Plant Circular RNA Database

Detail information of Os08g0542900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0542900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_037909
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 27165203-27168417  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0542900						
					
						Parent gene annotation
						
							Lupus La protein family protein. (Os08t0542900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0542900_circ_g.2 Os08g0542900_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						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
						Os08t0542900-01:8

General Information
CircRNA Name	Os08g0542900_circ_g.1
ID in PlantcircBase	osa_circ_037909
Alias	NA
Organism	Oryza sativa
Position	chr8: 27165203-27168417 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0542900
Parent gene annotation	Lupus La protein family protein. (Os08t0542900-01)
Parent gene strand	+
Alternative splicing	Os08g0542900_circ_g.2 Os08g0542900_circ_g.3
Support reads	1
Tissues	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	Os08t0542900-01:8

			
						 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  
						
							GGATGCTGCAGACGAAGATGACCCTGAAACAACTGACCATCCACAAGACTACGAAACAGAGGAT
GCTTCCCAGATTTCAGAAGCACATCTTGATCATCAGgtggaattttacttcagtgatgtcaatc
tggctacaacagaacatttgatgaaattcatgattagagatccagagggatttggtgagtcaac
tgttcaat

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							GTGGAATTTTACTTCAGTGATGTCAATCTGGCTACAACAGAACATTTGATGAAATTCATGATTA
GAGATCCAGAGGGATTTGGTGAGTCAACTGTTCAATTTCAAATAGACCGCCTGATTGTGCTTTC
CACCTTCCTATTTTCCTTTTGAAATGAGAACCACCATAATGTTTTAGGGTTATTCTCACTTATA
CCTTAACAAACCTACGACAAAAATCGCTGTCCACCTTCATGTCTATATTTTTCTTTAAATGTTT
GGTGCCAGCGATAATTTCAAATTTGTCATGCAATATATGATGATAAAATTCCTGTGAACTACTG
CACTACGTATTGCTAATTAGGCTATTTTTAATTGTATTCTACTGATATAGATATCTTTAACCTG
GGAATGCATTCTTCCGTATGAATTGATGCACATTGATATTACTGCAGTTATGCATGACTGTTGC
ACCAGCATTGATGTTTGACAATGTTCTGCTGTAAAAAGACTACTGGCACATTTAGAAATGGGCG
AATATTATGTTGAAGCATTCTAATATATTTGCACCTTTTGTTGTACCACTATTGGAATCTGCAT
ATACTTGCTTGATATAACTACTGTTCACCAAACAACAGTTGATACTTTTGAGTTGCATCATATC
ATTAAGTGGTGTACATGAATTTAGCACATGCTTTCCTACACATGATATTTGTTGGCTCATATTT
TCTGATGGCATTGACATGTCTTCTGTTTTCCAGTGCCAATGTCTGTAGTTGCATCTTTTAGGAA
GATCCGGGAGTTAGTTAGTGAGAGATCCGCATTGGCTGCAGTATTGCGGACGTCAGCAGAGCTG
GTAAGCATCTTATTTAGGCCCTGTTTGTTTTAACTTAAGATTATTGTAATCTATATTATTAAAT
