Plant Circular RNA Database

Detail information of Os03g0227700_circ_g.8

			
						 General Information
					
						CircRNA Name
						Os03g0227700_circ_g.8
					
						ID in PlantcircBase
						osa_circ_018645
					
						Alias
						Os_ciR2412
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 6741601-6743168  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0227700						
					
						Parent gene annotation
						
							Cytochrome P450 family protein. (Os03t0227700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0227700_circ_g.3 Os03g0227700_circ_g.4 Os03g0227700_circ_g.5 Os03g0227700_circ_g.6 Os03g0227700_circ_g.7 Os03g0227700_circ_g.9 Os03g0227700_circ_g.10 Os03g0227700_circ_g.11 						
					
						Support reads
						4/5
					
						Tissues
						root/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
						Os03t0227700-01:4

General Information
CircRNA Name	Os03g0227700_circ_g.8
ID in PlantcircBase	osa_circ_018645
Alias	Os_ciR2412
Organism	Oryza sativa
Position	chr3: 6741601-6743168 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0227700
Parent gene annotation	Cytochrome P450 family protein. (Os03t0227700-01)
Parent gene strand	+
Alternative splicing	Os03g0227700_circ_g.3 Os03g0227700_circ_g.4 Os03g0227700_circ_g.5 Os03g0227700_circ_g.6 Os03g0227700_circ_g.7 Os03g0227700_circ_g.9 Os03g0227700_circ_g.10 Os03g0227700_circ_g.11
Support reads	4/5
Tissues	root/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	Os03t0227700-01:4

			
						 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  
						
							CATTCCAAGCGGATGGAAGATCCTGCCGGTGTTAGCCGCGGTGCATCTGGACTCGTCCCTGTAC
GAGGACCCCCAGCGCTTCAATCCCTGGAGATGGAAGtcgcgtgctgccattctcggagtaatag
agaggaaaatggaagagcgggttgagaagctgagcaaggaggatgcaagcgtagagcaagacga
tcttctcg

									
								

					

						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: 531
Transcript exons: 6741601-6741852,6742001-6742093,6742886-6742964,6743062-
6743168
TCGCGTGCTGCCATTCTCGGAGTAATAGAGAGGAAAATGGAAGAGCGGGTTGAGAAGCTGAGCA
AGGAGGATGCAAGCGTAGAGCAAGACGATCTTCTCGGATGGGCTCTGAAACAATCTAACCTTTC
AAAAGAGCAAATCCTGGACCTCTTGCTGAGCTTGCTCTTCGCCGGGCACGAGACGTCGTCCATG
GCGCTCGCCCTCGCCATCTTCTTCCTTGAAGGCTGCCCCAAGGCTGTCCAAGAACTGAGGGAGG
AGCATCTTGGGATTGCAAGGAGACAAAGGCTAAGAGGGGAGTGCAAATTGAGCTGGGAAGACTA
CAAAGAGATGGTTTTCACGCAATGTGTCATAAACGAGACGTTGCGGCTAGGAAACGTGGTCAGG
TTCCTGCACCGGAAGGTCATCAAGGACGTGCACTACAAGGGTTATGACATTCCAAGCGGATGGA
AGATCCTGCCGGTGTTAGCCGCGGTGCATCTGGACTCGTCCCTGTACGAGGACCCCCAGCGCTT
CAATCCCTGGAGATGGAAG
						
					

