Plant Circular RNA Database

Detail information of Os06g0527100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0527100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_031054
					
						Alias
						Os_ciR10409
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 19546033-19548203  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0527100						
					
						Parent gene annotation
						
							Similar to Cyclic nucleotide-gated channel A (Fragment). (Os06t0
527100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0526400_circ_ag.1 Os06g0526400_circ_ag.2 Os06g0526600_circ_g.1 Os06g0526600_circ_g.2 Os06g0526600_circ_g.3 Os06g0526700_circ_g.1 Os06g0526700_circ_ag.1 Os06g0527100_circ_g.2 Os06g0527100_circ_ag.1 Os06g0527100_circ_g.2 Os06g0527100_circ_ag.3 Os06g0527100_circ_ag.4 Os06g0527100_circ_g.5 Os06g0527100_circ_g.6 Os06g0527100_circ_ag.7 Os06g0527100_circ_igg.1 Os06g0527100_circ_g.2 Os06g0527100_circ_igg.3 Os06g0527100_circ_igg.4 Os06g0527300_circ_g.1 						
					
						Support reads
						2/2
					
						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
						Os06t0527100-01:3

General Information
CircRNA Name	Os06g0527100_circ_g.1
ID in PlantcircBase	osa_circ_031054
Alias	Os_ciR10409
Organism	Oryza sativa
Position	chr6: 19546033-19548203 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0527100
Parent gene annotation	Similar to Cyclic nucleotide-gated channel A (Fragment). (Os06t0 527100-01)
Parent gene strand	+
Alternative splicing	Os06g0526400_circ_ag.1 Os06g0526400_circ_ag.2 Os06g0526600_circ_g.1 Os06g0526600_circ_g.2 Os06g0526600_circ_g.3 Os06g0526700_circ_g.1 Os06g0526700_circ_ag.1 Os06g0527100_circ_g.2 Os06g0527100_circ_ag.1 Os06g0527100_circ_g.2 Os06g0527100_circ_ag.3 Os06g0527100_circ_ag.4 Os06g0527100_circ_g.5 Os06g0527100_circ_g.6 Os06g0527100_circ_ag.7 Os06g0527100_circ_igg.1 Os06g0527100_circ_g.2 Os06g0527100_circ_igg.3 Os06g0527100_circ_igg.4 Os06g0527300_circ_g.1
Support reads	2/2
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	Os06t0527100-01:3

			
						 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  
						
							GCCACTGTATCTCCAAATCACAAGGTCTGCTGGGGTAATTACAGAGACACCATGGGCTGGTGCT
GTTTTGAACCTTTTAATTTACTTGCTCGCCAGTCATggaactccatgtatgcaaatgtcgccac
ccttgtagaatcaataaagctgttctagcagctaacctttggtttggtggatttttggaaaatg
atgatggg

									
								

					

						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: 851
Transcript exons: 19546033-19546153,19547038-19547554,19547991-19548203
GGAACTCCATGTATGCAAATGTCGCCACCCTTGTAGAATCAATAAAGCTGTTCTAGCAGCTAAC
CTTTGGTTTGGTGGATTTTTGGAAAATGATGATGGGAAGAGAGGACAAATATGTGAGATTTGAG
GACTGGAGATCTGAGCAGTCAGTTATGTCACCACGGAGGCATAATGCTTTAAGTTCACTTAAAG
AAAGAACTGCTGGAGTTTTTGCATTCCTAGGAAACCTTGTGCATTCTGAAACCTTAAAGAGATT
GGTGCTGCATGAAAGGAAGTTGACAACTAGAACTCTTCATCCTCAGGGACCATTTCTGCAAAGC
TGGAACAAGATATTTGTTTTGTCATGTATCTTTGCAGTTTCTGTGGACCCATTGTTCTTCTATA
TTCCGGTTATCAATGACAACAACACATGCTGGTATTTGGATAAAAAGTTGGAAATCACAGCAAG
TGTCCTGCGCTTTTTCACAGATATCTTCTATATACTCCATATCATATTTCAGTTCAGGACAGGT
TATATTGCGTCTTCTCTTACAACTTTTGGTCGGGGTGTCTTGGTTGAGGATAGATATGCAATAG
CAAAGCGATACTTGTCAACATATTTTCTGATCGATGTCTTTGCTGTTCTACCCCTCCCTCAGGT
GGTTATTTTGGTTGTGCTACCTAATCTTGGAGGCTCAGAGGTTACAAAAGCCAAAAATATCTTG
ATGTTTATAGTTATATGCCAATATGTGCCTCGGCTGATCCGAATAAGGCCACTGTATCTCCAAA
TCACAAGGTCTGCTGGGGTAATTACAGAGACACCATGGGCTGGTGCTGTTTTGAACCTTTTAAT
TTACTTGCTCGCCAGTCAT
						
