133700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0133700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_038501
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 2558217-2559825  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0133700						
					
						Parent gene annotation
						
							ATPase, BadF/BadG/BcrA/BcrD type domain containing protein. (Os0
9t0133700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0133700_circ_g.1 Os09g0133700_circ_g.3 Os09g0133700_circ_g.4 Os09g0133700_circ_g.5 						
					
						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
						Os09t0133700-01:4

General Information
CircRNA Name	Os09g0133700_circ_g.2
ID in PlantcircBase	osa_circ_038501
Alias	NA
Organism	Oryza sativa
Position	chr9: 2558217-2559825 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0133700
Parent gene annotation	ATPase, BadF/BadG/BcrA/BcrD type domain containing protein. (Os0 9t0133700-01)
Parent gene strand	+
Alternative splicing	Os09g0133700_circ_g.1 Os09g0133700_circ_g.3 Os09g0133700_circ_g.4 Os09g0133700_circ_g.5
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	Os09t0133700-01:4

			
						 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  
						
							GATGGTGATGAAGTAGCAAACAAAATATTGCATGATTCAGTGCAGGAGTTAGCTGATAGTGTTG
TTGCTGTTGTTCGGCGCCTTAAATTGTGTGGTGAAGaaagtgctgcactggaaactctagaaca
ggtcatggcacaggccctcacattggtcaacacggatcgttcagctgtccgtgcagtttgttta
gctgtatc

									
								

					

						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: 639
Transcript exons: 2558217-2558364,2558553-2558744,2559166-2559294,2559656-
2559825
AAAGTGCTGCACTGGAAACTCTAGAACAGGTCATGGCACAGGCCCTCACATTGGTCAACACGGA
TCGTTCAGCTGTCCGTGCAGTTTGTTTAGCTGTATCTGGAGTTAACCATCCTTCTGATCAGCAG
AGGATGCTAGACTGGATTCGAGATCTCTTCCCTGGCCATGTCAAGTTTTATGTGGAAAATGATG
CGGTGGCAGCTCTGGCCAGTGGTACAATGGGAAAGCTACATGGCTGTGTATTGATAGCGGGCAC
TGGAAGCATAGCTTATGGGGTCACTGAAGATGGAAAGGTAGCAAGAGCAGCTGGTGCTGGACCT
GTTTTGGGCGACTGGGGTAGTGGATATGGCATTGCTGCACAGGCCCTGACAGCAGTCGTAAAAG
CATACGATGGCCGTGGACCTCATACTAATCTTACAAGAGAGATCCTTAGGAAGCTTGAGCTTTC
TTCACCAGATGAATTGATTGGGTGGACGTATGCAGATCCATCTTGGGCCCGTATTGCAGCACTT
GTTCCTGTTGTGGTATCTTCTGCTGAAGATGGTGATGAAGTAGCAAACAAAATATTGCATGATT
CAGTGCAGGAGTTAGCTGATAGTGTTGTTGCTGTTGTTCGGCGCCTTAAATTGTGTGGTGAAG
						
					

