Plant Circular RNA Database

Detail information of Os02g0227400_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os02g0227400_circ_g.6
					
						ID in PlantcircBase
						osa_circ_013970
					
						Alias
						Os_ciR1506
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 7147801-7148743  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os02g0227400						
					
						Parent gene annotation
						
							Poly(A) polymerase, RNA-binding region domain containing protein
. (Os02t0227400-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0227400_circ_g.3 Os02g0227400_circ_g.4 Os02g0227400_circ_g.5 						
					
						Support reads
						8/3
					
						Tissues
						root/shoot, root, seed
					
						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
						Os02t0227400-01:4

General Information
CircRNA Name	Os02g0227400_circ_g.6
ID in PlantcircBase	osa_circ_013970
Alias	Os_ciR1506
Organism	Oryza sativa
Position	chr2: 7147801-7148743 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os02g0227400
Parent gene annotation	Poly(A) polymerase, RNA-binding region domain containing protein . (Os02t0227400-01)
Parent gene strand	+
Alternative splicing	Os02g0227400_circ_g.3 Os02g0227400_circ_g.4 Os02g0227400_circ_g.5
Support reads	8/3
Tissues	root/shoot, root, seed
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	Os02t0227400-01:4

			
						 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  
						
							TACAAGATATCTAGTGGTTGACATTGTTGCAGATGATGATGATGATCTTCGGCTTTGGAAGGGA
TGGATTGAATCTCGATTGAGACAGCTGACTCTAAAGgattttgacatctctcaaggatctgtac
tttgtgatgttgatgaagcaactgttcgaagtctcaatgggtgcagggtggcagaccagattct
tcgacttg

									
								

					

						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: 675
Transcript exons: 7147801-7147914,7147993-7148055,7148168-7148500,7148579-
7148743
GATTTTGACATCTCTCAAGGATCTGTACTTTGTGATGTTGATGAAGCAACTGTTCGAAGTCTCA
ATGGGTGCAGGGTGGCAGACCAGATTCTTCGACTTGTTCCAAATGCGGAGATCTTCCGGAAAAC
ACTCAGATGTTTGAAGTACTGGGCACAGAGAAGAGGAGTTTATTCTAATGTTACTGGTTTGCTG
GGGGGTGTCAGCTGGGCCCTATTGGTTGCTCGTGTCTGCCAACTTTATCCCAATGCTGTGCCAA
GTATGCTGGTTTCAAGATTCTTCAGAGTTTTCACCCAGTGGCAGTGGCCAAATCCTGTGATGCT
TTGTGCCATTGAGAACGATGATAACCTTGGCTTTGCTGTGTGGGATCCACGTAAGAATCCTCGT
GATAGATCACATGTTATGCCTATCATCACGCCAGCATATCCATGCATGAACTCTAGTTACAATG
TTTCAACTAGCACATTGAGGGTTATTATGGAGCAATTTCAGTTTGGTAATAAGATTTGTCAGGA
AATTGAGCTTAACAAGGCTAGCTGGAGTTCTTTGTTTGAGCCTTTCCAATTTTTCGAGGCATAT
ACAAGATATCTAGTGGTTGACATTGTTGCAGATGATGATGATGATCTTCGGCTTTGGAAGGGAT
GGATTGAATCTCGATTGAGACAGCTGACTCTAAAG
						
					

						Genomic sequence
						
							GATTTTGACATCTCTCAAGGATCTGTACTTTGTGATGTTGATGAAGCAACTGTTCGAAGTCTCA
ATGGGTGCAGGGTGGCAGACCAGATTCTTCGACTTGTTCCAAATGCGGAGGTAATTTAATTATG
ATATCACCATTTCTCTTATTATACAGTCCAAACCATGTCATTGTAATAAATATATGCTATGTAG
ATCTTCCGGAAAACACTCAGATGTTTGAAGTACTGGGCACAGAGAAGAGGAGTTTATTCTAATG
TAAGCCTGGTTTTATCATCTATGATACACTTAAATGTGTTTGTGCTTGGATCAAAACCATTAGC
ATCAAAAGGTGCTGAATCGTTATGACGCCAAATGGTTTCCTTGTTAGGTTACTGGTTTGCTGGG
GGGTGTCAGCTGGGCCCTATTGGTTGCTCGTGTCTGCCAACTTTATCCCAATGCTGTGCCAAGT
ATGCTGGTTTCAAGATTCTTCAGAGTTTTCACCCAGTGGCAGTGGCCAAATCCTGTGATGCTTT
GTGCCATTGAGAACGATGATAACCTTGGCTTTGCTGTGTGGGATCCACGTAAGAATCCTCGTGA
TAGATCACATGTTATGCCTATCATCACGCCAGCATATCCATGCATGAACTCTAGTTACAATGTT
TCAACTAGCACATTGAGGGTTATTATGGAGCAATTTCAGTTTGGTAATAAGATTTGTCAGGTGC
ATTATCTATGCCTCAACTTTATGCCTCAGAGCACTAAATTCTGCATATGGTCTCATTGCCTATC
TTTGATGCAGGAAATTGAGCTTAACAAGGCTAGCTGGAGTTCTTTGTTTGAGCCTTTCCAATTT
TTCGAGGCATATACAAGATATCTAGTGGTTGACATTGTTGCAGATGATGATGATGATCTTCGGC
TTTGGAAGGGATGGATTGAATCTCGATTGAGACAGCTGACTCTAAAG
						
