Plant Circular RNA Database

Detail information of Os12g0284000_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os12g0284000_circ_g.3
					
						ID in PlantcircBase
						osa_circ_011124
					
						Alias
						Os12circ04332
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 10772247-10773487  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os12g0284000						
					
						Parent gene annotation
						
							Regulator of chromosome condensation, RCC1 domain containing pro
tein. (Os12t0284000-01);Similar to predicted protein. (Os12t0284
000-02);Regulator of chromosome condensation, RCC1 domain contai
ning protein. (Os12t0284000-03);Hypothetical conserved gene. (Os
12t0284000-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/1
					
						Tissues
						leaf/shoot
					
						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
						Os12t0284000-01:3
Os12t0284000-02:2
Os12t0284000-04:1
Os12t0284000-03:3

General Information
CircRNA Name	Os12g0284000_circ_g.3
ID in PlantcircBase	osa_circ_011124
Alias	Os12circ04332
Organism	Oryza sativa
Position	chr12: 10772247-10773487 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os12g0284000
Parent gene annotation	Regulator of chromosome condensation, RCC1 domain containing pro tein. (Os12t0284000-01);Similar to predicted protein. (Os12t0284 000-02);Regulator of chromosome condensation, RCC1 domain contai ning protein. (Os12t0284000-03);Hypothetical conserved gene. (Os 12t0284000-04)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/1
Tissues	leaf/shoot
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	Os12t0284000-01:3 Os12t0284000-02:2 Os12t0284000-04:1 Os12t0284000-03:3

			
						 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  
						
							AGCCTCATCTTCTAGCAGGCCCTCTTGAGAACATTCCAGTTGTGCAGATTGCCGCAGGCTACTG
CTATCTCCTGGCTCTGGCATGCCAACCAAGTGGCATaatggtcctgtacttaattcactctgga
cttctggagagccaggaacaccacaagtttgagataaaagcataaggcagtgcaagtcgcagcc
gtggcaga

									
								

					

						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: 1079
Transcript exons: 10772247-10772571,10772645-10772996,10773086-10773487
AATGGTCCTGTACTTAATTCACTCTGGACTTCTGGAGAGCCAGGAACACCACAAGTTTGAGATA
AAAGCATAAGGCAGTGCAAGTCGCAGCCGTGGCAGATGGACGCCACGACGAGCAGTGGAGCTTC
CTCCTCTCTACCCCTCCACCTTATCATAGATGATGCTCTTGCCCTTGTTTCTCCGTTGCAGCAG
TCGTTTCAGAGGTCACAGCGCCATTGCTTTGGTGGCTCTGCTCCTGGAGAATTCCCCTTGGCTG
CAAACCCATCAATTGTCCTCCATGTCCTCACATCATGCAATCTGGAACCTGATGACCTCGCTCA
CTTGGAGGCAACATGCTCGTTTTTCCGGAAGCCTGCCAATTTCCCTCCCGATTTTCAGTTGTCA
ATGTCAGAACTCGCAGCGTTGGATATGTGCCAGAAACGGGCGATATTTAAACCTATGACTCAAC
AAGAAAGAGAAATGTTTAAGCAACGTTGCGGCGGGAGTTGGAAGCTGGTTCTTAGGTTTATAAT
GGCAGGTGAAGCATGTTGCCGGAGGGAAAAATCTCAGGCAATCGCTGGACCTGGTCACAGCATC
GCTGTGACAACAAGCGGTGCAGTGTATACTTTTGGGTCCAACAGCTCTGGTCAACTTGGCCATG
GTAGTTTAGAAGAGGAGTGGAGGCCACGGATTATCAGATCATTGCAGGGTATTAGAATTATTCA
AGCGGCAGCAGGAGCAGGACGCACAATGCTTGTTAGTGATGCTGGTAGGGTCTATGCATTTGGA
AAGGATTCATTTGGAGAAGTGGAATATGCAGCCCAAGGTTCTAGGGTTGTCACCACACCACAGC
TGGTGGAATCATTGAAGGACATATACATTGTCCAGGCAGCAATCGGGAACTTCTTTACTGCAGT
TTTATCTCGGGAAGGTCATGTGTATACATTTTCTTGGGGGAATGACATGAAACTTGGTCATCAG
ACAGAGCCAAATGATGTTCAGCCTCATCTTCTAGCAGGCCCTCTTGAGAACATTCCAGTTGTGC
AGATTGCCGCAGGCTACTGCTATCTCCTGGCTCTGGCATGCCAACCAAGTGGCAT
						
