Plant Circular RNA Database

Detail information of Os01g0663800_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os01g0663800_circ_g.4
					
						ID in PlantcircBase
						osa_circ_003117
					
						Alias
						Os01circ19456
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 27107339-27108624  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os01g0663800						
					
						Parent gene annotation
						
							Protein of unknown function DUF1296 family protein. (Os01t066380
0-01);Hypothetical conserved gene. (Os01t0663800-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0663800_circ_g.5 Os01g0663800_circ_g.6 Os01g0663800_circ_g.7 						
					
						Support reads
						2/1
					
						Tissues
						leaf/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  
						
							CT-AC							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
						Os01t0663800-01:4

General Information
CircRNA Name	Os01g0663800_circ_g.4
ID in PlantcircBase	osa_circ_003117
Alias	Os01circ19456
Organism	Oryza sativa
Position	chr1: 27107339-27108624 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os01g0663800
Parent gene annotation	Protein of unknown function DUF1296 family protein. (Os01t066380 0-01);Hypothetical conserved gene. (Os01t0663800-02)
Parent gene strand	-
Alternative splicing	Os01g0663800_circ_g.5 Os01g0663800_circ_g.6 Os01g0663800_circ_g.7
Support reads	2/1
Tissues	leaf/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	CT-AC 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	Os01t0663800-01:4

			
						 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  
						
							AGGCCAACTGAAACTACATTAAACTTGTCAAACTGGAAGTAAAAACTAGTCCTGACCTCCTTTT
TCTTGTCGCGCTTGCTCTTTACCTCTTGAAACGTATcttcatcatcatcatcatcgttatcatc
atagtgattccctcgagactggtatgcacttgagttgtgcaataaaccattattaaaatggttg
ttgccatc

									
								

					

						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: 891
Transcript exons: 27107339-27107982,27108076-27108154,27108231-27108354,27
108581-27108624
CTTCATCATCATCATCATCGTTATCATCATAGTGATTCCCTCGAGACTGGTATGCACTTGAGTT
GTGCAATAAACCATTATTAAAATGGTTGTTGCCATCAATAATTTCCAGGTGTCTATCAGAAGGT
ATAGCTGAGCTGCTCTCTCCTACATGAGAATTATTATACGAGTTCGCATCGTCAGCAACCAACG
TTGATGATTCCAAAGATGCCACAGGTAAAGATATGTCACGGGATGTCTCAGGGACTGTTAATTG
ACTCCCTGGTAGTGTCCCATCCTGTTGAAACCAATCACTCTCTTGTGTCTCATGGTTATCAGCA
GAAGCATGACTGGAATTCTTAACTTGAGGAATAGGATCTTGAAGAACAGGAAATCTTTGCTCAA
ATGTTGTTGGTGGGGCAGTGCTTGCAGATTTGTTTGGGTTCTGGTTTACCACACTTGAGAAAGA
TGAGGTTTGGCCAGAATAGGCGTTGTCTGTTGAAGCCACAGGCTTGCTAGAAGACCTCACTTGA
GGTCTGCCCATTTTCACAATATCAGCCATTGACATCTGACCTGGCACCCCACACCAACTGTTCT
GAAATCCCGACGATGGTTGCATTGCTCCAAAAGATCCATCGTGAAGAACATCCTTGTTTACAGT
AGAACTTGGAACAGTTTGCTTCTGTGTAGAATTAGTTGCTAGCACGCCAGGTCCCAATATTGAT
GACCTTGAGGACATGTTATCAGCACCACTTGATCCAGACTGAACTGAACTGCTTCGTCCACTAC
GGTCTGCACCAGCTCTAGTGGCTCGACTATTGGAGTTAACTGCTCCTCTAGATTTTGGCTCAAG
CGCCTCCTTATTAACCTCCTTTTTCTTGTCGCGCTTGCTCTTTACCTCTTGAAACGTAT
						
					

