Plant Circular RNA Database

Detail information of Os10g0569300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os10g0569300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_008088
					
						Alias
						Os_ciR2805
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 22571072-22572534  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0569300						
					
						Parent gene annotation
						
							Protein of unknown function DUF248, methyltransferase putative f
amily protein. (Os10t0569300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0569300_circ_g.2 Os10g0569300_circ_g.3 						
					
						Support reads
						4/2
					
						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
						Os10t0569300-01:4

General Information
CircRNA Name	Os10g0569300_circ_g.1
ID in PlantcircBase	osa_circ_008088
Alias	Os_ciR2805
Organism	Oryza sativa
Position	chr10: 22571072-22572534 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0569300
Parent gene annotation	Protein of unknown function DUF248, methyltransferase putative f amily protein. (Os10t0569300-01)
Parent gene strand	+
Alternative splicing	Os10g0569300_circ_g.2 Os10g0569300_circ_g.3
Support reads	4/2
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	Os10t0569300-01:4

			
						 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  
						
							TCTGACATTGCATTGTTGTCAGGTGTGAAGCCTTCTCTACATATCCTAGGACATACGACTTGAT
ACATGCCAATGGTCTCTTCAGCTTATACCAGAATAAgttgccagctggggtgcttacctaatgg
acagaaatgtattaaccatgtcatttgcacctcgagactcacatgaagctcaggttcaatttgc
attggagc

									
								

					

						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: 947
Transcript exons: 22571072-22571282,22571370-22571661,22571994-22572359,22
572457-22572534
GTTGCCAGCTGGGGTGCTTACCTAATGGACAGAAATGTATTAACCATGTCATTTGCACCTCGAG
ACTCACATGAAGCTCAGGTTCAATTTGCATTGGAGCGAGGTGTTCCTGCAGTAATTGGAGTGCT
TGGAACTATAAAACTACCATACCCCTCTGGATCTTTTGATATGGCCCATTGCTCACGCTGCTTA
ATCTCCTGGAAGTCAAATGATGCGATGTACATGTTTGAAGTAGATCGGGTTCTGAGGCCTGGTG
GCTATTGGATATTGTCTGGTCCTCCCATCAATTGGAAGACAAATCACCAAGCATGGAAAAGATC
CAAGGAAGACTTAGAGGCAGAACAAAATGTAATCGAAAAAATTGCTGAAATGTTGTGCTGGGGT
AAGATTCATGAGAAGGGAGATACTGTTATTTGGCGCAAAAAGGCAGATTCAAATGAATGTCATA
ATAAGGATGACCATCCTAGCAAGATGTGCAAAATTCAAGATGCAGATGATGTCTGGTATAAGAA
AATGGAAGGTTGTATAACACCTTTCCCGGAAGAAGCACAGCTACGGAAATTCCCAGAGAGACTA
TTTGCTGCCCCTCCCAGAATTCTACAGGGTCGCACCCCAGGTGTTACAGAAGAAATTTTTGAGG
AGGATAATAAGTTGTGGAAGAAGTATGTCAGTACTTACAAGAGGATAAACAAGCTGATAGGTTC
TTTGAGGTATAGGAATATTATGGACATGAACGCAGGGCTTGGAAGTTTTGCGGCAATTATTGAT
TCTCCAATATCTTGGGTAATGAATGTTGTGCCCACAATATCTGAGAAGAACACTCTTGGTATCA
TTTACGAGCGAGGTCTTATTGGCATATACCATGATTGGTGTGAAGCCTTCTCTACATATCCTAG
GACATACGACTTGATACATGCCAATGGTCTCTTCAGCTTATACCAGAATAA
						
					