					

			
		

Sequences
Splice junction sequence	TACAAGATATCTAGTGGTTGACATTGTTGCAGATGATGATGATGATCTTCGGCTTTGGAAGGGA TGGATTGAATCTCGATTGAGACAGCTGACTCTAAAGgattttgacatctctcaaggatctgtac tttgtgatgttgatgaagcaactgttcgaagtctcaatgggtgcagggtggcagaccagattct tcgacttg
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: 675 Transcript exons: 7147801-7147914,7147993-7148055,7148168-7148500,7148579- 7148743 GATTTTGACATCTCTCAAGGATCTGTACTTTGTGATGTTGATGAAGCAACTGTTCGAAGTCTCA ATGGGTGCAGGGTGGCAGACCAGATTCTTCGACTTGTTCCAAATGCGGAGATCTTCCGGAAAAC ACTCAGATGTTTGAAGTACTGGGCACAGAGAAGAGGAGTTTATTCTAATGTTACTGGTTTGCTG GGGGGTGTCAGCTGGGCCCTATTGGTTGCTCGTGTCTGCCAACTTTATCCCAATGCTGTGCCAA GTATGCTGGTTTCAAGATTCTTCAGAGTTTTCACCCAGTGGCAGTGGCCAAATCCTGTGATGCT TTGTGCCATTGAGAACGATGATAACCTTGGCTTTGCTGTGTGGGATCCACGTAAGAATCCTCGT GATAGATCACATGTTATGCCTATCATCACGCCAGCATATCCATGCATGAACTCTAGTTACAATG TTTCAACTAGCACATTGAGGGTTATTATGGAGCAATTTCAGTTTGGTAATAAGATTTGTCAGGA AATTGAGCTTAACAAGGCTAGCTGGAGTTCTTTGTTTGAGCCTTTCCAATTTTTCGAGGCATAT ACAAGATATCTAGTGGTTGACATTGTTGCAGATGATGATGATGATCTTCGGCTTTGGAAGGGAT GGATTGAATCTCGATTGAGACAGCTGACTCTAAAG
Genomic sequence	GATTTTGACATCTCTCAAGGATCTGTACTTTGTGATGTTGATGAAGCAACTGTTCGAAGTCTCA ATGGGTGCAGGGTGGCAGACCAGATTCTTCGACTTGTTCCAAATGCGGAGGTAATTTAATTATG ATATCACCATTTCTCTTATTATACAGTCCAAACCATGTCATTGTAATAAATATATGCTATGTAG ATCTTCCGGAAAACACTCAGATGTTTGAAGTACTGGGCACAGAGAAGAGGAGTTTATTCTAATG TAAGCCTGGTTTTATCATCTATGATACACTTAAATGTGTTTGTGCTTGGATCAAAACCATTAGC ATCAAAAGGTGCTGAATCGTTATGACGCCAAATGGTTTCCTTGTTAGGTTACTGGTTTGCTGGG GGGTGTCAGCTGGGCCCTATTGGTTGCTCGTGTCTGCCAACTTTATCCCAATGCTGTGCCAAGT ATGCTGGTTTCAAGATTCTTCAGAGTTTTCACCCAGTGGCAGTGGCCAAATCCTGTGATGCTTT GTGCCATTGAGAACGATGATAACCTTGGCTTTGCTGTGTGGGATCCACGTAAGAATCCTCGTGA TAGATCACATGTTATGCCTATCATCACGCCAGCATATCCATGCATGAACTCTAGTTACAATGTT TCAACTAGCACATTGAGGGTTATTATGGAGCAATTTCAGTTTGGTAATAAGATTTGTCAGGTGC ATTATCTATGCCTCAACTTTATGCCTCAGAGCACTAAATTCTGCATATGGTCTCATTGCCTATC TTTGATGCAGGAAATTGAGCTTAACAAGGCTAGCTGGAGTTCTTTGTTTGAGCCTTTCCAATTT TTCGAGGCATATACAAGATATCTAGTGGTTGACATTGTTGCAGATGATGATGATGATCTTCGGC TTTGGAAGGGATGGATTGAATCTCGATTGAGACAGCTGACTCTAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003770* osi_circ_012746 						
					