						Genomic sequence
						
							AAAGTGCTGCACTGGAAACTCTAGAACAGGTCATGGCACAGGCCCTCACATTGGTCAACACGGA
TCGTTCAGCTGTCCGTGCAGTTTGTTTAGCTGTATCTGGAGTTAACCATCCTTCTGATCAGCAG
AGGATGCTAGACTGGATTCGGTATTGATCTCTGCATATATCCCCTTCCTGAAAATTCATCCGCT
GGCCACTTCAAATAGCATCAATAAATTTTGTAAATCATGGTTTCTTATTGAATTGGACACAGTC
TGAAGCTATCAGGGAAACAATGCATGAGTTAAAATTTTTCACTTGCTGCTAAGTGCTAAGTGAG
CTTTTTTGTTCTCCAGAGATCTCTTCCCTGGCCATGTCAAGTTTTATGTGGAAAATGATGCGGT
GGCAGCTCTGGCCAGTGGTACAATGGGAAAGCTACATGGCTGTGTATTGATAGCGGGCACTGGA
AGCATAGCTTATGGGGTCACTGAAGATGGAAAGGTAGCAAGAGCAGCTGGTGCTGGACCTGTTT
TGGGCGACTGGGGTAGGTGAGTTACATTTATAAGAGAAGGGAATGTTAAGAAATTCCAAAGATA
AATGTGTTATTTGAAGTTGGTATACTGTTTCTTTTGGGGGATTTCATTTGCATATTCTCCTAGC
AAAAGCTTCTGATCTATAACATGAAAATCAGACAATATGTTATTTATTTGCAAGGGGTTATGAA
TTTCCACTTAGTGTGAAAACCCACTATCATGAATTGACCATGACATGCTTAATTAAGGGTGAAT
AGGCATTTAAAACTGTTAGCATTTTCAATAGAGTGACAGGAAAACATAGGTTACATTATTTGAC
CATGAATACATCCACATCCTTAGGAGAACCCCAATTTTTTTCCAGAGCAATATATTTTCAATAG
CTTTTACATGTGACAAAGGAAATGTAGGTGACACCATGTGTACATTAATGCAGTGGATATGGCA
TTGCTGCACAGGCCCTGACAGCAGTCGTAAAAGCATACGATGGCCGTGGACCTCATACTAATCT
TACAAGAGAGATCCTTAGGAAGCTTGAGCTTTCTTCACCAGATGAATTGATTGGGTAAGTTCTC
TCGTACATATATATCCTTTTTGCCAACACATTCTATTTCGGTTGTATTTTTCCATTAAGTTTTT
ACCATGAGAAATTATCACTATTGTCAAGCATCCCTTTTGAGATCTTTTTTCCATTATGAAACTT
GTCCTGTTGATGCATTAAGCTCATCACATCCAACGATCCATATTTTAACATCCTATGAAGGCGA
TACTACGATATTTGGACCAAACTGGTCTGAACAAACTGCTATTTCAGTGTTGAATGCCAAAAAG
ACATCCTGCGATTGTTTCATGTTTTATCTTGAAAATCTACGATATTTGGAGTCTTTAAGTTAGT
TATCAACTTATCATCCTTGTCTGTGGCATAGGTGGACGTATGCAGATCCATCTTGGGCCCGTAT
TGCAGCACTTGTTCCTGTTGTGGTATCTTCTGCTGAAGATGGTGATGAAGTAGCAAACAAAATA
TTGCATGATTCAGTGCAGGAGTTAGCTGATAGTGTTGTTGCTGTTGTTCGGCGCCTTAAATTGT
GTGGTGAAG
						
					

			
		

