Plant Circular RNA Database

Detail information of Os01g0527400_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0527400_circ_g.2
					
						ID in PlantcircBase
						osa_circ_001982
					
						Alias
						Os_ciR1305
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 18926824-18928266  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0527400						
					
						Parent gene annotation
						
							Transcription elongation factor S-II, central region domain cont
aining protein. (Os01t0527400-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0527400_circ_g.1 Os01g0527400_circ_g.3 Os01g0527400_circ_g.4 						
					
						Support reads
						15/4
					
						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
						Os01t0527400-01:4

General Information
CircRNA Name	Os01g0527400_circ_g.2
ID in PlantcircBase	osa_circ_001982
Alias	Os_ciR1305
Organism	Oryza sativa
Position	chr1: 18926824-18928266 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0527400
Parent gene annotation	Transcription elongation factor S-II, central region domain cont aining protein. (Os01t0527400-01)
Parent gene strand	+
Alternative splicing	Os01g0527400_circ_g.1 Os01g0527400_circ_g.3 Os01g0527400_circ_g.4
Support reads	15/4
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	Os01t0527400-01:4

			
						 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  
						
							TTGTTTTATCTAGATGACTGATGCACGATGTGTAAGATGTGCAGAAAAGGAAGTAGGTGTATCT
GATATTATTCATGCTGGTCATGGAGATCGCTATCAGgacaatgaaaaatcttattcacctgatg
tgattgtttcaataatggcctccttagaaagatctacttatgaagctcttggttctgacttcca
gaagtata

									
								

					

						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: 158
Transcript exons: 18926824-18926959,18928245-18928266
GACAATGAAAAATCTTATTCACCTGATGTGATTGTTTCAATAATGGCCTCCTTAGAAAGATCTA
CTTATGAAGCTCTTGGTTCTGACTTCCAGAAGTATAACCAGAAATTGAGACAGTTACTGTTCAA
CATCAAGGTGGTCATGGAGATCGCTATCAG
Transcript length: 169
Transcript exons: 18926824-18926915,18928190-18928266
GACAATGAAAAATCTTATTCACCTGATGTGATTGTTTCAATAATGGCCTCCTTAGAAAGATCTA
CTTATGAAGCTCTTGGTTCTGACTTCCACACGATGTGTAAGATGTGCAGAAAAGGAAGTAGGTG
TATCTGATATTATTCATGCTGGTCATGGAGATCGCTATCAG
Transcript length: 363
Transcript exons: 18926824-18926958,18927281-18927364,18927985-18928041,18
928180-18928266
GACAATGAAAAATCTTATTCACCTGATGTGATTGTTTCAATAATGGCCTCCTTAGAAAGATCTA
CTTATGAAGCTCTTGGTTCTGACTTCCAGAAGTATAACCAGAAATTGAGACAGTTACTGTTCAA
CATCAAGAATAGCCCTGTACTACGGAACCGGCTGATGAACAAGGAGCTTGATCCTCCAGTCCTG
TTAACAATGTCTCCTGACGAACTAAAGGTTGGCTTGACAGCAGCAGAGAGAACATCTGAACCTG
AAGAATCAAGGAAGTTGCAGATGACTGATGCACGATGTGTAAGATGTGCAGAAAAGGAAGTAGG
TGTATCTGATATTATTCATGCTGGTCATGGAGATCGCTATCAG
						
					