						Genomic sequence
						
							GTTGCCAGCTGGGGTGCTTACCTAATGGACAGAAATGTATTAACCATGTCATTTGCACCTCGAG
ACTCACATGAAGCTCAGGTTCAATTTGCATTGGAGCGAGGTGTTCCTGCAGTAATTGGAGTGCT
TGGAACTATAAAACTACCATACCCCTCTGGATCTTTTGATATGGCCCATTGCTCACGCTGCTTA
ATCTCCTGGAAGTCAAATGGTTAGTAGTGTCAACTGTGCATACAAAATGTAGTGCCTCTATCAG
CTGTTCTTTTTTGCATATGCTATATTATTTCGCTTCATGCAGATGCGATGTACATGTTTGAAGT
AGATCGGGTTCTGAGGCCTGGTGGCTATTGGATATTGTCTGGTCCTCCCATCAATTGGAAGACA
AATCACCAAGCATGGAAAAGATCCAAGGAAGACTTAGAGGCAGAACAAAATGTAATCGAAAAAA
TTGCTGAAATGTTGTGCTGGGGTAAGATTCATGAGAAGGGAGATACTGTTATTTGGCGCAAAAA
GGCAGATTCAAATGAATGTCATAATAAGGATGACCATCCTAGCAAGATGTGCAAAATTCAAGAT
GCAGATGATGTCTGGTGTGTTCTCTATGTATCTAGTTCTACTATATGCGTGCTGTTAACCTCTA
ACATGCCATATCAACTCGACTAAGTTATAATCGCCATAATTCCAAAATCCTTGTTATACAAGAA
AAACAGCTAGCTTTTTCATATACCACTAGATTATAGGATTTGTAGGTGATTGCCCTTACTCCTT
GTCAGGGGCAACTTATTACAGTGATCGCTGCTGATATATGCAAATGCTCTCTTAATGGTGGAAT
CAAGAATAGATGCTTATCTGAAGATTTCTATTTCTGACAGTATTTATATGTTGTTTCATTAATG
ATTTTTTATATGGTTTATTGTTATAGGTATAAGAAAATGGAAGGTTGTATAACACCTTTCCCGG
AAGAAGCACAGCTACGGAAATTCCCAGAGAGACTATTTGCTGCCCCTCCCAGAATTCTACAGGG
TCGCACCCCAGGTGTTACAGAAGAAATTTTTGAGGAGGATAATAAGTTGTGGAAGAAGTATGTC
AGTACTTACAAGAGGATAAACAAGCTGATAGGTTCTTTGAGGTATAGGAATATTATGGACATGA
ACGCAGGGCTTGGAAGTTTTGCGGCAATTATTGATTCTCCAATATCTTGGGTAATGAATGTTGT
GCCCACAATATCTGAGAAGAACACTCTTGGTATCATTTACGAGCGAGGTCTTATTGGCATATAC
CATGATTGGTAAGTCTTTAAGCTAGATGTCCTGGCACTTGGTTTAAAAAGGGATGCCAATGTGT
TGAAACTGTTCCTGGTTACTCTGACATTGCATTGTTGTCAGGTGTGAAGCCTTCTCTACATATC
CTAGGACATACGACTTGATACATGCCAATGGTCTCTTCAGCTTATACCAGAATAA
						
					

			
		

Sequences
Splice junction sequence	TCTGACATTGCATTGTTGTCAGGTGTGAAGCCTTCTCTACATATCCTAGGACATACGACTTGAT ACATGCCAATGGTCTCTTCAGCTTATACCAGAATAAgttgccagctggggtgcttacctaatgg acagaaatgtattaaccatgtcatttgcacctcgagactcacatgaagctcaggttcaatttgc attggagc
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: 947 Transcript exons: 22571072-22571282,22571370-22571661,22571994-22572359,22 572457-22572534 GTTGCCAGCTGGGGTGCTTACCTAATGGACAGAAATGTATTAACCATGTCATTTGCACCTCGAG ACTCACATGAAGCTCAGGTTCAATTTGCATTGGAGCGAGGTGTTCCTGCAGTAATTGGAGTGCT TGGAACTATAAAACTACCATACCCCTCTGGATCTTTTGATATGGCCCATTGCTCACGCTGCTTA ATCTCCTGGAAGTCAAATGATGCGATGTACATGTTTGAAGTAGATCGGGTTCTGAGGCCTGGTG GCTATTGGATATTGTCTGGTCCTCCCATCAATTGGAAGACAAATCACCAAGCATGGAAAAGATC CAAGGAAGACTTAGAGGCAGAACAAAATGTAATCGAAAAAATTGCTGAAATGTTGTGCTGGGGT AAGATTCATGAGAAGGGAGATACTGTTATTTGGCGCAAAAAGGCAGATTCAAATGAATGTCATA ATAAGGATGACCATCCTAGCAAGATGTGCAAAATTCAAGATGCAGATGATGTCTGGTATAAGAA AATGGAAGGTTGTATAACACCTTTCCCGGAAGAAGCACAGCTACGGAAATTCCCAGAGAGACTA TTTGCTGCCCCTCCCAGAATTCTACAGGGTCGCACCCCAGGTGTTACAGAAGAAATTTTTGAGG AGGATAATAAGTTGTGGAAGAAGTATGTCAGTACTTACAAGAGGATAAACAAGCTGATAGGTTC TTTGAGGTATAGGAATATTATGGACATGAACGCAGGGCTTGGAAGTTTTGCGGCAATTATTGAT TCTCCAATATCTTGGGTAATGAATGTTGTGCCCACAATATCTGAGAAGAACACTCTTGGTATCA TTTACGAGCGAGGTCTTATTGGCATATACCATGATTGGTGTGAAGCCTTCTCTACATATCCTAG GACATACGACTTGATACATGCCAATGGTCTCTTCAGCTTATACCAGAATAA
Genomic sequence	GTTGCCAGCTGGGGTGCTTACCTAATGGACAGAAATGTATTAACCATGTCATTTGCACCTCGAG ACTCACATGAAGCTCAGGTTCAATTTGCATTGGAGCGAGGTGTTCCTGCAGTAATTGGAGTGCT TGGAACTATAAAACTACCATACCCCTCTGGATCTTTTGATATGGCCCATTGCTCACGCTGCTTA ATCTCCTGGAAGTCAAATGGTTAGTAGTGTCAACTGTGCATACAAAATGTAGTGCCTCTATCAG CTGTTCTTTTTTGCATATGCTATATTATTTCGCTTCATGCAGATGCGATGTACATGTTTGAAGT AGATCGGGTTCTGAGGCCTGGTGGCTATTGGATATTGTCTGGTCCTCCCATCAATTGGAAGACA AATCACCAAGCATGGAAAAGATCCAAGGAAGACTTAGAGGCAGAACAAAATGTAATCGAAAAAA TTGCTGAAATGTTGTGCTGGGGTAAGATTCATGAGAAGGGAGATACTGTTATTTGGCGCAAAAA GGCAGATTCAAATGAATGTCATAATAAGGATGACCATCCTAGCAAGATGTGCAAAATTCAAGAT GCAGATGATGTCTGGTGTGTTCTCTATGTATCTAGTTCTACTATATGCGTGCTGTTAACCTCTA ACATGCCATATCAACTCGACTAAGTTATAATCGCCATAATTCCAAAATCCTTGTTATACAAGAA AAACAGCTAGCTTTTTCATATACCACTAGATTATAGGATTTGTAGGTGATTGCCCTTACTCCTT GTCAGGGGCAACTTATTACAGTGATCGCTGCTGATATATGCAAATGCTCTCTTAATGGTGGAAT CAAGAATAGATGCTTATCTGAAGATTTCTATTTCTGACAGTATTTATATGTTGTTTCATTAATG ATTTTTTATATGGTTTATTGTTATAGGTATAAGAAAATGGAAGGTTGTATAACACCTTTCCCGG AAGAAGCACAGCTACGGAAATTCCCAGAGAGACTATTTGCTGCCCCTCCCAGAATTCTACAGGG TCGCACCCCAGGTGTTACAGAAGAAATTTTTGAGGAGGATAATAAGTTGTGGAAGAAGTATGTC AGTACTTACAAGAGGATAAACAAGCTGATAGGTTCTTTGAGGTATAGGAATATTATGGACATGA ACGCAGGGCTTGGAAGTTTTGCGGCAATTATTGATTCTCCAATATCTTGGGTAATGAATGTTGT GCCCACAATATCTGAGAAGAACACTCTTGGTATCATTTACGAGCGAGGTCTTATTGGCATATAC CATGATTGGTAAGTCTTTAAGCTAGATGTCCTGGCACTTGGTTTAAAAAGGGATGCCAATGTGT TGAAACTGTTCCTGGTTACTCTGACATTGCATTGTTGTCAGGTGTGAAGCCTTCTCTACATATC CTAGGACATACGACTTGATACATGCCAATGGTCTCTTCAGCTTATACCAGAATAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.307559438