					

						Genomic sequence
						
							GGAACTCCATGTATGCAAATGTCGCCACCCTTGTAGAATCAATAAAGCTGTTCTAGCAGCTAAC
CTTTGGTTTGGTGGATTTTTGGAAAATGATGATGGGAAGAGAGGACAAATATGTGAGGTCAGTT
TCCTCCATCACCAGTTGTTTGAAATAGTTTACAAAGAATAAAGGCTTGTCAAATGTCTTGTGTC
ATAACTTATAGTAACAAGTTTAGGACATGAAACATGGAGAGGGTTTGGTGATTTCTAAAGAGCA
ATGGTAATTTGGTGGTTCTACACTAGTGTGGTGGATGTGATCCAAGCTGTCAATAATGAGGCCA
CACTTTGGTGTTTGGCGGGAGCTTCGAAACTCCAAAAGCTGTTGTCTAAGGCAGTAGTTCTTGC
ACCCTAGGGAGGTCGGCTTGAGTTTCTTCGGTTTTAGAGTGGGTGTGTGTTGTGTTCTGTAAGA
CTTTCGATGGGTGGGTGTCAGGGTTTGTTTAAATCTTGCATCCCTCGCATTTCTTTCTCTCTTA
ATGAAATGATACGCATATCTCCTGCGTGTTCGAAAAAAAAATCGATGCTTCTACTTTCATCACA
TGATGGTTTTGGACATTTTGGCCTCTGAGAGACCCTGGCATGGATTGACTTGTTGGAACGATTG
TTACTGCTCATTTCCTTGTCTTTTGCAGCATATAAACATGAATGCAATAATTTCTCTCCAATTT
TTCCAAAATAGAAATCTAGCTTCGGTTCAAGATCATCAAGAAGTCTGACATATAAATGTATGGA
AATGACAACACCAGTATCTGATTAAATTTTTGAGTAAATAATGAAGACTGCTGGTAAAAATAAC
GTAGTTGAAGTAAGAGAGAAGAGAGAAGAGAGAAAAAAAGTTTGGGTCTCTAGGGACCTGATCA
ATGAATATTAAAGTCCTGGGACCCATTAAAGTTTTGAGTAAATATTGAAAACAACTACTGAAAA
CTCGATGTAATAATTATTCTGTATTTTTTTTAACCATGTATGCAGATTTGAGGACTGGAGATCT
GAGCAGTCAGTTATGTCACCACGGAGGCATAATGCTTTAAGTTCACTTAAAGAAAGAACTGCTG
GAGTTTTTGCATTCCTAGGAAACCTTGTGCATTCTGAAACCTTAAAGAGATTGGTGCTGCATGA
AAGGAAGTTGACAACTAGAACTCTTCATCCTCAGGGACCATTTCTGCAAAGCTGGAACAAGATA
TTTGTTTTGTCATGTATCTTTGCAGTTTCTGTGGACCCATTGTTCTTCTATATTCCGGTTATCA
ATGACAACAACACATGCTGGTATTTGGATAAAAAGTTGGAAATCACAGCAAGTGTCCTGCGCTT
TTTCACAGATATCTTCTATATACTCCATATCATATTTCAGTTCAGGACAGGTTATATTGCGTCT
TCTCTTACAACTTTTGGTCGGGGTGTCTTGGTTGAGGATAGATATGCAATAGCAAAGCGATACT
TGTCAACATATTTTCTGATCGATGTCTTTGCTGTTCTACCCCTCCCTCAGGTACTCCGCATACC
ATGTACTTAGTTAAGCTCAGTATGGAACTATTTCATAGTATAGTTCACATGATTCTTTAGAATT
ATGATGGTATGTTGGTGATATACATATAAATTATGATTAGTGGATGCACCTTTGATAGTCCCTA
CATGAGAAAAATAATAGATATTCACCTCTTTTATGATTTATAATGATATAATGGAATTCACATA
TTGGTATCATGGGATGATTAGTAAGGATGCACTTTTGGTAGATACCACATCAGAAAAATAAAAG
ATTTTGATTTTACTCTGATACATGCAATTCACATGTTAGAAAAATGGGGTCATATACAAAGAGC
TCTGTCTGTTTCTTCTATGACTTTGCAGTCTTAATAGTGCACTAAGTTATGCGCCTTTGATTTC
TCAGTCAAGCTTGTAAGCATGGTCAATTTTGTTACCAGGTGGTTATTTTGGTTGTGCTACCTAA
TCTTGGAGGCTCAGAGGTTACAAAAGCCAAAAATATCTTGATGTTTATAGTTATATGCCAATAT
GTGCCTCGGCTGATCCGAATAAGGCCACTGTATCTCCAAATCACAAGGTCTGCTGGGGTAATTA
CAGAGACACCATGGGCTGGTGCTGTTTTGAACCTTTTAATTTACTTGCTCGCCAGTCAT
						