						Genomic sequence
						
							TCGCGTGCTGCCATTCTCGGAGTAATAGAGAGGAAAATGGAAGAGCGGGTTGAGAAGCTGAGCA
AGGAGGATGCAAGCGTAGAGCAAGACGATCTTCTCGGATGGGCTCTGAAACAATCTAACCTTTC
AAAAGAGCAAATCCTGGACCTCTTGCTGAGCTTGCTCTTCGCCGGGCACGAGACGTCGTCCATG
GCGCTCGCCCTCGCCATCTTCTTCCTTGAAGGCTGCCCCAAGGCTGTCCAAGAACTGAGGGTAC
AGAGAATTACAGATTCGAAATTAACATCTACTGTCACTAGCTCAGTGCTACGTTTAACTGTAGA
GCAACAATTGCAGAAAGCGAAGGCATCAGAAATGACATGGGAATCGATTAGTTACACTCACACT
GACGCGTGACATGCAGGAGGAGCATCTTGGGATTGCAAGGAGACAAAGGCTAAGAGGGGAGTGC
AAATTGAGCTGGGAAGACTACAAAGAGATGGTTTTCACGCAATGTGTAAGGCCCCCCCTACTTT
GTTCCTTCCGATCCCTCCTCCCTAAACGCTACTAATATAAATCGGTGCAAAGGCTTTGTGCTAG
CGTAGCTCTTGCTGTTTTGTTTGGTCACTTGCGTAGAGAGATAGCAACTTCCCGAAATGTCATG
TACGAATGGAGACTGAAAGCTCTGCGAAATAATTGCCGGGCCACGTACTACAGTACTTACGCTC
CCTCTCTTCAGTTTGGATCGATCGAGCTAAGAAGGCGCACGCATGTGTGCATTGATCGATAGAG
TCGATCTGTTCTGCCTTGTAAGCTAGCCAGCTGAGGTTCTTTCGCCTTGGAAGTTTCTACAGGG
TGAGGCCCATCGTCTTGCAACGATCCAAATGCCATGACAAGTACCTGTTGTTGTAGGCTTCCAG
TAGCACGGCCTGCCCCCAAGAAGGTATCTGAATCTTCTGCATTGCTGTTCAGACGGCAGAGCAG
AACATGCCGAAATACCATTCCAGTCAGTTGCAGTATATGTGTGTGGTGGTATCAGATAAAGGAG
CAGAGTAATTTGAGGCCTTAGAAATTCAGATGAGTTGCTCGACAATTGTCGCCTACCGATCGAG
AATAAGTTGCATGCATGTATGTGATGTAATTATGGGTCTTAGTCAGCAGGATAGTTTAGTCGCT
GCAGTACTGTAGATTGTAGTACTTGCGTTCAAAGCAGACCCAAAACAGAACTTGCATTCAGGAA
ACAAAACATGAAAAAAGAAATATACAGTACTTGGCACTGATATTTCTTTTGTTTGGGTCCTTAT
TGCAGGTCATAAACGAGACGTTGCGGCTAGGAAACGTGGTCAGGTTCCTGCACCGGAAGGTCAT
CAAGGACGTGCACTACAAGGGTGAGTAGCTCGATTTCACTCTTCTTCCCTGAATCGACCTCTCC
TCTATCTGACAGCAGAAGCTAACTGAACTGAACTGAACTGAACTGAACTGAAGGTTATGACATT
CCAAGCGGATGGAAGATCCTGCCGGTGTTAGCCGCGGTGCATCTGGACTCGTCCCTGTACGAGG
ACCCCCAGCGCTTCAATCCCTGGAGATGGAAG
						
					

			
		