Sequences
Splice junction sequence	GATGGTGATGAAGTAGCAAACAAAATATTGCATGATTCAGTGCAGGAGTTAGCTGATAGTGTTG TTGCTGTTGTTCGGCGCCTTAAATTGTGTGGTGAAGaaagtgctgcactggaaactctagaaca ggtcatggcacaggccctcacattggtcaacacggatcgttcagctgtccgtgcagtttgttta gctgtatc
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: 639 Transcript exons: 2558217-2558364,2558553-2558744,2559166-2559294,2559656- 2559825 AAAGTGCTGCACTGGAAACTCTAGAACAGGTCATGGCACAGGCCCTCACATTGGTCAACACGGA TCGTTCAGCTGTCCGTGCAGTTTGTTTAGCTGTATCTGGAGTTAACCATCCTTCTGATCAGCAG AGGATGCTAGACTGGATTCGAGATCTCTTCCCTGGCCATGTCAAGTTTTATGTGGAAAATGATG CGGTGGCAGCTCTGGCCAGTGGTACAATGGGAAAGCTACATGGCTGTGTATTGATAGCGGGCAC TGGAAGCATAGCTTATGGGGTCACTGAAGATGGAAAGGTAGCAAGAGCAGCTGGTGCTGGACCT GTTTTGGGCGACTGGGGTAGTGGATATGGCATTGCTGCACAGGCCCTGACAGCAGTCGTAAAAG CATACGATGGCCGTGGACCTCATACTAATCTTACAAGAGAGATCCTTAGGAAGCTTGAGCTTTC TTCACCAGATGAATTGATTGGGTGGACGTATGCAGATCCATCTTGGGCCCGTATTGCAGCACTT GTTCCTGTTGTGGTATCTTCTGCTGAAGATGGTGATGAAGTAGCAAACAAAATATTGCATGATT CAGTGCAGGAGTTAGCTGATAGTGTTGTTGCTGTTGTTCGGCGCCTTAAATTGTGTGGTGAAG
Genomic sequence	AAAGTGCTGCACTGGAAACTCTAGAACAGGTCATGGCACAGGCCCTCACATTGGTCAACACGGA TCGTTCAGCTGTCCGTGCAGTTTGTTTAGCTGTATCTGGAGTTAACCATCCTTCTGATCAGCAG AGGATGCTAGACTGGATTCGGTATTGATCTCTGCATATATCCCCTTCCTGAAAATTCATCCGCT GGCCACTTCAAATAGCATCAATAAATTTTGTAAATCATGGTTTCTTATTGAATTGGACACAGTC TGAAGCTATCAGGGAAACAATGCATGAGTTAAAATTTTTCACTTGCTGCTAAGTGCTAAGTGAG CTTTTTTGTTCTCCAGAGATCTCTTCCCTGGCCATGTCAAGTTTTATGTGGAAAATGATGCGGT GGCAGCTCTGGCCAGTGGTACAATGGGAAAGCTACATGGCTGTGTATTGATAGCGGGCACTGGA AGCATAGCTTATGGGGTCACTGAAGATGGAAAGGTAGCAAGAGCAGCTGGTGCTGGACCTGTTT TGGGCGACTGGGGTAGGTGAGTTACATTTATAAGAGAAGGGAATGTTAAGAAATTCCAAAGATA AATGTGTTATTTGAAGTTGGTATACTGTTTCTTTTGGGGGATTTCATTTGCATATTCTCCTAGC AAAAGCTTCTGATCTATAACATGAAAATCAGACAATATGTTATTTATTTGCAAGGGGTTATGAA TTTCCACTTAGTGTGAAAACCCACTATCATGAATTGACCATGACATGCTTAATTAAGGGTGAAT AGGCATTTAAAACTGTTAGCATTTTCAATAGAGTGACAGGAAAACATAGGTTACATTATTTGAC CATGAATACATCCACATCCTTAGGAGAACCCCAATTTTTTTCCAGAGCAATATATTTTCAATAG CTTTTACATGTGACAAAGGAAATGTAGGTGACACCATGTGTACATTAATGCAGTGGATATGGCA TTGCTGCACAGGCCCTGACAGCAGTCGTAAAAGCATACGATGGCCGTGGACCTCATACTAATCT TACAAGAGAGATCCTTAGGAAGCTTGAGCTTTCTTCACCAGATGAATTGATTGGGTAAGTTCTC TCGTACATATATATCCTTTTTGCCAACACATTCTATTTCGGTTGTATTTTTCCATTAAGTTTTT ACCATGAGAAATTATCACTATTGTCAAGCATCCCTTTTGAGATCTTTTTTCCATTATGAAACTT GTCCTGTTGATGCATTAAGCTCATCACATCCAACGATCCATATTTTAACATCCTATGAAGGCGA TACTACGATATTTGGACCAAACTGGTCTGAACAAACTGCTATTTCAGTGTTGAATGCCAAAAAG ACATCCTGCGATTGTTTCATGTTTTATCTTGAAAATCTACGATATTTGGAGTCTTTAAGTTAGT TATCAACTTATCATCCTTGTCTGTGGCATAGGTGGACGTATGCAGATCCATCTTGGGCCCGTAT TGCAGCACTTGTTCCTGTTGTGGTATCTTCTGCTGAAGATGGTGATGAAGTAGCAAACAAAATA TTGCATGATTCAGTGCAGGAGTTAGCTGATAGTGTTGTTGCTGTTGTTCGGCGCCTTAAATTGT GTGGTGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.232917837

Conservation Information
Conserved circRNAs	NA
PMCS	0.232917837

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2558250-2559822(+)
2558252-2559231(-)
						