					

			
		

Sequences
Splice junction sequence	GCCACTGTATCTCCAAATCACAAGGTCTGCTGGGGTAATTACAGAGACACCATGGGCTGGTGCT GTTTTGAACCTTTTAATTTACTTGCTCGCCAGTCATggaactccatgtatgcaaatgtcgccac ccttgtagaatcaataaagctgttctagcagctaacctttggtttggtggatttttggaaaatg atgatggg
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: 851 Transcript exons: 19546033-19546153,19547038-19547554,19547991-19548203 GGAACTCCATGTATGCAAATGTCGCCACCCTTGTAGAATCAATAAAGCTGTTCTAGCAGCTAAC CTTTGGTTTGGTGGATTTTTGGAAAATGATGATGGGAAGAGAGGACAAATATGTGAGATTTGAG GACTGGAGATCTGAGCAGTCAGTTATGTCACCACGGAGGCATAATGCTTTAAGTTCACTTAAAG AAAGAACTGCTGGAGTTTTTGCATTCCTAGGAAACCTTGTGCATTCTGAAACCTTAAAGAGATT GGTGCTGCATGAAAGGAAGTTGACAACTAGAACTCTTCATCCTCAGGGACCATTTCTGCAAAGC TGGAACAAGATATTTGTTTTGTCATGTATCTTTGCAGTTTCTGTGGACCCATTGTTCTTCTATA TTCCGGTTATCAATGACAACAACACATGCTGGTATTTGGATAAAAAGTTGGAAATCACAGCAAG TGTCCTGCGCTTTTTCACAGATATCTTCTATATACTCCATATCATATTTCAGTTCAGGACAGGT TATATTGCGTCTTCTCTTACAACTTTTGGTCGGGGTGTCTTGGTTGAGGATAGATATGCAATAG CAAAGCGATACTTGTCAACATATTTTCTGATCGATGTCTTTGCTGTTCTACCCCTCCCTCAGGT GGTTATTTTGGTTGTGCTACCTAATCTTGGAGGCTCAGAGGTTACAAAAGCCAAAAATATCTTG ATGTTTATAGTTATATGCCAATATGTGCCTCGGCTGATCCGAATAAGGCCACTGTATCTCCAAA TCACAAGGTCTGCTGGGGTAATTACAGAGACACCATGGGCTGGTGCTGTTTTGAACCTTTTAAT TTACTTGCTCGCCAGTCAT
Genomic sequence	GGAACTCCATGTATGCAAATGTCGCCACCCTTGTAGAATCAATAAAGCTGTTCTAGCAGCTAAC CTTTGGTTTGGTGGATTTTTGGAAAATGATGATGGGAAGAGAGGACAAATATGTGAGGTCAGTT TCCTCCATCACCAGTTGTTTGAAATAGTTTACAAAGAATAAAGGCTTGTCAAATGTCTTGTGTC ATAACTTATAGTAACAAGTTTAGGACATGAAACATGGAGAGGGTTTGGTGATTTCTAAAGAGCA ATGGTAATTTGGTGGTTCTACACTAGTGTGGTGGATGTGATCCAAGCTGTCAATAATGAGGCCA CACTTTGGTGTTTGGCGGGAGCTTCGAAACTCCAAAAGCTGTTGTCTAAGGCAGTAGTTCTTGC ACCCTAGGGAGGTCGGCTTGAGTTTCTTCGGTTTTAGAGTGGGTGTGTGTTGTGTTCTGTAAGA CTTTCGATGGGTGGGTGTCAGGGTTTGTTTAAATCTTGCATCCCTCGCATTTCTTTCTCTCTTA ATGAAATGATACGCATATCTCCTGCGTGTTCGAAAAAAAAATCGATGCTTCTACTTTCATCACA TGATGGTTTTGGACATTTTGGCCTCTGAGAGACCCTGGCATGGATTGACTTGTTGGAACGATTG TTACTGCTCATTTCCTTGTCTTTTGCAGCATATAAACATGAATGCAATAATTTCTCTCCAATTT TTCCAAAATAGAAATCTAGCTTCGGTTCAAGATCATCAAGAAGTCTGACATATAAATGTATGGA AATGACAACACCAGTATCTGATTAAATTTTTGAGTAAATAATGAAGACTGCTGGTAAAAATAAC GTAGTTGAAGTAAGAGAGAAGAGAGAAGAGAGAAAAAAAGTTTGGGTCTCTAGGGACCTGATCA ATGAATATTAAAGTCCTGGGACCCATTAAAGTTTTGAGTAAATATTGAAAACAACTACTGAAAA CTCGATGTAATAATTATTCTGTATTTTTTTTAACCATGTATGCAGATTTGAGGACTGGAGATCT GAGCAGTCAGTTATGTCACCACGGAGGCATAATGCTTTAAGTTCACTTAAAGAAAGAACTGCTG GAGTTTTTGCATTCCTAGGAAACCTTGTGCATTCTGAAACCTTAAAGAGATTGGTGCTGCATGA AAGGAAGTTGACAACTAGAACTCTTCATCCTCAGGGACCATTTCTGCAAAGCTGGAACAAGATA TTTGTTTTGTCATGTATCTTTGCAGTTTCTGTGGACCCATTGTTCTTCTATATTCCGGTTATCA ATGACAACAACACATGCTGGTATTTGGATAAAAAGTTGGAAATCACAGCAAGTGTCCTGCGCTT TTTCACAGATATCTTCTATATACTCCATATCATATTTCAGTTCAGGACAGGTTATATTGCGTCT TCTCTTACAACTTTTGGTCGGGGTGTCTTGGTTGAGGATAGATATGCAATAGCAAAGCGATACT TGTCAACATATTTTCTGATCGATGTCTTTGCTGTTCTACCCCTCCCTCAGGTACTCCGCATACC ATGTACTTAGTTAAGCTCAGTATGGAACTATTTCATAGTATAGTTCACATGATTCTTTAGAATT ATGATGGTATGTTGGTGATATACATATAAATTATGATTAGTGGATGCACCTTTGATAGTCCCTA CATGAGAAAAATAATAGATATTCACCTCTTTTATGATTTATAATGATATAATGGAATTCACATA TTGGTATCATGGGATGATTAGTAAGGATGCACTTTTGGTAGATACCACATCAGAAAAATAAAAG ATTTTGATTTTACTCTGATACATGCAATTCACATGTTAGAAAAATGGGGTCATATACAAAGAGC TCTGTCTGTTTCTTCTATGACTTTGCAGTCTTAATAGTGCACTAAGTTATGCGCCTTTGATTTC TCAGTCAAGCTTGTAAGCATGGTCAATTTTGTTACCAGGTGGTTATTTTGGTTGTGCTACCTAA TCTTGGAGGCTCAGAGGTTACAAAAGCCAAAAATATCTTGATGTTTATAGTTATATGCCAATAT GTGCCTCGGCTGATCCGAATAAGGCCACTGTATCTCCAAATCACAAGGTCTGCTGGGGTAATTA CAGAGACACCATGGGCTGGTGCTGTTTTGAACCTTTTAATTTACTTGCTCGCCAGTCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.241918574

