Plant Circular RNA Database

Detail information of Os03g0431800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0431800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_020413
					
						Alias
						Os_ciR1170
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 18133893-18142149  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0431800						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os03t0431800-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0431800_circ_igg.1 Os03g0431800_circ_g.1 Os03g0431800_circ_g.2 Os03g0431800_circ_g.4 Os03g0431800_circ_g.5 Os03g0431800_circ_g.6 Os03g0431800_circ_g.7 Os03g0431800_circ_g.8 Os03g0431800_circ_g.9 Os03g0431800_circ_g.10 Os03g0431800_circ_g.11 						
					
						Support reads
						15/2
					
						Tissues
						root/shoot, 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
						Os03t0431800-00:12

General Information
CircRNA Name	Os03g0431800_circ_g.3
ID in PlantcircBase	osa_circ_020413
Alias	Os_ciR1170
Organism	Oryza sativa
Position	chr3: 18133893-18142149 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0431800
Parent gene annotation	Conserved hypothetical protein. (Os03t0431800-00)
Parent gene strand	+
Alternative splicing	Os03g0431800_circ_igg.1 Os03g0431800_circ_g.1 Os03g0431800_circ_g.2 Os03g0431800_circ_g.4 Os03g0431800_circ_g.5 Os03g0431800_circ_g.6 Os03g0431800_circ_g.7 Os03g0431800_circ_g.8 Os03g0431800_circ_g.9 Os03g0431800_circ_g.10 Os03g0431800_circ_g.11
Support reads	15/2
Tissues	root/shoot, 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	Os03t0431800-00:12

			
						 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  
						
							TTACAGGGTTAAAGCTGAAAATGCTGCTCTTTTGGAAAGTGTTGCCACTATGGAACACCTCACT
TCGTCAGTGCATAGACTGCATATTGTGCTTATGAAGaacaaggaactagagaagcaagtaaggt
ttttccaaagcagcgttgctcaagcatttgctgaacgagacaattcgttaatgaaggttttttt
tattgagt

									
								

					