						Potential amino acid sequence
						
							MAQALTLVNTDRSAVRAVCLAVSGVNHPSDQQRMLDWIRDLFPGHVKFYVENDAVAALASGTMG
KLHGCVLIAGTGSIAYGVTEDGKVARAAGAGPVLGDWGSGYGIAAQALTAVVKAYDGRGPHTNL
TREILRKLELSSPDELIGWTYADPSWARIAALVPVVVSSAEDGDEVANKILHDSVQELADSVVA
VVRRLKLCGEESAALETLEQVMAQALTLVNTDRSAVRAVCLAVSGVNHPSDQQRMLDWIRDLFP
GHVKFYVENDAVAALASGTMGKLHGCVLIAGTGSIAYGVTEDGKVARAAGAGPVLGDWGSGYGI
AAQALTAVVKAYDGRGPHTNLTREILRKLELSSPDELIGWTYADPSWARIAALVPVVVSSAEDG
DEVANKILHDSVQELADSVVAVVRRLKLCGEESAALETLEQVMAQALTLVNTDRSAVRAVCLAV
SGVNHPSDQQRMLDWIRDLFPGHVKFYVENDAVAALASGTMGKLHGCVLIAGTGSIAYGVTEDG
KVARAAGAGPVLGDWGSGYGIAAQALTAVVKAYDGRGPHTNLTREILRKLELSSPDELIGWTYA
DPSWARIAALVPVVVSSAEDGDEVANKILHDSVQELADSVVAVVRRLKLCGEESAALETLEQVM
AQALTLVNTDRSAVRAVCLAVSGVNHPSDQQRMLDWIRDLFPGHVKFYVENDAVAALASGTMGK
LHGCVLIAGTGSIAYGVTEDGKVARAAGAGPVLGDWGSGYGIAAQALTAVVKAYDGRGPHTNLT
REILRKLELSSPDELIGWTYADPSWARIAALVPVVVSSAEDGDEVANKILHDSVQELADSVVAV
VRRLKLCGE(+)
MTCSRVSSAALSSPHNLRRRTTATTLSANSCTESCNILFATSSPSSAEDTTTGTSAAIRAQDGS
AYVHPINSSGEESSSFLRISLVRLV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2558250-2559822(+) 2558252-2559231(-)
Potential amino acid sequence	MAQALTLVNTDRSAVRAVCLAVSGVNHPSDQQRMLDWIRDLFPGHVKFYVENDAVAALASGTMG KLHGCVLIAGTGSIAYGVTEDGKVARAAGAGPVLGDWGSGYGIAAQALTAVVKAYDGRGPHTNL TREILRKLELSSPDELIGWTYADPSWARIAALVPVVVSSAEDGDEVANKILHDSVQELADSVVA VVRRLKLCGEESAALETLEQVMAQALTLVNTDRSAVRAVCLAVSGVNHPSDQQRMLDWIRDLFP GHVKFYVENDAVAALASGTMGKLHGCVLIAGTGSIAYGVTEDGKVARAAGAGPVLGDWGSGYGI AAQALTAVVKAYDGRGPHTNLTREILRKLELSSPDELIGWTYADPSWARIAALVPVVVSSAEDG DEVANKILHDSVQELADSVVAVVRRLKLCGEESAALETLEQVMAQALTLVNTDRSAVRAVCLAV SGVNHPSDQQRMLDWIRDLFPGHVKFYVENDAVAALASGTMGKLHGCVLIAGTGSIAYGVTEDG KVARAAGAGPVLGDWGSGYGIAAQALTAVVKAYDGRGPHTNLTREILRKLELSSPDELIGWTYA DPSWARIAALVPVVVSSAEDGDEVANKILHDSVQELADSVVAVVRRLKLCGEESAALETLEQVM AQALTLVNTDRSAVRAVCLAVSGVNHPSDQQRMLDWIRDLFPGHVKFYVENDAVAALASGTMGK LHGCVLIAGTGSIAYGVTEDGKVARAAGAGPVLGDWGSGYGIAAQALTAVVKAYDGRGPHTNLT REILRKLELSSPDELIGWTYADPSWARIAALVPVVVSSAEDGDEVANKILHDSVQELADSVVAV VRRLKLCGE(+) MTCSRVSSAALSSPHNLRRRTTATTLSANSCTESCNILFATSSPSSAEDTTTGTSAAIRAQDGS AYVHPINSSGEESSSFLRISLVRLV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0133700_circ_g.2

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