						Genomic sequence
						
							GACAATGAAAAATCTTATTCACCTGATGTGATTGTTTCAATAATGGCCTCCTTAGAAAGATCTA
CTTATGAAGCTCTTGGTTCTGACTTCCAGAAGTATAACCAGAAATTGAGACAGTTACTGTTCAA
CATCAAGGTATGTCCTGCTGACAACTGCACAGTTCACTTATTAGTTTATATCTAGTCCTAGAAA
TCACCAGTTTCACAAGAATAATACTAGGTAATTTTCTTATTGTTGTAACTCACATCACCATTAA
ACTTTCTCCTCCAGACTCTTAAGCTCAAATCTTTATTTAGTCTGAAATGTTGTTTTCTACTTAT
CATAATAGCAACCACTAAAATTTTGTGTCATTGTACTCTTAACGACATAAAGGTTTTTAACTCA
CCCAACCTTTACATCTCTGTGAATTATAATTTGATTGATAACCTAACATATTGCTGTTGTTTTT
CATTTGCAGAATAGCCCTGTACTACGGAACCGGCTGATGAACAAGGAGCTTGATCCTCCAGTCC
TGTTAACAATGTCTCCTGACGAACTAAAGGTGTAACCATCTTTCAAGAATTTTGCATTCTTTCA
ATTCAAAATGTACTTTACAGTTCGTTTCTTGTATGAAGCTGCATCAAAACAAAAACCAAACTAG
TAACCTAAAACCAAAAAAAGGGGGTAATTTGGTTTGGTCTTCGGATTATTTTTACGCACTCCCC
GTGGCTATGATTGTATCCATGGTTCTAGTGCCTTAGCCTAGTTGGTAGGAGTATAGAACATATT
GGTTATAACTGTAGTTAATACAATGCATTTCTAGTTTTCTACACTAAATTCAAATAGGAGGCAT
GTCTGGTGCAAAACCAATTTGGTTCAAGCACCAATAAATGTTGAGCATTGCTTTTTTAAGAGAG
TATAAAATGTATTTTTGAACATAATGTATATTAGAATGGAGGACGAAAATGTAATTGACTAAAG
TTTGGTTTTCCGGAAGATTCTCTTTTAGTGGGTTGCTCACTTCAACCTGATATGCCTCCTTCTG
TAACAGCCACCTGTTATTTCAATGAACTTCTTTAATATATTCTCTTTGCTATAATTATGATGTG
TTCCTCATTTAACTTAAATATCTTTCTGTTCCATTCTTATCTAAATTCTAATTGTTGTTGCTGA
ACATTTTAGGTTGGCTTGACAGCAGCAGAGAGAACATCTGAACCTGAAGAATCAAGGAAGTTGC
AGGTACTGTACATCATTCGTATTATATTCAGTAATTGTAGTTACGCAAGGGAAGAGTGAAGAAT
GTTCATCATGATAACTGAGTTTTCACATAGAGTTATTACTTTACGGTTCTCTGAGTTTGGTGTT
TGTTTTATCTAGATGACTGATGCACGATGTGTAAGATGTGCAGAAAAGGAAGTAGGTGTATCTG
ATATTATTCATGCTGGTCATGGAGATCGCTATCAG
						
					

			
		

Sequences
Splice junction sequence	TTGTTTTATCTAGATGACTGATGCACGATGTGTAAGATGTGCAGAAAAGGAAGTAGGTGTATCT GATATTATTCATGCTGGTCATGGAGATCGCTATCAGgacaatgaaaaatcttattcacctgatg tgattgtttcaataatggcctccttagaaagatctacttatgaagctcttggttctgacttcca gaagtata
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: 158 Transcript exons: 18926824-18926959,18928245-18928266 GACAATGAAAAATCTTATTCACCTGATGTGATTGTTTCAATAATGGCCTCCTTAGAAAGATCTA CTTATGAAGCTCTTGGTTCTGACTTCCAGAAGTATAACCAGAAATTGAGACAGTTACTGTTCAA CATCAAGGTGGTCATGGAGATCGCTATCAG Transcript length: 169 Transcript exons: 18926824-18926915,18928190-18928266 GACAATGAAAAATCTTATTCACCTGATGTGATTGTTTCAATAATGGCCTCCTTAGAAAGATCTA CTTATGAAGCTCTTGGTTCTGACTTCCACACGATGTGTAAGATGTGCAGAAAAGGAAGTAGGTG TATCTGATATTATTCATGCTGGTCATGGAGATCGCTATCAG Transcript length: 363 Transcript exons: 18926824-18926958,18927281-18927364,18927985-18928041,18 928180-18928266 GACAATGAAAAATCTTATTCACCTGATGTGATTGTTTCAATAATGGCCTCCTTAGAAAGATCTA CTTATGAAGCTCTTGGTTCTGACTTCCAGAAGTATAACCAGAAATTGAGACAGTTACTGTTCAA CATCAAGAATAGCCCTGTACTACGGAACCGGCTGATGAACAAGGAGCTTGATCCTCCAGTCCTG TTAACAATGTCTCCTGACGAACTAAAGGTTGGCTTGACAGCAGCAGAGAGAACATCTGAACCTG AAGAATCAAGGAAGTTGCAGATGACTGATGCACGATGTGTAAGATGTGCAGAAAAGGAAGTAGG TGTATCTGATATTATTCATGCTGGTCATGGAGATCGCTATCAG
Genomic sequence	GACAATGAAAAATCTTATTCACCTGATGTGATTGTTTCAATAATGGCCTCCTTAGAAAGATCTA CTTATGAAGCTCTTGGTTCTGACTTCCAGAAGTATAACCAGAAATTGAGACAGTTACTGTTCAA CATCAAGGTATGTCCTGCTGACAACTGCACAGTTCACTTATTAGTTTATATCTAGTCCTAGAAA TCACCAGTTTCACAAGAATAATACTAGGTAATTTTCTTATTGTTGTAACTCACATCACCATTAA ACTTTCTCCTCCAGACTCTTAAGCTCAAATCTTTATTTAGTCTGAAATGTTGTTTTCTACTTAT CATAATAGCAACCACTAAAATTTTGTGTCATTGTACTCTTAACGACATAAAGGTTTTTAACTCA CCCAACCTTTACATCTCTGTGAATTATAATTTGATTGATAACCTAACATATTGCTGTTGTTTTT CATTTGCAGAATAGCCCTGTACTACGGAACCGGCTGATGAACAAGGAGCTTGATCCTCCAGTCC TGTTAACAATGTCTCCTGACGAACTAAAGGTGTAACCATCTTTCAAGAATTTTGCATTCTTTCA ATTCAAAATGTACTTTACAGTTCGTTTCTTGTATGAAGCTGCATCAAAACAAAAACCAAACTAG TAACCTAAAACCAAAAAAAGGGGGTAATTTGGTTTGGTCTTCGGATTATTTTTACGCACTCCCC GTGGCTATGATTGTATCCATGGTTCTAGTGCCTTAGCCTAGTTGGTAGGAGTATAGAACATATT GGTTATAACTGTAGTTAATACAATGCATTTCTAGTTTTCTACACTAAATTCAAATAGGAGGCAT GTCTGGTGCAAAACCAATTTGGTTCAAGCACCAATAAATGTTGAGCATTGCTTTTTTAAGAGAG TATAAAATGTATTTTTGAACATAATGTATATTAGAATGGAGGACGAAAATGTAATTGACTAAAG TTTGGTTTTCCGGAAGATTCTCTTTTAGTGGGTTGCTCACTTCAACCTGATATGCCTCCTTCTG TAACAGCCACCTGTTATTTCAATGAACTTCTTTAATATATTCTCTTTGCTATAATTATGATGTG TTCCTCATTTAACTTAAATATCTTTCTGTTCCATTCTTATCTAAATTCTAATTGTTGTTGCTGA ACATTTTAGGTTGGCTTGACAGCAGCAGAGAGAACATCTGAACCTGAAGAATCAAGGAAGTTGC AGGTACTGTACATCATTCGTATTATATTCAGTAATTGTAGTTACGCAAGGGAAGAGTGAAGAAT GTTCATCATGATAACTGAGTTTTCACATAGAGTTATTACTTTACGGTTCTCTGAGTTTGGTGTT TGTTTTATCTAGATGACTGATGCACGATGTGTAAGATGTGCAGAAAAGGAAGTAGGTGTATCTG ATATTATTCATGCTGGTCATGGAGATCGCTATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002113* osi_circ_009706 						
					