						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: 1317
Transcript exons: 18133893-18133976,18134094-18134155,18134899-18135001,18
136319-18136468,18136901-18136969,18137048-18137104,1813
7174-18137434,18140362-18140430,18140582-18140683,181414
08-18141469,18141583-18141786,18142056-18142149
AACAAGGAACTAGAGAAGCAAGTAAGGTTTTTCCAAAGCAGCGTTGCTCAAGCATTTGCTGAAC
GAGACAATTCGTTAATGAAGTGTGAGAAAGCAAAGGAGCGAGAAGAAGCAATTTTACAAAAGTT
TGCCAAATTCGAGGAAAGGACAAGAGAATATCAATCATCAATTGATGATCAGAAACGGTCAAAC
GATGCCTTACAAATGGAGCTGATGAGGCTTAAAGAGCAGACACAATCTTCCTTGAAAGTTATTC
AAAAATTTTATGATGTTCGTTGTAGAGACTCTGAATGCTCTGTGAACATTACTCTTGAAGAAAA
ATGTTCAGTTCTTCTGGACGATTCTGCTGATAATTGGAGTTTCAGCTCAGATGGAGGAACCTCA
ACTTCGAAGTACATTGCATCTCTAGAAGAAGAGAAAGATTCACTGAGAGCTAAAATAGCTAAGC
TTCAAAACAATCTAAGAATGGGCCTTGAAATTGAGCAACATTTGCAAAGAAATGCACGAGTATT
AGAGAAAAGACAGGCACTCTATGATGAGTTTATGAGAAATGGCCTTTCAACTCTTCAAAAGTTG
CATATACAACAAAGGGATGACATTATGAAAATATTGGAAGAAGAATCATCTCAGTTGAGCACTG
TTGTTAATGAGATTCAAGATAAGTTAAGTAAAATTCGTATCAACCCTGAAATCAATGAAAACCC
TGTTGGAGAGATGCAATGCTGTGACAGCAGTTGTAAAGATGTACATGTTACTACAGATGTCAGC
CCTGGCATCAGCCCTAAGGGGGACATTCCTTCTGATTGTGCAACATTTGGTGAATCGGATGTGC
TTGTGCAAGCTTTGCATGAGAAGATGGAGGCACTTATGCTCTTCTCACAGGAACAAGAAAGATA
CCTATTGGAGAAGCAGAGAAACCAAATTGTCATCGAGGAACTTCAGAAGAACTTATCTCAAGTA
AAAGAGGAAAAGGTTAAAATCTTGGTAGAATTAGCAAAACTTAAAGAAGAATATCTGATAAATT
CAACACCAAAGGATGGTCATGGGGCTGTTGATAATATGAAAATCATTCCTGCACATGATCGACA
AGGGATGTTTAAAACTATCATGAATAGAACATCTCTAAGACATTGGATAAAAAAAGAAAACACT
AATATTGGGCATGAGTGCTCTGATGAAAACGTTCATACAGTCAGGAAACATCACTCAGAGGATC
TTGCAAGGGTTAAAGCTGAAAATGCTGCTCTTTTGGAAAGTGTTGCCACTATGGAACACCTCAC
TTCGTCAGTGCATAGACTGCATATTGTGCTTATGAAG
Transcript length: 150
Transcript exons: 18133893-18133957,18142065-18142149
AACAAGGAACTAGAGAAGCAAGTAAGGTTTTTCCAAAGCAGCGTTGCTCAAGCATTTGCTGAAC
GTGAAAATGCTGCTCTTTTGGAAAGTGTTGCCACTATGGAACACCTCACTTCGTCAGTGCATAG
ACTGCATATTGTGCTTATGAAG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	TTACAGGGTTAAAGCTGAAAATGCTGCTCTTTTGGAAAGTGTTGCCACTATGGAACACCTCACT TCGTCAGTGCATAGACTGCATATTGTGCTTATGAAGaacaaggaactagagaagcaagtaaggt ttttccaaagcagcgttgctcaagcatttgctgaacgagacaattcgttaatgaaggttttttt tattgagt