					

						Genomic sequence
						
							AATGGTCCTGTACTTAATTCACTCTGGACTTCTGGAGAGCCAGGAACACCACAAGTTTGAGATA
AAAGCATAAGGCAGTGCAAGTCGCAGCCGTGGCAGATGGACGCCACGACGAGCAGTGGAGCTTC
CTCCTCTCTACCCCTCCACCTTATCATAGATGATGCTCTTGCCCTTGTTTCTCCGTTGCAGCAG
TCGTTTCAGAGGTCACAGCGCCATTGCTTTGGTGGCTCTGCTCCTGGAGAATTCCCCTTGGCTG
CAAACCCATCAATTGTCCTCCATGTCCTCACATCATGCAATCTGGAACCTGATGACCTCGCTCA
CTTGGAGGCAAGTAGTGTTTTGTTCTTCCTCTCCAATGTAGAATTGATATTGCCACTGATGAAA
TTTGTGCTTGCGATAGGCAACATGCTCGTTTTTCCGGAAGCCTGCCAATTTCCCTCCCGATTTT
CAGTTGTCAATGTCAGAACTCGCAGCGTTGGATATGTGCCAGAAACGGGCGATATTTAAACCTA
TGACTCAACAAGAAAGAGAAATGTTTAAGCAACGTTGCGGCGGGAGTTGGAAGCTGGTTCTTAG
GTTTATAATGGCAGGTGAAGCATGTTGCCGGAGGGAAAAATCTCAGGCAATCGCTGGACCTGGT
CACAGCATCGCTGTGACAACAAGCGGTGCAGTGTATACTTTTGGGTCCAACAGCTCTGGTCAAC
TTGGCCATGGTAGTTTAGAAGAGGAGTGGAGGCCACGGATTATCAGGTGCTTCTAGAATATACA
GTTATCATAACTTTAGTCATGACACAAATGTAGATTAAAAGAGTGCTAAATGTCTGTTGGTGCT
CGTATAGATCATTGCAGGGTATTAGAATTATTCAAGCGGCAGCAGGAGCAGGACGCACAATGCT
TGTTAGTGATGCTGGTAGGGTCTATGCATTTGGAAAGGATTCATTTGGAGAAGTGGAATATGCA
GCCCAAGGTTCTAGGGTTGTCACCACACCACAGCTGGTGGAATCATTGAAGGACATATACATTG
TCCAGGCAGCAATCGGGAACTTCTTTACTGCAGTTTTATCTCGGGAAGGTCATGTGTATACATT
TTCTTGGGGGAATGACATGAAACTTGGTCATCAGACAGAGCCAAATGATGTTCAGCCTCATCTT
CTAGCAGGCCCTCTTGAGAACATTCCAGTTGTGCAGATTGCCGCAGGCTACTGCTATCTCCTGG
CTCTGGCATGCCAACCAAGTGGCAT
						
					

			
		