						Genomic sequence
						
							CTTCATCATCATCATCATCGTTATCATCATAGTGATTCCCTCGAGACTGGTATGCACTTGAGTT
GTGCAATAAACCATTATTAAAATGGTTGTTGCCATCAATAATTTCCAGGTGTCTATCAGAAGGT
ATAGCTGAGCTGCTCTCTCCTACATGAGAATTATTATACGAGTTCGCATCGTCAGCAACCAACG
TTGATGATTCCAAAGATGCCACAGGTAAAGATATGTCACGGGATGTCTCAGGGACTGTTAATTG
ACTCCCTGGTAGTGTCCCATCCTGTTGAAACCAATCACTCTCTTGTGTCTCATGGTTATCAGCA
GAAGCATGACTGGAATTCTTAACTTGAGGAATAGGATCTTGAAGAACAGGAAATCTTTGCTCAA
ATGTTGTTGGTGGGGCAGTGCTTGCAGATTTGTTTGGGTTCTGGTTTACCACACTTGAGAAAGA
TGAGGTTTGGCCAGAATAGGCGTTGTCTGTTGAAGCCACAGGCTTGCTAGAAGACCTCACTTGA
GGTCTGCCCATTTTCACAATATCAGCCATTGACATCTGACCTGGCACCCCACACCAACTGTTCT
GAAATCCCGACGATGGTTGCATTGCTCCAAAAGATCCATCGTGAAGAACATCCTTGTTTACAGT
AGAACTAAAACAGAAAAGAAAGCAAATTAGTTAACCATACTGTAAATAGAAACGAATGCCTCTA
ACATAAATTTCTATATGTTCAAATTTCCATTACCTTGGAACAGTTTGCTTCTGTGTAGAATTAG
TTGCTAGCACGCCAGGTCCCAATATTGATGACCTTGAGGACATGTTATCTGGTTGGATTGAAAA
TTAGAAATGGATTATAGCCAAACATAGAAACTAATGGATAGGGACAGGTTTTAAACTTACCAGC
ACCACTTGATCCAGACTGAACTGAACTGCTTCGTCCACTACGGTCTGCACCAGCTCTAGTGGCT
CGACTATTGGAGTTAACTGCTCCTCTAGATTTTGGCTCAAGCGCCTCCTTATTAACCTGTGTGA
TATTTCAGCACATACTGACGTGAGCTCTAAAAGCGCACAAAATAAATAATCAAGAGATAATATG
GACATGTAAACTTTTAACACTAAAACGTAACCAGTCAACAAATTAAAAAAATGATATATCGACC
AATTATCACTGGTTAGCTACACAAGTTCAATACCAGGCCAACTGAAACTACATTAAACTTGTCA
AACTGGAAGTAAAAACTAGTCCTGACCTCCTTTTTCTTGTCGCGCTTGCTCTTTACCTCTTGAA
ACGTAT
						
					

			
		