Conservation Information
Conserved circRNAs	NA
PMCS	0.307559438

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22571097-22571093(+)
22572502-22571142(+)
22571167-22572523(-)
						
						Potential amino acid sequence
						
							MDRNVLTMSFAPRDSHEAQVQFALERGVPAVIGVLGTIKLPYPSGSFDMAHCSRCLISWKSNDA
MYMFEVDRVLRPGGYWILSGPPINWKTNHQAWKRSKEDLEAEQNVIEKIAEMLCWGKIHEKGDT
VIWRKKADSNECHNKDDHPSKMCKIQDADDVWYKKMEGCITPFPEEAQLRKFPERLFAAPPRIL
QGRTPGVTEEIFEEDNKLWKKYVSTYKRINKLIGSLRYRNIMDMNAGLGSFAAIIDSPISWVMN
VVPTISEKNTLGIIYERGLIGIYHDWCEAFSTYPRTYDLIHANGLFSLYQNKLPAGVLT*(+)
MPMVSSAYTRISCQLGCLPNGQKCINHVICTSRLT*(+)
MQIEPELHVSLEVQMTWLIHFCPLGKHPSWQLILV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22571097-22571093(+) 22572502-22571142(+) 22571167-22572523(-)
Potential amino acid sequence	MDRNVLTMSFAPRDSHEAQVQFALERGVPAVIGVLGTIKLPYPSGSFDMAHCSRCLISWKSNDA MYMFEVDRVLRPGGYWILSGPPINWKTNHQAWKRSKEDLEAEQNVIEKIAEMLCWGKIHEKGDT VIWRKKADSNECHNKDDHPSKMCKIQDADDVWYKKMEGCITPFPEEAQLRKFPERLFAAPPRIL QGRTPGVTEEIFEEDNKLWKKYVSTYKRINKLIGSLRYRNIMDMNAGLGSFAAIIDSPISWVMN VVPTISEKNTLGIIYERGLIGIYHDWCEAFSTYPRTYDLIHANGLFSLYQNKLPAGVLT(+) MPMVSSAYTRISCQLGCLPNGQKCINHVICTSRLT(+) MQIEPELHVSLEVQMTWLIHFCPLGKHPSWQLILV*(-)
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 Os10g0569300_circ_g.1

Address

Any questions?

Supported by