Sequences
Splice junction sequence	AGCCTCATCTTCTAGCAGGCCCTCTTGAGAACATTCCAGTTGTGCAGATTGCCGCAGGCTACTG CTATCTCCTGGCTCTGGCATGCCAACCAAGTGGCATaatggtcctgtacttaattcactctgga cttctggagagccaggaacaccacaagtttgagataaaagcataaggcagtgcaagtcgcagcc gtggcaga
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: 1079 Transcript exons: 10772247-10772571,10772645-10772996,10773086-10773487 AATGGTCCTGTACTTAATTCACTCTGGACTTCTGGAGAGCCAGGAACACCACAAGTTTGAGATA AAAGCATAAGGCAGTGCAAGTCGCAGCCGTGGCAGATGGACGCCACGACGAGCAGTGGAGCTTC CTCCTCTCTACCCCTCCACCTTATCATAGATGATGCTCTTGCCCTTGTTTCTCCGTTGCAGCAG TCGTTTCAGAGGTCACAGCGCCATTGCTTTGGTGGCTCTGCTCCTGGAGAATTCCCCTTGGCTG CAAACCCATCAATTGTCCTCCATGTCCTCACATCATGCAATCTGGAACCTGATGACCTCGCTCA CTTGGAGGCAACATGCTCGTTTTTCCGGAAGCCTGCCAATTTCCCTCCCGATTTTCAGTTGTCA ATGTCAGAACTCGCAGCGTTGGATATGTGCCAGAAACGGGCGATATTTAAACCTATGACTCAAC AAGAAAGAGAAATGTTTAAGCAACGTTGCGGCGGGAGTTGGAAGCTGGTTCTTAGGTTTATAAT GGCAGGTGAAGCATGTTGCCGGAGGGAAAAATCTCAGGCAATCGCTGGACCTGGTCACAGCATC GCTGTGACAACAAGCGGTGCAGTGTATACTTTTGGGTCCAACAGCTCTGGTCAACTTGGCCATG GTAGTTTAGAAGAGGAGTGGAGGCCACGGATTATCAGATCATTGCAGGGTATTAGAATTATTCA AGCGGCAGCAGGAGCAGGACGCACAATGCTTGTTAGTGATGCTGGTAGGGTCTATGCATTTGGA AAGGATTCATTTGGAGAAGTGGAATATGCAGCCCAAGGTTCTAGGGTTGTCACCACACCACAGC TGGTGGAATCATTGAAGGACATATACATTGTCCAGGCAGCAATCGGGAACTTCTTTACTGCAGT TTTATCTCGGGAAGGTCATGTGTATACATTTTCTTGGGGGAATGACATGAAACTTGGTCATCAG ACAGAGCCAAATGATGTTCAGCCTCATCTTCTAGCAGGCCCTCTTGAGAACATTCCAGTTGTGC AGATTGCCGCAGGCTACTGCTATCTCCTGGCTCTGGCATGCCAACCAAGTGGCAT
Genomic sequence	AATGGTCCTGTACTTAATTCACTCTGGACTTCTGGAGAGCCAGGAACACCACAAGTTTGAGATA AAAGCATAAGGCAGTGCAAGTCGCAGCCGTGGCAGATGGACGCCACGACGAGCAGTGGAGCTTC CTCCTCTCTACCCCTCCACCTTATCATAGATGATGCTCTTGCCCTTGTTTCTCCGTTGCAGCAG TCGTTTCAGAGGTCACAGCGCCATTGCTTTGGTGGCTCTGCTCCTGGAGAATTCCCCTTGGCTG CAAACCCATCAATTGTCCTCCATGTCCTCACATCATGCAATCTGGAACCTGATGACCTCGCTCA CTTGGAGGCAAGTAGTGTTTTGTTCTTCCTCTCCAATGTAGAATTGATATTGCCACTGATGAAA TTTGTGCTTGCGATAGGCAACATGCTCGTTTTTCCGGAAGCCTGCCAATTTCCCTCCCGATTTT CAGTTGTCAATGTCAGAACTCGCAGCGTTGGATATGTGCCAGAAACGGGCGATATTTAAACCTA TGACTCAACAAGAAAGAGAAATGTTTAAGCAACGTTGCGGCGGGAGTTGGAAGCTGGTTCTTAG GTTTATAATGGCAGGTGAAGCATGTTGCCGGAGGGAAAAATCTCAGGCAATCGCTGGACCTGGT CACAGCATCGCTGTGACAACAAGCGGTGCAGTGTATACTTTTGGGTCCAACAGCTCTGGTCAAC TTGGCCATGGTAGTTTAGAAGAGGAGTGGAGGCCACGGATTATCAGGTGCTTCTAGAATATACA GTTATCATAACTTTAGTCATGACACAAATGTAGATTAAAAGAGTGCTAAATGTCTGTTGGTGCT CGTATAGATCATTGCAGGGTATTAGAATTATTCAAGCGGCAGCAGGAGCAGGACGCACAATGCT TGTTAGTGATGCTGGTAGGGTCTATGCATTTGGAAAGGATTCATTTGGAGAAGTGGAATATGCA GCCCAAGGTTCTAGGGTTGTCACCACACCACAGCTGGTGGAATCATTGAAGGACATATACATTG TCCAGGCAGCAATCGGGAACTTCTTTACTGCAGTTTTATCTCGGGAAGGTCATGTGTATACATT TTCTTGGGGGAATGACATGAAACTTGGTCATCAGACAGAGCCAAATGATGTTCAGCCTCATCTT CTAGCAGGCCCTCTTGAGAACATTCCAGTTGTGCAGATTGCCGCAGGCTACTGCTATCTCCTGG CTCTGGCATGCCAACCAAGTGGCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003389* 						
					