CAGATTACTATAAGCTGGATTATAATAAGCTGACATAGAATAAGCTGTGAGCTATTTGTTTCTC
TAGATTATTGGAGGCATCTAAGGGTAGTGGGTCTTTAGCCACCAATAATTTGGAAAATGCTCCT
CCAGAGGAGATTATTAGATTATACTAATCTGGCTTATAAATCATAATTATCTACTTGTTTGTTT
CAGTTTACTCCTAATAATCCAGTTTATAATAATCCTAAGCTGAATCAAATAGGGCCTTAATGAC
TTTTTAATTTTTTTTTCTTTCCGATATGCCTGTTCATCCTATTGTTGACACTTGACACAGCCCA
CCCTTCATTTTAATTAAAGATGCATTATACGTTATGAACCTTTGCTCAGTAAGGAATTATATTT
AGTAAACAAATTATTTTTTTTAATAAGTGCATGAATATAAGCGAATAAACACACACCTTTTCAT
CAATCTGTACCATCCTAATTTAAGATTCAGTTTACCAATCTCATTTTCCTCTCATTCTGAATGG
CTTCTATTATTCTCTACCAAGATCCTAAGACTATAGATCTTCCTATATACAGGTTGTTTCAGAT
GATGGAAAAAGGGTTAGACGTCGAGTGCTCTTTACTGAGGCGGATGCTGAAGAAGTTCAGGTCA
GAATCTAATTAATCAAATAAAATCTATTCATTATATATGTATGGGAACTGAATTTTCTGTTATA
TGTGTACTCAGTCACGCATTGTTGTTGCTGAAAATTTGCGTGAAGAGCACCGCTATCCAAATCT
TATGAAGATTTTCTCAGCTTTTGGGAGGTATGCATCAATGCATGTCTTTGAGCACAAATATATG
CCAAATGTGGTGTTGAACACATGATGTTCTATATTGCAGTGTGAAATCAATTCGTACTTGCTAT
CCACAAGGTGGGATTGATGGTGCTGGAACTTCTACTGGCAAAGCATCAAAGATTGAGATGTTGT
TTGCTAATAAGGTAATGTATCATGGTATATCTAACTTCTAAAGGAACACGGAAAGTTTATTAGT
TATTGCATATACTTGTTCTAGCTCTGTTAATAAATATTTGACACCATACAAGAATGTGTATTCC
AACTTCTTAATACTTGATCACTAATACATTTACTGTTTGGATTGATATGTGCAGATGTTAGCAT
TAGATTTCTCATGGGATAGTTTCACATTATGGTAGCTTCATATATTCTTATTTAGTGTTTTAAA
AAAAAGTTCTACAAGGCTGCTTACAAGGTTGCATACATACAAGGTACAGGTGCCCTAACCTTGT
ACCGTGTAAGCTGCATATGTGGCCGATTACACCACATAAGCCCTACAAGGTGGGGTGACCACAC
GAAACCATGTACTGTTTTTTAAAACATTGCTTACTATTTCATAGATAGAAGTGATGATCAAAAG
TTGCATGTTGGTGACCTTGTCCATGTCCGAAATGTCATACTTGAAAAGAGGGATAAGCAATGAA
ATACTATTTTGGAAGGCATTTCAAGTTTCAACACCAGTACCTTGATTTCGTCCCTCATTTTTTT
TGGCTTTACTTGCAGGTGCATGCTTTTGTGGAGTATGAAACTGTTGAAGATGCTGAAAAGGCAG
TATGTCTTCTTGATTTCTCTAACCATTTGTTTTTTTTTTCTAGGAATTATTTTGAGGTGCTTTG
GTAGTTGCCATCAACACAATTTAAAGGAACTCTGTTTTTCTGTATACAGGTTTCTGAATTCAGT
AGTGGGAGAAGCTGGAGAGATGGGATTAGAGTCCGCTCACTGCTTGGTTGCCTGGTACTTTAAC
GGACCCTACACAATGCAACTTGTTCTCCCTTAACCATGGACTGATTTTTAAAATGCATTTGCGA
TTCACAATTGTCCTTTATGCACTACTTGTGTTTCCTGACTAGATCTTAGTCATTAACATTTATA
TTTCATTAATCGGCAATACTGGGTGGTTTGTTCATTCTTGATTTAGTTACTTCTATATTTAACT
GATGGGTAAACATTAGGTGTAAGCTTGTTTTTGGTCATTTCATCATTTATCAACAGATATAGCT
CCCAGAAAAACATGTTTGACTAGCTTAGTAAGATTTAACATTCCTACATTACTATGCATGTTAT
TTTATTTATTTGTAAAATAGAAGATTCTTAAATCGTTAAACATTTGTTTTCATTAATTGTCATT
AGAAACAAGCCATGGGTCAAGGAAGAAGAGGTGGAGATGAGGTGGATGCTGCAGACGAAGATGA
CCCTGAAACAACTGACCATCCACAAGACTACGAAACAGAGGATGCTTCCCAGATTTCAGAAGCA
CATCTTGATCATCAG
						