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: 1317 Transcript exons: 18133893-18133976,18134094-18134155,18134899-18135001,18 136319-18136468,18136901-18136969,18137048-18137104,1813 7174-18137434,18140362-18140430,18140582-18140683,181414 08-18141469,18141583-18141786,18142056-18142149 AACAAGGAACTAGAGAAGCAAGTAAGGTTTTTCCAAAGCAGCGTTGCTCAAGCATTTGCTGAAC GAGACAATTCGTTAATGAAGTGTGAGAAAGCAAAGGAGCGAGAAGAAGCAATTTTACAAAAGTT TGCCAAATTCGAGGAAAGGACAAGAGAATATCAATCATCAATTGATGATCAGAAACGGTCAAAC GATGCCTTACAAATGGAGCTGATGAGGCTTAAAGAGCAGACACAATCTTCCTTGAAAGTTATTC AAAAATTTTATGATGTTCGTTGTAGAGACTCTGAATGCTCTGTGAACATTACTCTTGAAGAAAA ATGTTCAGTTCTTCTGGACGATTCTGCTGATAATTGGAGTTTCAGCTCAGATGGAGGAACCTCA ACTTCGAAGTACATTGCATCTCTAGAAGAAGAGAAAGATTCACTGAGAGCTAAAATAGCTAAGC TTCAAAACAATCTAAGAATGGGCCTTGAAATTGAGCAACATTTGCAAAGAAATGCACGAGTATT AGAGAAAAGACAGGCACTCTATGATGAGTTTATGAGAAATGGCCTTTCAACTCTTCAAAAGTTG CATATACAACAAAGGGATGACATTATGAAAATATTGGAAGAAGAATCATCTCAGTTGAGCACTG TTGTTAATGAGATTCAAGATAAGTTAAGTAAAATTCGTATCAACCCTGAAATCAATGAAAACCC TGTTGGAGAGATGCAATGCTGTGACAGCAGTTGTAAAGATGTACATGTTACTACAGATGTCAGC CCTGGCATCAGCCCTAAGGGGGACATTCCTTCTGATTGTGCAACATTTGGTGAATCGGATGTGC TTGTGCAAGCTTTGCATGAGAAGATGGAGGCACTTATGCTCTTCTCACAGGAACAAGAAAGATA CCTATTGGAGAAGCAGAGAAACCAAATTGTCATCGAGGAACTTCAGAAGAACTTATCTCAAGTA AAAGAGGAAAAGGTTAAAATCTTGGTAGAATTAGCAAAACTTAAAGAAGAATATCTGATAAATT CAACACCAAAGGATGGTCATGGGGCTGTTGATAATATGAAAATCATTCCTGCACATGATCGACA AGGGATGTTTAAAACTATCATGAATAGAACATCTCTAAGACATTGGATAAAAAAAGAAAACACT AATATTGGGCATGAGTGCTCTGATGAAAACGTTCATACAGTCAGGAAACATCACTCAGAGGATC TTGCAAGGGTTAAAGCTGAAAATGCTGCTCTTTTGGAAAGTGTTGCCACTATGGAACACCTCAC TTCGTCAGTGCATAGACTGCATATTGTGCTTATGAAG Transcript length: 150 Transcript exons: 18133893-18133957,18142065-18142149 AACAAGGAACTAGAGAAGCAAGTAAGGTTTTTCCAAAGCAGCGTTGCTCAAGCATTTGCTGAAC GTGAAAATGCTGCTCTTTTGGAAAGTGTTGCCACTATGGAACACCTCACTTCGTCAGTGCATAG ACTGCATATTGTGCTTATGAAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004901* osi_circ_013183 						
					
