Plant Circular RNA Database

Detail information of Os12g0498300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0498300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_011509
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 18910587-18912077  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0498300						
					
						Parent gene annotation
						
							WD40 repeat-like domain containing protein. (Os12t0498300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						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
						Os12t0498300-01:6

General Information
CircRNA Name	Os12g0498300_circ_g.1
ID in PlantcircBase	osa_circ_011509
Alias	NA
Organism	Oryza sativa
Position	chr12: 18910587-18912077 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0498300
Parent gene annotation	WD40 repeat-like domain containing protein. (Os12t0498300-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	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	Os12t0498300-01:6

			
						 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  
						
							TGGCATCAAGATTGTAGCACCAACAATATCTACATTACCAGTGATCAGGATCTGATTATCTCAT
ACTGCAAATCTGAGGCAGGGGTTGATGATGGTACAGgaagagttcgatacgtatgatcacaatg
cccacctatttgtgaagctgcagtttcttaaaaagagatccaaaataattgagattgttgcagc
aaaagata

									
								

					

						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: 964
Transcript exons: 18910587-18910734,18910825-18910975,18911169-18911294,18
911378-18911458,18911546-18911738,18911813-18912077
GAAGAGTTCGATACGTATGATCACAATGCCCACCTATTTGTGAAGCTGCAGTTTCTTAAAAAGA
GATCCAAAATAATTGAGATTGTTGCAGCAAAAGATATCATATTTGCTCTTGCGCACTCTGGGTT
GTGTGCTGCTTTTAGTCGAGTTACAAATAAGCGCATATCCTTCCTGAATTTAAGCCCAGATGAA
GTCATCCGGAGCTTGTTCTACAACAAGAACAATGATTCACTTATTACTGTGTCTGTTTATGCGT
CAGACCATTTTAGCACATTGAAGTGCAGAACAACCCCAATCGAGTATATAAGGAGGAATCAGTT
AGATGCTGGGTTTCCTCTTTTTGAAACAGAATCTCTGAAGTGGCCTGGCTTTGTGGAGTTTGAT
GATGTGAATGGAAAAGTACTCACCTACTCAGCTCAGGATGGTATCTATAAGGTCTTCGATTTGA
AGAATTACTCTTTTCTATATTCAATACCTGACACCAATGTGCAGGAGATAAAAATAAGTCCAGG
AATCATGCTCTTGATATATGAAAGAACACCATGTCATGTTCCTTTGAAGATATTGTCAATTGAA
GATGGAAGACCACTAAAATCCTTCACGCATTTGTTGCACCGTAATAAGAAAATTGATTTTATCG
AGCAATTCAATGAAAAGCTCCTTGTCAAGCAAGAAGATGAGAACCTTCAGATACTTGATGTACG
GAGTTCTGAGCTAATTGAAGTCAGTGTTACCAAGTTTATGACTCCATCAGCATTCATTTTTCTG
TACGAGAACAATCTCTTCTTGACATTCCGAAACAGGACGGTTGCTGTATGGAATTTTCGAGGAG
AGCTCGTGACCTCATTTGAAGACCATTTGCTTTGGCATCAAGATTGTAGCACCAACAATATCTA
CATTACCAGTGATCAGGATCTGATTATCTCATACTGCAAATCTGAGGCAGGGGTTGATGATGGT
ACAG
						
					

						Genomic sequence
						
							GAAGAGTTCGATACGTATGATCACAATGCCCACCTATTTGTGAAGCTGCAGTTTCTTAAAAAGA
GATCCAAAATAATTGAGATTGTTGCAGCAAAAGATATCATATTTGCTCTTGCGCACTCTGGGTT
GTGTGCTGCTTTTAGTCGAGGTAGAGATTCTTCATATGAAAAACGAGGTTTCTATTGGGAAAAG
TGTTATATATGTTCTCTTATCTTTGGCATTATATTTGTGTCTGCAGTTACAAATAAGCGCATAT
CCTTCCTGAATTTAAGCCCAGATGAAGTCATCCGGAGCTTGTTCTACAACAAGAACAATGATTC
ACTTATTACTGTGTCTGTTTATGCGTCAGACCATTTTAGCACATTGAAGTGCAGAACAACCCCA
ATCGAGTAAGATCCCATGCAGCAAACAATTTCTCCTGAAATCCTGAATTCTTCAAGTTCTGTGT
TTGACTTGCCAAGAAGCACTTCTTCGCTGTTGTATTCGATTTGATTATTCAACCGCTATTTGTG
AGTTGCACAACTTACGATGGTTCTCGGTCTCAACTAATATATGTTTCTCATATGAAAACATTAT
TTTCAGGTATATAAGGAGGAATCAGTTAGATGCTGGGTTTCCTCTTTTTGAAACAGAATCTCTG
AAGTGGCCTGGCTTTGTGGAGTTTGATGATGTGAATGGAAAAGTACTCACCTACTCAGCTCAGG
ATGGGTATGCTCTTGAACAGTTACATAAAATGGTGATTTCTTTTCATCTCACAGAAGTTGTTCA
AACTTTTACCCTTGTATTTGCAGTATCTATAAGGTCTTCGATTTGAAGAATTACTCTTTTCTAT
ATTCAATACCTGACACCAATGTGCAGGAGATAAAAATAAGGTATTTGGTTTTTTTCAGTGTTTA
TATTTATATATCTGACATAACTCCATGATGCTAAATATGACCTTTTAAAATTTCTCTCTTCAGT
CCAGGAATCATGCTCTTGATATATGAAAGAACACCATGTCATGTTCCTTTGAAGATATTGTCAA
TTGAAGATGGAAGACCACTAAAATCCTTCACGCATTTGTTGCACCGTAATAAGAAAATTGATTT
TATCGAGCAATTCAATGAAAAGCTCCTTGTCAAGCAAGAAGATGAGAACCTTCAGATACTTGAT
GTACGACGCAGTTCATGTAACCTTTTTTTTTTGTTTCTGTTGACATGCCTAACAATTTATTGGT
ACTTGTGAAGGTACGGAGTTCTGAGCTAATTGAAGTCAGTGTTACCAAGTTTATGACTCCATCA
GCATTCATTTTTCTGTACGAGAACAATCTCTTCTTGACATTCCGAAACAGGACGGTTGCTGTAT
GGAATTTTCGAGGAGAGCTCGTGACCTCATTTGAAGACCATTTGCTTTGGCATCAAGATTGTAG
CACCAACAATATCTACATTACCAGTGATCAGGATCTGATTATCTCATACTGCAAATCTGAGGCA
GGGGTTGATGATGGTACAG
						