					

			
		

Sequences
Splice junction sequence	GGATGCTGCAGACGAAGATGACCCTGAAACAACTGACCATCCACAAGACTACGAAACAGAGGAT GCTTCCCAGATTTCAGAAGCACATCTTGATCATCAGgtggaattttacttcagtgatgtcaatc tggctacaacagaacatttgatgaaattcatgattagagatccagagggatttggtgagtcaac tgttcaat
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GTGGAATTTTACTTCAGTGATGTCAATCTGGCTACAACAGAACATTTGATGAAATTCATGATTA GAGATCCAGAGGGATTTGGTGAGTCAACTGTTCAATTTCAAATAGACCGCCTGATTGTGCTTTC CACCTTCCTATTTTCCTTTTGAAATGAGAACCACCATAATGTTTTAGGGTTATTCTCACTTATA CCTTAACAAACCTACGACAAAAATCGCTGTCCACCTTCATGTCTATATTTTTCTTTAAATGTTT GGTGCCAGCGATAATTTCAAATTTGTCATGCAATATATGATGATAAAATTCCTGTGAACTACTG CACTACGTATTGCTAATTAGGCTATTTTTAATTGTATTCTACTGATATAGATATCTTTAACCTG GGAATGCATTCTTCCGTATGAATTGATGCACATTGATATTACTGCAGTTATGCATGACTGTTGC ACCAGCATTGATGTTTGACAATGTTCTGCTGTAAAAAGACTACTGGCACATTTAGAAATGGGCG AATATTATGTTGAAGCATTCTAATATATTTGCACCTTTTGTTGTACCACTATTGGAATCTGCAT ATACTTGCTTGATATAACTACTGTTCACCAAACAACAGTTGATACTTTTGAGTTGCATCATATC ATTAAGTGGTGTACATGAATTTAGCACATGCTTTCCTACACATGATATTTGTTGGCTCATATTT TCTGATGGCATTGACATGTCTTCTGTTTTCCAGTGCCAATGTCTGTAGTTGCATCTTTTAGGAA GATCCGGGAGTTAGTTAGTGAGAGATCCGCATTGGCTGCAGTATTGCGGACGTCAGCAGAGCTG GTAAGCATCTTATTTAGGCCCTGTTTGTTTTAACTTAAGATTATTGTAATCTATATTATTAAAT CAGATTACTATAAGCTGGATTATAATAAGCTGACATAGAATAAGCTGTGAGCTATTTGTTTCTC TAGATTATTGGAGGCATCTAAGGGTAGTGGGTCTTTAGCCACCAATAATTTGGAAAATGCTCCT CCAGAGGAGATTATTAGATTATACTAATCTGGCTTATAAATCATAATTATCTACTTGTTTGTTT CAGTTTACTCCTAATAATCCAGTTTATAATAATCCTAAGCTGAATCAAATAGGGCCTTAATGAC TTTTTAATTTTTTTTTCTTTCCGATATGCCTGTTCATCCTATTGTTGACACTTGACACAGCCCA CCCTTCATTTTAATTAAAGATGCATTATACGTTATGAACCTTTGCTCAGTAAGGAATTATATTT AGTAAACAAATTATTTTTTTTAATAAGTGCATGAATATAAGCGAATAAACACACACCTTTTCAT CAATCTGTACCATCCTAATTTAAGATTCAGTTTACCAATCTCATTTTCCTCTCATTCTGAATGG CTTCTATTATTCTCTACCAAGATCCTAAGACTATAGATCTTCCTATATACAGGTTGTTTCAGAT