						PMCS
						0.332654551

Conservation Information
Conserved circRNAs	osi_circ_002113* osi_circ_009706
PMCS	0.332654551

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18926867-18928263(+)
						
						Potential amino acid sequence
						
							MASLERSTYEALGSDFQKYNQKLRQLLFNIKNSPVLRNRLMNKELDPPVLLTMSPDELKVGLTA
AERTSEPEESRKLQMTDARCVRCAEKEVGVSDIIHAGHGDRYQDNEKSYSPDVIVSIMASLERS
TYEALGSDFQKYNQKLRQLLFNIKNSPVLRNRLMNKELDPPVLLTMSPDELKVGLTAAERTSEP
EESRKLQMTDARCVRCAEKEVGVSDIIHAGHGDRYQDNEKSYSPDVIVSIMASLERSTYEALGS
DFQKYNQKLRQLLFNIKNSPVLRNRLMNKELDPPVLLTMSPDELKVGLTAAERTSEPEESRKLQ
MTDARCVRCAEKEVGVSDIIHAGHGDRYQDNEKSYSPDVIVSIMASLERSTYEALGSDFQKYNQ
KLRQLLFNIKNSPVLRNRLMNKELDPPVLLTMSPDELKVGLTAAERTSEPEESRKLQMTDARCV
RCAEKEVGVSDIIHAGHGDRYQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18926867-18928263(+)
Potential amino acid sequence	MASLERSTYEALGSDFQKYNQKLRQLLFNIKNSPVLRNRLMNKELDPPVLLTMSPDELKVGLTA AERTSEPEESRKLQMTDARCVRCAEKEVGVSDIIHAGHGDRYQDNEKSYSPDVIVSIMASLERS TYEALGSDFQKYNQKLRQLLFNIKNSPVLRNRLMNKELDPPVLLTMSPDELKVGLTAAERTSEP EESRKLQMTDARCVRCAEKEVGVSDIIHAGHGDRYQDNEKSYSPDVIVSIMASLERSTYEALGS DFQKYNQKLRQLLFNIKNSPVLRNRLMNKELDPPVLLTMSPDELKVGLTAAERTSEPEESRKLQ MTDARCVRCAEKEVGVSDIIHAGHGDRYQDNEKSYSPDVIVSIMASLERSTYEALGSDFQKYNQ KLRQLLFNIKNSPVLRNRLMNKELDPPVLLTMSPDELKVGLTAAERTSEPEESRKLQMTDARCV RCAEKEVGVSDIIHAGHGDRYQ(+)
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 Os01g0527400_circ_g.2

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