Sequences
Splice junction sequence	CATTCCAAGCGGATGGAAGATCCTGCCGGTGTTAGCCGCGGTGCATCTGGACTCGTCCCTGTAC GAGGACCCCCAGCGCTTCAATCCCTGGAGATGGAAGtcgcgtgctgccattctcggagtaatag agaggaaaatggaagagcgggttgagaagctgagcaaggaggatgcaagcgtagagcaagacga tcttctcg
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: 531 Transcript exons: 6741601-6741852,6742001-6742093,6742886-6742964,6743062- 6743168 TCGCGTGCTGCCATTCTCGGAGTAATAGAGAGGAAAATGGAAGAGCGGGTTGAGAAGCTGAGCA AGGAGGATGCAAGCGTAGAGCAAGACGATCTTCTCGGATGGGCTCTGAAACAATCTAACCTTTC AAAAGAGCAAATCCTGGACCTCTTGCTGAGCTTGCTCTTCGCCGGGCACGAGACGTCGTCCATG GCGCTCGCCCTCGCCATCTTCTTCCTTGAAGGCTGCCCCAAGGCTGTCCAAGAACTGAGGGAGG AGCATCTTGGGATTGCAAGGAGACAAAGGCTAAGAGGGGAGTGCAAATTGAGCTGGGAAGACTA CAAAGAGATGGTTTTCACGCAATGTGTCATAAACGAGACGTTGCGGCTAGGAAACGTGGTCAGG TTCCTGCACCGGAAGGTCATCAAGGACGTGCACTACAAGGGTTATGACATTCCAAGCGGATGGA AGATCCTGCCGGTGTTAGCCGCGGTGCATCTGGACTCGTCCCTGTACGAGGACCCCCAGCGCTT CAATCCCTGGAGATGGAAG
Genomic sequence	TCGCGTGCTGCCATTCTCGGAGTAATAGAGAGGAAAATGGAAGAGCGGGTTGAGAAGCTGAGCA AGGAGGATGCAAGCGTAGAGCAAGACGATCTTCTCGGATGGGCTCTGAAACAATCTAACCTTTC AAAAGAGCAAATCCTGGACCTCTTGCTGAGCTTGCTCTTCGCCGGGCACGAGACGTCGTCCATG GCGCTCGCCCTCGCCATCTTCTTCCTTGAAGGCTGCCCCAAGGCTGTCCAAGAACTGAGGGTAC AGAGAATTACAGATTCGAAATTAACATCTACTGTCACTAGCTCAGTGCTACGTTTAACTGTAGA GCAACAATTGCAGAAAGCGAAGGCATCAGAAATGACATGGGAATCGATTAGTTACACTCACACT GACGCGTGACATGCAGGAGGAGCATCTTGGGATTGCAAGGAGACAAAGGCTAAGAGGGGAGTGC AAATTGAGCTGGGAAGACTACAAAGAGATGGTTTTCACGCAATGTGTAAGGCCCCCCCTACTTT GTTCCTTCCGATCCCTCCTCCCTAAACGCTACTAATATAAATCGGTGCAAAGGCTTTGTGCTAG CGTAGCTCTTGCTGTTTTGTTTGGTCACTTGCGTAGAGAGATAGCAACTTCCCGAAATGTCATG TACGAATGGAGACTGAAAGCTCTGCGAAATAATTGCCGGGCCACGTACTACAGTACTTACGCTC CCTCTCTTCAGTTTGGATCGATCGAGCTAAGAAGGCGCACGCATGTGTGCATTGATCGATAGAG TCGATCTGTTCTGCCTTGTAAGCTAGCCAGCTGAGGTTCTTTCGCCTTGGAAGTTTCTACAGGG TGAGGCCCATCGTCTTGCAACGATCCAAATGCCATGACAAGTACCTGTTGTTGTAGGCTTCCAG TAGCACGGCCTGCCCCCAAGAAGGTATCTGAATCTTCTGCATTGCTGTTCAGACGGCAGAGCAG AACATGCCGAAATACCATTCCAGTCAGTTGCAGTATATGTGTGTGGTGGTATCAGATAAAGGAG CAGAGTAATTTGAGGCCTTAGAAATTCAGATGAGTTGCTCGACAATTGTCGCCTACCGATCGAG AATAAGTTGCATGCATGTATGTGATGTAATTATGGGTCTTAGTCAGCAGGATAGTTTAGTCGCT GCAGTACTGTAGATTGTAGTACTTGCGTTCAAAGCAGACCCAAAACAGAACTTGCATTCAGGAA ACAAAACATGAAAAAAGAAATATACAGTACTTGGCACTGATATTTCTTTTGTTTGGGTCCTTAT TGCAGGTCATAAACGAGACGTTGCGGCTAGGAAACGTGGTCAGGTTCCTGCACCGGAAGGTCAT CAAGGACGTGCACTACAAGGGTGAGTAGCTCGATTTCACTCTTCTTCCCTGAATCGACCTCTCC TCTATCTGACAGCAGAAGCTAACTGAACTGAACTGAACTGAACTGAACTGAAGGTTATGACATT CCAAGCGGATGGAAGATCCTGCCGGTGTTAGCCGCGGTGCATCTGGACTCGTCCCTGTACGAGG ACCCCCAGCGCTTCAATCCCTGGAGATGGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.23927162

Conservation Information
Conserved circRNAs	NA
PMCS	0.23927162

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6741638-6743165(+)
6743082-6741650(+)
6741811-6743065(-)
						