GATGGAAAAAGGGTTAGACGTCGAGTGCTCTTTACTGAGGCGGATGCTGAAGAAGTTCAGGTCA GAATCTAATTAATCAAATAAAATCTATTCATTATATATGTATGGGAACTGAATTTTCTGTTATA TGTGTACTCAGTCACGCATTGTTGTTGCTGAAAATTTGCGTGAAGAGCACCGCTATCCAAATCT TATGAAGATTTTCTCAGCTTTTGGGAGGTATGCATCAATGCATGTCTTTGAGCACAAATATATG CCAAATGTGGTGTTGAACACATGATGTTCTATATTGCAGTGTGAAATCAATTCGTACTTGCTAT CCACAAGGTGGGATTGATGGTGCTGGAACTTCTACTGGCAAAGCATCAAAGATTGAGATGTTGT TTGCTAATAAGGTAATGTATCATGGTATATCTAACTTCTAAAGGAACACGGAAAGTTTATTAGT TATTGCATATACTTGTTCTAGCTCTGTTAATAAATATTTGACACCATACAAGAATGTGTATTCC AACTTCTTAATACTTGATCACTAATACATTTACTGTTTGGATTGATATGTGCAGATGTTAGCAT TAGATTTCTCATGGGATAGTTTCACATTATGGTAGCTTCATATATTCTTATTTAGTGTTTTAAA AAAAAGTTCTACAAGGCTGCTTACAAGGTTGCATACATACAAGGTACAGGTGCCCTAACCTTGT ACCGTGTAAGCTGCATATGTGGCCGATTACACCACATAAGCCCTACAAGGTGGGGTGACCACAC GAAACCATGTACTGTTTTTTAAAACATTGCTTACTATTTCATAGATAGAAGTGATGATCAAAAG TTGCATGTTGGTGACCTTGTCCATGTCCGAAATGTCATACTTGAAAAGAGGGATAAGCAATGAA ATACTATTTTGGAAGGCATTTCAAGTTTCAACACCAGTACCTTGATTTCGTCCCTCATTTTTTT TGGCTTTACTTGCAGGTGCATGCTTTTGTGGAGTATGAAACTGTTGAAGATGCTGAAAAGGCAG TATGTCTTCTTGATTTCTCTAACCATTTGTTTTTTTTTTCTAGGAATTATTTTGAGGTGCTTTG GTAGTTGCCATCAACACAATTTAAAGGAACTCTGTTTTTCTGTATACAGGTTTCTGAATTCAGT AGTGGGAGAAGCTGGAGAGATGGGATTAGAGTCCGCTCACTGCTTGGTTGCCTGGTACTTTAAC GGACCCTACACAATGCAACTTGTTCTCCCTTAACCATGGACTGATTTTTAAAATGCATTTGCGA TTCACAATTGTCCTTTATGCACTACTTGTGTTTCCTGACTAGATCTTAGTCATTAACATTTATA TTTCATTAATCGGCAATACTGGGTGGTTTGTTCATTCTTGATTTAGTTACTTCTATATTTAACT GATGGGTAAACATTAGGTGTAAGCTTGTTTTTGGTCATTTCATCATTTATCAACAGATATAGCT CCCAGAAAAACATGTTTGACTAGCTTAGTAAGATTTAACATTCCTACATTACTATGCATGTTAT TTTATTTATTTGTAAAATAGAAGATTCTTAAATCGTTAAACATTTGTTTTCATTAATTGTCATT AGAAACAAGCCATGGGTCAAGGAAGAAGAGGTGGAGATGAGGTGGATGCTGCAGACGAAGATGA CCCTGAAACAACTGACCATCCACAAGACTACGAAACAGAGGATGCTTCCCAGATTTCAGAAGCA CATCTTGATCATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.0967433