					

			
		

Sequences
Splice junction sequence	TGGCATCAAGATTGTAGCACCAACAATATCTACATTACCAGTGATCAGGATCTGATTATCTCAT ACTGCAAATCTGAGGCAGGGGTTGATGATGGTACAGgaagagttcgatacgtatgatcacaatg cccacctatttgtgaagctgcagtttcttaaaaagagatccaaaataattgagattgttgcagc aaaagata
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: 964 Transcript exons: 18910587-18910734,18910825-18910975,18911169-18911294,18 911378-18911458,18911546-18911738,18911813-18912077 GAAGAGTTCGATACGTATGATCACAATGCCCACCTATTTGTGAAGCTGCAGTTTCTTAAAAAGA GATCCAAAATAATTGAGATTGTTGCAGCAAAAGATATCATATTTGCTCTTGCGCACTCTGGGTT GTGTGCTGCTTTTAGTCGAGTTACAAATAAGCGCATATCCTTCCTGAATTTAAGCCCAGATGAA GTCATCCGGAGCTTGTTCTACAACAAGAACAATGATTCACTTATTACTGTGTCTGTTTATGCGT CAGACCATTTTAGCACATTGAAGTGCAGAACAACCCCAATCGAGTATATAAGGAGGAATCAGTT AGATGCTGGGTTTCCTCTTTTTGAAACAGAATCTCTGAAGTGGCCTGGCTTTGTGGAGTTTGAT GATGTGAATGGAAAAGTACTCACCTACTCAGCTCAGGATGGTATCTATAAGGTCTTCGATTTGA AGAATTACTCTTTTCTATATTCAATACCTGACACCAATGTGCAGGAGATAAAAATAAGTCCAGG AATCATGCTCTTGATATATGAAAGAACACCATGTCATGTTCCTTTGAAGATATTGTCAATTGAA GATGGAAGACCACTAAAATCCTTCACGCATTTGTTGCACCGTAATAAGAAAATTGATTTTATCG AGCAATTCAATGAAAAGCTCCTTGTCAAGCAAGAAGATGAGAACCTTCAGATACTTGATGTACG GAGTTCTGAGCTAATTGAAGTCAGTGTTACCAAGTTTATGACTCCATCAGCATTCATTTTTCTG TACGAGAACAATCTCTTCTTGACATTCCGAAACAGGACGGTTGCTGTATGGAATTTTCGAGGAG AGCTCGTGACCTCATTTGAAGACCATTTGCTTTGGCATCAAGATTGTAGCACCAACAATATCTA CATTACCAGTGATCAGGATCTGATTATCTCATACTGCAAATCTGAGGCAGGGGTTGATGATGGT ACAG
Genomic sequence	GAAGAGTTCGATACGTATGATCACAATGCCCACCTATTTGTGAAGCTGCAGTTTCTTAAAAAGA GATCCAAAATAATTGAGATTGTTGCAGCAAAAGATATCATATTTGCTCTTGCGCACTCTGGGTT GTGTGCTGCTTTTAGTCGAGGTAGAGATTCTTCATATGAAAAACGAGGTTTCTATTGGGAAAAG TGTTATATATGTTCTCTTATCTTTGGCATTATATTTGTGTCTGCAGTTACAAATAAGCGCATAT CCTTCCTGAATTTAAGCCCAGATGAAGTCATCCGGAGCTTGTTCTACAACAAGAACAATGATTC ACTTATTACTGTGTCTGTTTATGCGTCAGACCATTTTAGCACATTGAAGTGCAGAACAACCCCA ATCGAGTAAGATCCCATGCAGCAAACAATTTCTCCTGAAATCCTGAATTCTTCAAGTTCTGTGT TTGACTTGCCAAGAAGCACTTCTTCGCTGTTGTATTCGATTTGATTATTCAACCGCTATTTGTG AGTTGCACAACTTACGATGGTTCTCGGTCTCAACTAATATATGTTTCTCATATGAAAACATTAT TTTCAGGTATATAAGGAGGAATCAGTTAGATGCTGGGTTTCCTCTTTTTGAAACAGAATCTCTG AAGTGGCCTGGCTTTGTGGAGTTTGATGATGTGAATGGAAAAGTACTCACCTACTCAGCTCAGG ATGGGTATGCTCTTGAACAGTTACATAAAATGGTGATTTCTTTTCATCTCACAGAAGTTGTTCA AACTTTTACCCTTGTATTTGCAGTATCTATAAGGTCTTCGATTTGAAGAATTACTCTTTTCTAT ATTCAATACCTGACACCAATGTGCAGGAGATAAAAATAAGGTATTTGGTTTTTTTCAGTGTTTA TATTTATATATCTGACATAACTCCATGATGCTAAATATGACCTTTTAAAATTTCTCTCTTCAGT CCAGGAATCATGCTCTTGATATATGAAAGAACACCATGTCATGTTCCTTTGAAGATATTGTCAA TTGAAGATGGAAGACCACTAAAATCCTTCACGCATTTGTTGCACCGTAATAAGAAAATTGATTT TATCGAGCAATTCAATGAAAAGCTCCTTGTCAAGCAAGAAGATGAGAACCTTCAGATACTTGAT GTACGACGCAGTTCATGTAACCTTTTTTTTTTGTTTCTGTTGACATGCCTAACAATTTATTGGT ACTTGTGAAGGTACGGAGTTCTGAGCTAATTGAAGTCAGTGTTACCAAGTTTATGACTCCATCA GCATTCATTTTTCTGTACGAGAACAATCTCTTCTTGACATTCCGAAACAGGACGGTTGCTGTAT GGAATTTTCGAGGAGAGCTCGTGACCTCATTTGAAGACCATTTGCTTTGGCATCAAGATTGTAG CACCAACAATATCTACATTACCAGTGATCAGGATCTGATTATCTCATACTGCAAATCTGAGGCA GGGGTTGATGATGGTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.430038945