						Potential amino acid sequence
						
							MEERVEKLSKEDASVEQDDLLGWALKQSNLSKEQILDLLLSLLFAGHETSSMALALAIFFLEGC
PKAVQELREEHLGIARRQRLRGECKLSWEDYKEMVFTQCVINETLRLGNVVRFLHRKVIKDVHY
KGYDIPSGWKILPVLAAVHLDSSLYEDPQRFNPWRWKSRAAILGVIERKMEERVEKLSKEDASV
EQDDLLGWALKQSNLSKEQILDLLLSLLFAGHETSSMALALAIFFLEGCPKAVQELREEHLGIA
RRQRLRGECKLSWEDYKEMVFTQCVINETLRLGNVVRFLHRKVIKDVHYKGYDIPSGWKILPVL
AAVHLDSSLYEDPQRFNPWRWKSRAAILGVIERKMEERVEKLSKEDASVEQDDLLGWALKQSNL
SKEQILDLLLSLLFAGHETSSMALALAIFFLEGCPKAVQELREEHLGIARRQRLRGECKLSWED
YKEMVFTQCVINETLRLGNVVRFLHRKVIKDVHYKGYDIPSGWKILPVLAAVHLDSSLYEDPQR
FNPWRWKSRAAILGVIERKMEERVEKLSKEDASVEQDDLLGWALKQSNLSKEQILDLLLSLLFA
GHETSSMALALAIFFLEGCPKAVQELREEHLGIARRQRLRGECKLSWEDYKEMVFTQCVINETL
RLGNVVRFLHRKVIKDVHYKGYDIPSGWKILPVLAAVHLDSSLYEDPQRFNPWRWK(+)
MEDPAGVSRGASGLVPVRGPPALQSLEMEVACCHSRSNREENGRAG*(+)
MARASAMDDVSCPAKSKLSKRSRICSFERLDCFRAHPRRSSCSTLASSLLSFSTRSSIFLSITP
RMAARDFHLQGLKRWGSSYRDESRCTAANTGRIFHPLGMS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6741638-6743165(+) 6743082-6741650(+) 6741811-6743065(-)
Potential amino acid sequence	MEERVEKLSKEDASVEQDDLLGWALKQSNLSKEQILDLLLSLLFAGHETSSMALALAIFFLEGC PKAVQELREEHLGIARRQRLRGECKLSWEDYKEMVFTQCVINETLRLGNVVRFLHRKVIKDVHY KGYDIPSGWKILPVLAAVHLDSSLYEDPQRFNPWRWKSRAAILGVIERKMEERVEKLSKEDASV EQDDLLGWALKQSNLSKEQILDLLLSLLFAGHETSSMALALAIFFLEGCPKAVQELREEHLGIA RRQRLRGECKLSWEDYKEMVFTQCVINETLRLGNVVRFLHRKVIKDVHYKGYDIPSGWKILPVL AAVHLDSSLYEDPQRFNPWRWKSRAAILGVIERKMEERVEKLSKEDASVEQDDLLGWALKQSNL SKEQILDLLLSLLFAGHETSSMALALAIFFLEGCPKAVQELREEHLGIARRQRLRGECKLSWED YKEMVFTQCVINETLRLGNVVRFLHRKVIKDVHYKGYDIPSGWKILPVLAAVHLDSSLYEDPQR FNPWRWKSRAAILGVIERKMEERVEKLSKEDASVEQDDLLGWALKQSNLSKEQILDLLLSLLFA GHETSSMALALAIFFLEGCPKAVQELREEHLGIARRQRLRGECKLSWEDYKEMVFTQCVINETL RLGNVVRFLHRKVIKDVHYKGYDIPSGWKILPVLAAVHLDSSLYEDPQRFNPWRWK(+) MEDPAGVSRGASGLVPVRGPPALQSLEMEVACCHSRSNREENGRAG(+) MARASAMDDVSCPAKSKLSKRSRICSFERLDCFRAHPRRSSCSTLASSLLSFSTRSSIFLSITP RMAARDFHLQGLKRWGSSYRDESRCTAANTGRIFHPLGMS(-)
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 Os03g0227700_circ_g.8

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