						PMCS
						0.310749283

Conservation Information
Conserved circRNAs	osi_circ_004901* osi_circ_013183
PMCS	0.310749283

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							18133972-18142146(+)
18134920-18142144(-)
						
					

						Potential amino acid sequence
						
							MKCEKAKEREEAILQKFAKFEERTREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYD
VRCRDSECSVNITLEEKCSVLLDDSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNL
RMGLEIEQHLQRNARVLEKRQALYDEFMRNGLSTLQKLHIQQRDDIMKILEEESSQLSTVVNEI
QDKLSKIRINPEINENPVGEMQCCDSSCKDVHVTTDVSPGISPKGDIPSDCATFGESDVLVQAL
HEKMEALMLFSQEQERYLLEKQRNQIVIEELQKNLSQVKEEKVKILVELAKLKEEYLINSTPKD
GHGAVDNMKIIPAHDRQGMFKTIMNRTSLRHWIKKENTNIGHECSDENVHTVRKHHSEDLARVK
AENAALLESVATMEHLTSSVHRLHIVLMKNKELEKQVRFFQSSVAQAFAERDNSLMKCEKAKER
EEAILQKFAKFEERTREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCRDSECS
VNITLEEKCSVLLDDSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGLEIEQH
LQRNARVLEKRQALYDEFMRNGLSTLQKLHIQQRDDIMKILEEESSQLSTVVNEIQDKLSKIRI
NPEINENPVGEMQCCDSSCKDVHVTTDVSPGISPKGDIPSDCATFGESDVLVQALHEKMEALML
FSQEQERYLLEKQRNQIVIEELQKNLSQVKEEKVKILVELAKLKEEYLINSTPKDGHGAVDNMK
IIPAHDRQGMFKTIMNRTSLRHWIKKENTNIGHECSDENVHTVRKHHSEDLARVKAENAALLES
VATMEHLTSSVHRLHIVLMKNKELEKQVRFFQSSVAQAFAERDNSLMKCEKAKEREEAILQKFA
KFEERTREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCRDSECSVNITLEEKC
SVLLDDSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLE
KRQALYDEFMRNGLSTLQKLHIQQRDDIMKILEEESSQLSTVVNEIQDKLSKIRINPEINENPV
GEMQCCDSSCKDVHVTTDVSPGISPKGDIPSDCATFGESDVLVQALHEKMEALMLFSQEQERYL
LEKQRNQIVIEELQKNLSQVKEEKVKILVELAKLKEEYLINSTPKDGHGAVDNMKIIPAHDRQG
MFKTIMNRTSLRHWIKKENTNIGHECSDENVHTVRKHHSEDLARVKAENAALLESVATMEHLTS
SVHRLHIVLMKNKELEKQVRFFQSSVAQAFAERDNSLMKCEKAKEREEAILQKFAKFEERTREY
QSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCRDSECSVNITLEEKCSVLLDDSAD
NWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLEKRQALYDEF
MRNGLSTLQKLHIQQRDDIMKILEEESSQLSTVVNEIQDKLSKIRINPEINENPVGEMQCCDSS
CKDVHVTTDVSPGISPKGDIPSDCATFGESDVLVQALHEKMEALMLFSQEQERYLLEKQRNQIV
IEELQKNLSQVKEEKVKILVELAKLKEEYLINSTPKDGHGAVDNMKIIPAHDRQGMFKTIMNRT
SLRHWIKKENTNIGHECSDENVHTVRKHHSEDLARVKAENAALLESVATMEHLTSSVHRLHIVL
MK(+)
MIDILLSFPRIWQTFVKLLLLAPLLSHTSLTNCLVQQMLEQRCFGKTLLASLVPCSS*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	18133972-18142146(+) 18134920-18142144(-)
Potential amino acid sequence	MKCEKAKEREEAILQKFAKFEERTREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYD VRCRDSECSVNITLEEKCSVLLDDSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNL RMGLEIEQHLQRNARVLEKRQALYDEFMRNGLSTLQKLHIQQRDDIMKILEEESSQLSTVVNEI QDKLSKIRINPEINENPVGEMQCCDSSCKDVHVTTDVSPGISPKGDIPSDCATFGESDVLVQAL HEKMEALMLFSQEQERYLLEKQRNQIVIEELQKNLSQVKEEKVKILVELAKLKEEYLINSTPKD GHGAVDNMKIIPAHDRQGMFKTIMNRTSLRHWIKKENTNIGHECSDENVHTVRKHHSEDLARVK AENAALLESVATMEHLTSSVHRLHIVLMKNKELEKQVRFFQSSVAQAFAERDNSLMKCEKAKER EEAILQKFAKFEERTREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCRDSECS VNITLEEKCSVLLDDSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGLEIEQH LQRNARVLEKRQALYDEFMRNGLSTLQKLHIQQRDDIMKILEEESSQLSTVVNEIQDKLSKIRI NPEINENPVGEMQCCDSSCKDVHVTTDVSPGISPKGDIPSDCATFGESDVLVQALHEKMEALML FSQEQERYLLEKQRNQIVIEELQKNLSQVKEEKVKILVELAKLKEEYLINSTPKDGHGAVDNMK IIPAHDRQGMFKTIMNRTSLRHWIKKENTNIGHECSDENVHTVRKHHSEDLARVKAENAALLES VATMEHLTSSVHRLHIVLMKNKELEKQVRFFQSSVAQAFAERDNSLMKCEKAKEREEAILQKFA KFEERTREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCRDSECSVNITLEEKC SVLLDDSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLE KRQALYDEFMRNGLSTLQKLHIQQRDDIMKILEEESSQLSTVVNEIQDKLSKIRINPEINENPV GEMQCCDSSCKDVHVTTDVSPGISPKGDIPSDCATFGESDVLVQALHEKMEALMLFSQEQERYL LEKQRNQIVIEELQKNLSQVKEEKVKILVELAKLKEEYLINSTPKDGHGAVDNMKIIPAHDRQG MFKTIMNRTSLRHWIKKENTNIGHECSDENVHTVRKHHSEDLARVKAENAALLESVATMEHLTS SVHRLHIVLMKNKELEKQVRFFQSSVAQAFAERDNSLMKCEKAKEREEAILQKFAKFEERTREY QSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCRDSECSVNITLEEKCSVLLDDSAD NWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLEKRQALYDEF MRNGLSTLQKLHIQQRDDIMKILEEESSQLSTVVNEIQDKLSKIRINPEINENPVGEMQCCDSS CKDVHVTTDVSPGISPKGDIPSDCATFGESDVLVQALHEKMEALMLFSQEQERYLLEKQRNQIV IEELQKNLSQVKEEKVKILVELAKLKEEYLINSTPKDGHGAVDNMKIIPAHDRQGMFKTIMNRT SLRHWIKKENTNIGHECSDENVHTVRKHHSEDLARVKAENAALLESVATMEHLTSSVHRLHIVL MK(+) MIDILLSFPRIWQTFVKLLLLAPLLSHTSLTNCLVQQMLEQRCFGKTLLASLVPCSS*(-)
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 Os03g0431800_circ_g.3

Address

Any questions?

Supported by