Sequences
Splice junction sequence	AGGCCAACTGAAACTACATTAAACTTGTCAAACTGGAAGTAAAAACTAGTCCTGACCTCCTTTT TCTTGTCGCGCTTGCTCTTTACCTCTTGAAACGTATcttcatcatcatcatcatcgttatcatc atagtgattccctcgagactggtatgcacttgagttgtgcaataaaccattattaaaatggttg ttgccatc
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: 891 Transcript exons: 27107339-27107982,27108076-27108154,27108231-27108354,27 108581-27108624 CTTCATCATCATCATCATCGTTATCATCATAGTGATTCCCTCGAGACTGGTATGCACTTGAGTT GTGCAATAAACCATTATTAAAATGGTTGTTGCCATCAATAATTTCCAGGTGTCTATCAGAAGGT ATAGCTGAGCTGCTCTCTCCTACATGAGAATTATTATACGAGTTCGCATCGTCAGCAACCAACG TTGATGATTCCAAAGATGCCACAGGTAAAGATATGTCACGGGATGTCTCAGGGACTGTTAATTG ACTCCCTGGTAGTGTCCCATCCTGTTGAAACCAATCACTCTCTTGTGTCTCATGGTTATCAGCA GAAGCATGACTGGAATTCTTAACTTGAGGAATAGGATCTTGAAGAACAGGAAATCTTTGCTCAA ATGTTGTTGGTGGGGCAGTGCTTGCAGATTTGTTTGGGTTCTGGTTTACCACACTTGAGAAAGA TGAGGTTTGGCCAGAATAGGCGTTGTCTGTTGAAGCCACAGGCTTGCTAGAAGACCTCACTTGA GGTCTGCCCATTTTCACAATATCAGCCATTGACATCTGACCTGGCACCCCACACCAACTGTTCT GAAATCCCGACGATGGTTGCATTGCTCCAAAAGATCCATCGTGAAGAACATCCTTGTTTACAGT AGAACTTGGAACAGTTTGCTTCTGTGTAGAATTAGTTGCTAGCACGCCAGGTCCCAATATTGAT GACCTTGAGGACATGTTATCAGCACCACTTGATCCAGACTGAACTGAACTGCTTCGTCCACTAC GGTCTGCACCAGCTCTAGTGGCTCGACTATTGGAGTTAACTGCTCCTCTAGATTTTGGCTCAAG CGCCTCCTTATTAACCTCCTTTTTCTTGTCGCGCTTGCTCTTTACCTCTTGAAACGTAT
Genomic sequence	CTTCATCATCATCATCATCGTTATCATCATAGTGATTCCCTCGAGACTGGTATGCACTTGAGTT GTGCAATAAACCATTATTAAAATGGTTGTTGCCATCAATAATTTCCAGGTGTCTATCAGAAGGT ATAGCTGAGCTGCTCTCTCCTACATGAGAATTATTATACGAGTTCGCATCGTCAGCAACCAACG TTGATGATTCCAAAGATGCCACAGGTAAAGATATGTCACGGGATGTCTCAGGGACTGTTAATTG ACTCCCTGGTAGTGTCCCATCCTGTTGAAACCAATCACTCTCTTGTGTCTCATGGTTATCAGCA GAAGCATGACTGGAATTCTTAACTTGAGGAATAGGATCTTGAAGAACAGGAAATCTTTGCTCAA ATGTTGTTGGTGGGGCAGTGCTTGCAGATTTGTTTGGGTTCTGGTTTACCACACTTGAGAAAGA TGAGGTTTGGCCAGAATAGGCGTTGTCTGTTGAAGCCACAGGCTTGCTAGAAGACCTCACTTGA GGTCTGCCCATTTTCACAATATCAGCCATTGACATCTGACCTGGCACCCCACACCAACTGTTCT GAAATCCCGACGATGGTTGCATTGCTCCAAAAGATCCATCGTGAAGAACATCCTTGTTTACAGT AGAACTAAAACAGAAAAGAAAGCAAATTAGTTAACCATACTGTAAATAGAAACGAATGCCTCTA ACATAAATTTCTATATGTTCAAATTTCCATTACCTTGGAACAGTTTGCTTCTGTGTAGAATTAG TTGCTAGCACGCCAGGTCCCAATATTGATGACCTTGAGGACATGTTATCTGGTTGGATTGAAAA TTAGAAATGGATTATAGCCAAACATAGAAACTAATGGATAGGGACAGGTTTTAAACTTACCAGC ACCACTTGATCCAGACTGAACTGAACTGCTTCGTCCACTACGGTCTGCACCAGCTCTAGTGGCT CGACTATTGGAGTTAACTGCTCCTCTAGATTTTGGCTCAAGCGCCTCCTTATTAACCTGTGTGA TATTTCAGCACATACTGACGTGAGCTCTAAAAGCGCACAAAATAAATAATCAAGAGATAATATG GACATGTAAACTTTTAACACTAAAACGTAACCAGTCAACAAATTAAAAAAATGATATATCGACC AATTATCACTGGTTAGCTACACAAGTTCAATACCAGGCCAACTGAAACTACATTAAACTTGTCA AACTGGAAGTAAAAACTAGTCCTGACCTCCTTTTTCTTGTCGCGCTTGCTCTTTACCTCTTGAA ACGTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.284528687

Conservation Information
Conserved circRNAs	NA
PMCS	0.284528687

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27107439-27108609(-)
27108151-27107341(-)
						