Conservation Information
Conserved circRNAs	NA
PMCS	0.0967433

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27165252-27168414(+)
27168312-27165248(+)
27165249-27168396(-)
						
						Potential amino acid sequence
						
							MKFMIRDPEGFVPMSVVASFRKIRELVSERSALAAVLRTSAELVVSDDGKRVRRRVLFTEADAE
EVQSRIVVAENLREEHRYPNLMKIFSAFGSVKSIRTCYPQGGIDGAGTSTGKASKIEMLFANKV
HAFVEYETVEDAEKAVSEFSSGRSWRDGIRVRSLLGCLKQAMGQGRRGGDEVDAADEDDPETTD
HPQDYETEDASQISEAHLDHQVEFYFSDVNLATTEHLMKFMIRDPEGFVPMSVVASFRKIRELV
SERSALAAVLRTSAELVVSDDGKRVRRRVLFTEADAEEVQSRIVVAENLREEHRYPNLMKIFSA
FGSVKSIRTCYPQGGIDGAGTSTGKASKIEMLFANKVHAFVEYETVEDAEKAVSEFSSGRSWRD
GIRVRSLLGCLKQAMGQGRRGGDEVDAADEDDPETTDHPQDYETEDASQISEAHLDHQVEFYFS
DVNLATTEHLMKFMIRDPEGFVPMSVVASFRKIRELVSERSALAAVLRTSAELVVSDDGKRVRR
RVLFTEADAEEVQSRIVVAENLREEHRYPNLMKIFSAFGSVKSIRTCYPQGGIDGAGTSTGKAS
KIEMLFANKVHAFVEYETVEDAEKAVSEFSSGRSWRDGIRVRSLLGCLKQAMGQGRRGGDEVDA
ADEDDPETTDHPQDYETEDASQISEAHLDHQVEFYFSDVNLATTEHLMKFMIRDPEGFVPMSVV
ASFRKIRELVSERSALAAVLRTSAELVVSDDGKRVRRRVLFTEADAEEVQSRIVVAENLREEHR
YPNLMKIFSAFGSVKSIRTCYPQGGIDGAGTSTGKASKIEMLFANKVHAFVEYETVEDAEKAVS
EFSSGRSWRDGIRVRSLLGCLKQAMGQGRRGGDEVDAADEDDPETTDHPQDYETEDASQISEAH
LDHQ(+)
MRWMLQTKMTLKQLTIHKTTKQRMLPRFQKHILIIRWNFTSVMSIWLQQNI*(+)
MFCCSQIDITEVKFHLMIKMCF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27165252-27168414(+) 27168312-27165248(+) 27165249-27168396(-)
Potential amino acid sequence	MKFMIRDPEGFVPMSVVASFRKIRELVSERSALAAVLRTSAELVVSDDGKRVRRRVLFTEADAE EVQSRIVVAENLREEHRYPNLMKIFSAFGSVKSIRTCYPQGGIDGAGTSTGKASKIEMLFANKV HAFVEYETVEDAEKAVSEFSSGRSWRDGIRVRSLLGCLKQAMGQGRRGGDEVDAADEDDPETTD HPQDYETEDASQISEAHLDHQVEFYFSDVNLATTEHLMKFMIRDPEGFVPMSVVASFRKIRELV SERSALAAVLRTSAELVVSDDGKRVRRRVLFTEADAEEVQSRIVVAENLREEHRYPNLMKIFSA FGSVKSIRTCYPQGGIDGAGTSTGKASKIEMLFANKVHAFVEYETVEDAEKAVSEFSSGRSWRD GIRVRSLLGCLKQAMGQGRRGGDEVDAADEDDPETTDHPQDYETEDASQISEAHLDHQVEFYFS DVNLATTEHLMKFMIRDPEGFVPMSVVASFRKIRELVSERSALAAVLRTSAELVVSDDGKRVRR RVLFTEADAEEVQSRIVVAENLREEHRYPNLMKIFSAFGSVKSIRTCYPQGGIDGAGTSTGKAS KIEMLFANKVHAFVEYETVEDAEKAVSEFSSGRSWRDGIRVRSLLGCLKQAMGQGRRGGDEVDA ADEDDPETTDHPQDYETEDASQISEAHLDHQVEFYFSDVNLATTEHLMKFMIRDPEGFVPMSVV ASFRKIRELVSERSALAAVLRTSAELVVSDDGKRVRRRVLFTEADAEEVQSRIVVAENLREEHR YPNLMKIFSAFGSVKSIRTCYPQGGIDGAGTSTGKASKIEMLFANKVHAFVEYETVEDAEKAVS EFSSGRSWRDGIRVRSLLGCLKQAMGQGRRGGDEVDAADEDDPETTDHPQDYETEDASQISEAH LDHQ(+) MRWMLQTKMTLKQLTIHKTTKQRMLPRFQKHILIIRWNFTSVMSIWLQQNI(+) MFCCSQIDITEVKFHLMIKMCF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0542900_circ_g.1

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