						PMCS
						0.315972435

Conservation Information
Conserved circRNAs	osi_circ_003389*
PMCS	0.315972435

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10772347-10772316(+)
10773471-10772303(+)
10772403-10773297(-)
						
						Potential amino acid sequence
						
							MDATTSSGASSSLPLHLIIDDALALVSPLQQSFQRSQRHCFGGSAPGEFPLAANPSIVLHVLTS
CNLEPDDLAHLEATCSFFRKPANFPPDFQLSMSELAALDMCQKRAIFKPMTQQEREMFKQRCGG
SWKLVLRFIMAGEACCRREKSQAIAGPGHSIAVTTSGAVYTFGSNSSGQLGHGSLEEEWRPRII
RSLQGIRIIQAAAGAGRTMLVSDAGRVYAFGKDSFGEVEYAAQGSRVVTTPQLVESLKDIYIVQ
AAIGNFFTAVLSREGHVYTFSWGNDMKLGHQTEPNDVQPHLLAGPLENIPVVQIAAGYCYLLAL
ACQPSGIMVLYLIHSGLLESQEHHKFEIKA*(+)
MPTKWHNGPVLNSLWTSGEPGTPQV*(+)
MIRWRGREEEAPLLVVASICHGCDLHCLMLLSQTCGVPGSPEVQSELSTGPLCHLVGMPEPGDS
SSLRQSAQLECSQEGLLEDEAEHHLALSDDQVSCHSPKKMYTHDLPEIKLQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10772347-10772316(+) 10773471-10772303(+) 10772403-10773297(-)
Potential amino acid sequence	MDATTSSGASSSLPLHLIIDDALALVSPLQQSFQRSQRHCFGGSAPGEFPLAANPSIVLHVLTS CNLEPDDLAHLEATCSFFRKPANFPPDFQLSMSELAALDMCQKRAIFKPMTQQEREMFKQRCGG SWKLVLRFIMAGEACCRREKSQAIAGPGHSIAVTTSGAVYTFGSNSSGQLGHGSLEEEWRPRII RSLQGIRIIQAAAGAGRTMLVSDAGRVYAFGKDSFGEVEYAAQGSRVVTTPQLVESLKDIYIVQ AAIGNFFTAVLSREGHVYTFSWGNDMKLGHQTEPNDVQPHLLAGPLENIPVVQIAAGYCYLLAL ACQPSGIMVLYLIHSGLLESQEHHKFEIKA(+) MPTKWHNGPVLNSLWTSGEPGTPQV(+) MIRWRGREEEAPLLVVASICHGCDLHCLMLLSQTCGVPGSPEVQSELSTGPLCHLVGMPEPGDS SSLRQSAQLECSQEGLLEDEAEHHLALSDDQVSCHSPKKMYTHDLPEIKLQ*(-)
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 Os12g0284000_circ_g.3

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