Conservation Information
Conserved circRNAs	NA
PMCS	0.430038945

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18911557-18910603(+)
18912067-18910603(+)
						
						Potential amino acid sequence
						
							MLLIYERTPCHVPLKILSIEDGRPLKSFTHLLHRNKKIDFIEQFNEKLLVKQEDENLQILDVRS
SELIEVSVTKFMTPSAFIFLYENNLFLTFRNRTVAVWNFRGELVTSFEDHLLWHQDCSTNNIYI
TSDQDLIISYCKSEAGVDDGTGRVRYV*(+)
MMVQEEFDTYDHNAHLFVKLQFLKKRSKIIEIVAAKDIIFALAHSGLCAAFSRVTNKRISFLNL
SPDEVIRSLFYNKNNDSLITVSVYASDHFSTLKCRTTPIEYIRRNQLDAGFPLFETESLKWPGF
VEFDDVNGKVLTYSAQDGIYKVFDLKNYSFLYSIPDTNVQEIKISPGIMLLIYERTPCHVPLKI
LSIEDGRPLKSFTHLLHRNKKIDFIEQFNEKLLVKQEDENLQILDVRSSELIEVSVTKFMTPSA
FIFLYENNLFLTFRNRTVAVWNFRGELVTSFEDHLLWHQDCSTNNIYITSDQDLIISYCKSEAG
VDDGTGRVRYV*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18911557-18910603(+) 18912067-18910603(+)
Potential amino acid sequence	MLLIYERTPCHVPLKILSIEDGRPLKSFTHLLHRNKKIDFIEQFNEKLLVKQEDENLQILDVRS SELIEVSVTKFMTPSAFIFLYENNLFLTFRNRTVAVWNFRGELVTSFEDHLLWHQDCSTNNIYI TSDQDLIISYCKSEAGVDDGTGRVRYV(+) MMVQEEFDTYDHNAHLFVKLQFLKKRSKIIEIVAAKDIIFALAHSGLCAAFSRVTNKRISFLNL SPDEVIRSLFYNKNNDSLITVSVYASDHFSTLKCRTTPIEYIRRNQLDAGFPLFETESLKWPGF VEFDDVNGKVLTYSAQDGIYKVFDLKNYSFLYSIPDTNVQEIKISPGIMLLIYERTPCHVPLKI LSIEDGRPLKSFTHLLHRNKKIDFIEQFNEKLLVKQEDENLQILDVRSSELIEVSVTKFMTPSA FIFLYENNLFLTFRNRTVAVWNFRGELVTSFEDHLLWHQDCSTNNIYITSDQDLIISYCKSEAG VDDGTGRVRYV(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0498300_circ_g.1

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