						PMCS
						0.528010189

Conservation Information
Conserved circRNAs	osi_circ_003770* osi_circ_012746
PMCS	0.528010189

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7148250-7148740(+)
7147813-7148499(-)
						
						Potential amino acid sequence
						
							MLVSRFFRVFTQWQWPNPVMLCAIENDDNLGFAVWDPRKNPRDRSHVMPIITPAYPCMNSSYNV
STSTLRVIMEQFQFGNKICQEIELNKASWSSLFEPFQFFEAYTRYLVVDIVADDDDDLRLWKGW
IESRLRQLTLKDFDISQGSVLCDVDEATVRSLNGCRVADQILRLVPNAEIFRKTLRCLKYWAQR
RGVYSNVTGLLGGVSWALLVARVCQLYPNAVPSMLVSRFFRVFTQWQWPNPVMLCAIENDDNLG
FAVWDPRKNPRDRSHVMPIITPAYPCMNSSYNVSTSTLRVIMEQFQFGNKICQEIELNKASWSS
LFEPFQFFEAYTRYLVVDIVADDDDDLRLWKGWIESRLRQLTLKDFDISQGSVLCDVDEATVRS
LNGCRVADQILRLVPNAEIFRKTLRCLKYWAQRRGVYSNVTGLLGGVSWALLVARVCQLYPNAV
PSMLVSRFFRVFTQWQWPNPVMLCAIENDDNLGFAVWDPRKNPRDRSHVMPIITPAYPCMNSSY
NVSTSTLRVIMEQFQFGNKICQEIELNKASWSSLFEPFQFFEAYTRYLVVDIVADDDDDLRLWK
GWIESRLRQLTLKDFDISQGSVLCDVDEATVRSLNGCRVADQILRLVPNAEIFRKTLRCLKYWA
QRRGVYSNVTGLLGGVSWALLVARVCQLYPNAVPSMLVSRFFRVFTQWQWPNPVMLCAIENDDN
LGFAVWDPRKNPRDRSHVMPIITPAYPCMNSSYNVSTSTLRVIMEQFQFGNKICQEIELNKASW
SSLFEPFQFFEAYTRYLVVDIVADDDDDLRLWKGWIESRLRQLTLK(+)
MSKSFRVSCLNRDSIHPFQSRRSSSSSATMSTTRYLVYASKNWKGSNKELQLALLSSIS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7148250-7148740(+) 7147813-7148499(-)
Potential amino acid sequence	MLVSRFFRVFTQWQWPNPVMLCAIENDDNLGFAVWDPRKNPRDRSHVMPIITPAYPCMNSSYNV STSTLRVIMEQFQFGNKICQEIELNKASWSSLFEPFQFFEAYTRYLVVDIVADDDDDLRLWKGW IESRLRQLTLKDFDISQGSVLCDVDEATVRSLNGCRVADQILRLVPNAEIFRKTLRCLKYWAQR RGVYSNVTGLLGGVSWALLVARVCQLYPNAVPSMLVSRFFRVFTQWQWPNPVMLCAIENDDNLG FAVWDPRKNPRDRSHVMPIITPAYPCMNSSYNVSTSTLRVIMEQFQFGNKICQEIELNKASWSS LFEPFQFFEAYTRYLVVDIVADDDDDLRLWKGWIESRLRQLTLKDFDISQGSVLCDVDEATVRS LNGCRVADQILRLVPNAEIFRKTLRCLKYWAQRRGVYSNVTGLLGGVSWALLVARVCQLYPNAV PSMLVSRFFRVFTQWQWPNPVMLCAIENDDNLGFAVWDPRKNPRDRSHVMPIITPAYPCMNSSY NVSTSTLRVIMEQFQFGNKICQEIELNKASWSSLFEPFQFFEAYTRYLVVDIVADDDDDLRLWK GWIESRLRQLTLKDFDISQGSVLCDVDEATVRSLNGCRVADQILRLVPNAEIFRKTLRCLKYWA QRRGVYSNVTGLLGGVSWALLVARVCQLYPNAVPSMLVSRFFRVFTQWQWPNPVMLCAIENDDN LGFAVWDPRKNPRDRSHVMPIITPAYPCMNSSYNVSTSTLRVIMEQFQFGNKICQEIELNKASW SSLFEPFQFFEAYTRYLVVDIVADDDDDLRLWKGWIESRLRQLTLK(+) MSKSFRVSCLNRDSIHPFQSRRSSSSSATMSTTRYLVYASKNWKGSNKELQLALLSSIS*(-)
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 Os02g0227400_circ_g.6

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