Conservation Information
Conserved circRNAs	NA
PMCS	0.241918574

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19548203-19547040(+)
19548072-19546085(+)
19546123-19546065(+)
19546044-19548144(-)
						
						Potential amino acid sequence
						
							MELHVCKCRHPCRINKAVLAANLWFGGFLENDDGKRGQICEI*(+)
MPICASADPNKATVSPNHKVCWGNYRDTMGWCCFEPFNLLARQSWNSMYANVATLVESIKLF*(
+)
MMMGREDKYVRFEDWRSEQSVMSPRRHNALSSLKERTAGVFAFLGNLVHSETLKRLVLHERKLT
TRTLHPQGPFLQSWNKIFVLSCIFAVSVDPLFFYIPVINDNNTCWYLDKKLEITASVLRFFTDI
FYILHIIFQFRTGYIASSLTTFGRGVLVEDRYAIAKRYLSTYFLIDVFAVLPLPQVVILVVLPN
LGGSEVTKAKNILMFIVICQYVPRLIRIRPLYLQITRSAGVITETPWAGAVLNLLIYLLASHGT
PCMQMSPPL*(+)
MEFHDWRASKLKGSKQHQPMVSL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19548203-19547040(+) 19548072-19546085(+) 19546123-19546065(+) 19546044-19548144(-)
Potential amino acid sequence	MELHVCKCRHPCRINKAVLAANLWFGGFLENDDGKRGQICEI(+) MPICASADPNKATVSPNHKVCWGNYRDTMGWCCFEPFNLLARQSWNSMYANVATLVESIKLF( +) MMMGREDKYVRFEDWRSEQSVMSPRRHNALSSLKERTAGVFAFLGNLVHSETLKRLVLHERKLT TRTLHPQGPFLQSWNKIFVLSCIFAVSVDPLFFYIPVINDNNTCWYLDKKLEITASVLRFFTDI FYILHIIFQFRTGYIASSLTTFGRGVLVEDRYAIAKRYLSTYFLIDVFAVLPLPQVVILVVLPN LGGSEVTKAKNILMFIVICQYVPRLIRIRPLYLQITRSAGVITETPWAGAVLNLLIYLLASHGT PCMQMSPPL(+) MEFHDWRASKLKGSKQHQPMVSL(-)
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 Os06g0527100_circ_g.1

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