						Potential amino acid sequence
						
							MATTILIMVYCTTQVHTSLEGITMMITMMMMMKIRFKR*(-)
MSSRSSILGPGVLATNSTQKQTVPSSTVNKDVLHDGSFGAMQPSSGFQNSWCGVPGQMSMADIV
KMGRPQVRSSSKPVASTDNAYSGQTSSFSSVVNQNPNKSASTAPPTTFEQRFPVLQDPIPQVKN
SSHASADNHETQESDWFQQDGTLPGSQLTVPETSRDISLPVASLESSTLVADDANSYNNSHVGE
SSSAIPSDRHLEIIDGNNHFNNGLLHNSSAYQSRGNHYDDNDDDDDEDTFQEVKSKRDKKKEVN
KEALEPKSRGAVNSNSRATRAGADRSGRSSSVQSGSSGADNMSSRSSILGPGVLATNSTQKQTV
PSSTVNKDVLHDGSFGAMQPSSGFQNSWCGVPGQMSMADIVKMGRPQVRSSSKPVASTDNAYSG
QTSSFSSVVNQNPNKSASTAPPTTFEQRFPVLQDPIPQVKNSSHASADNHETQESDWFQQDGTL
PGSQLTVPETSRDISLPVASLESSTLVADDANSYNNSHVGESSSAIPSDRHLEIIDGNNHFNNG
LLHNSSAYQSRGNHYDDNDDDDDEDTFQEVKSKRDKKKEVNKEALEPKSRGAVNSNSRATRAGA
DRSGRSSSVQSGSSGADNMSSRSSILGPGVLATNSTQKQTVPSSTVNKDVLHDGSFGAMQPSSG
FQNSWCGVPGQMSMADIVKMGRPQVRSSSKPVASTDNAYSGQTSSFSSVVNQNPNKSASTAPPT
TFEQRFPVLQDPIPQVKNSSHASADNHETQESDWFQQDGTLPGSQLTVPETSRDISLPVASLES
STLVADDANSYNNSHVGESSSAIPSDRHLEIIDGNNHFNNGLLHNSSAYQSRGNHYDDNDDDDD
EDTFQEVKSKRDKKKEVNKEALEPKSRGAVNSNSRATRAGADRSGRSSSVQSGSSGADNMSSRS
SILGPGVLATNSTQKQTVPSSTVNKDVLHDGSFGAMQPSSGFQNSWCGVPGQMSMADIVKMGRP
QVRSSSKPVASTDNAYSGQTSSFSSVVNQNPNKSASTAPPTTFEQRFPVLQDPIPQVKNSSHAS
ADNHETQESDWFQQDGTLPGSQLTVPETSRDISLPVASLESSTLVADDANSYNNSHVGESSSAI
PSDRHLEIIDGNNHFNNGLLHNSSAYQSRGNHYDDNDDDDDE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27107439-27108609(-) 27108151-27107341(-)
Potential amino acid sequence	MATTILIMVYCTTQVHTSLEGITMMITMMMMMKIRFKR*(-) MSSRSSILGPGVLATNSTQKQTVPSSTVNKDVLHDGSFGAMQPSSGFQNSWCGVPGQMSMADIV KMGRPQVRSSSKPVASTDNAYSGQTSSFSSVVNQNPNKSASTAPPTTFEQRFPVLQDPIPQVKN SSHASADNHETQESDWFQQDGTLPGSQLTVPETSRDISLPVASLESSTLVADDANSYNNSHVGE SSSAIPSDRHLEIIDGNNHFNNGLLHNSSAYQSRGNHYDDNDDDDDEDTFQEVKSKRDKKKEVN KEALEPKSRGAVNSNSRATRAGADRSGRSSSVQSGSSGADNMSSRSSILGPGVLATNSTQKQTV PSSTVNKDVLHDGSFGAMQPSSGFQNSWCGVPGQMSMADIVKMGRPQVRSSSKPVASTDNAYSG QTSSFSSVVNQNPNKSASTAPPTTFEQRFPVLQDPIPQVKNSSHASADNHETQESDWFQQDGTL PGSQLTVPETSRDISLPVASLESSTLVADDANSYNNSHVGESSSAIPSDRHLEIIDGNNHFNNG LLHNSSAYQSRGNHYDDNDDDDDEDTFQEVKSKRDKKKEVNKEALEPKSRGAVNSNSRATRAGA DRSGRSSSVQSGSSGADNMSSRSSILGPGVLATNSTQKQTVPSSTVNKDVLHDGSFGAMQPSSG FQNSWCGVPGQMSMADIVKMGRPQVRSSSKPVASTDNAYSGQTSSFSSVVNQNPNKSASTAPPT TFEQRFPVLQDPIPQVKNSSHASADNHETQESDWFQQDGTLPGSQLTVPETSRDISLPVASLES STLVADDANSYNNSHVGESSSAIPSDRHLEIIDGNNHFNNGLLHNSSAYQSRGNHYDDNDDDDD EDTFQEVKSKRDKKKEVNKEALEPKSRGAVNSNSRATRAGADRSGRSSSVQSGSSGADNMSSRS SILGPGVLATNSTQKQTVPSSTVNKDVLHDGSFGAMQPSSGFQNSWCGVPGQMSMADIVKMGRP QVRSSSKPVASTDNAYSGQTSSFSSVVNQNPNKSASTAPPTTFEQRFPVLQDPIPQVKNSSHAS ADNHETQESDWFQQDGTLPGSQLTVPETSRDISLPVASLESSTLVADDANSYNNSHVGESSSAI PSDRHLEIIDGNNHFNNGLLHNSSAYQSRGNHYDDNDDDDDE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os01g0663800_circ_g.4

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