Plant Circular RNA Database

Detail information of Os07g0675000_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0675000_circ_g.3
					
						ID in PlantcircBase
						osa_circ_035289
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 28554763-28557200  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0675000						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os07t0675000-01);Protein kinase-l
ike domain containing protein. (Os07t0675000-02);Similar to IBR3
 (IBA-RESPONSE 3); acyl-CoA dehydrogenase/ oxidoreductase. (Os07
t0675000-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0675000_circ_g.4 Os07g0675000_circ_g.5 Os07g0675000_circ_g.6 						
					
						Support reads
						3
					
						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
						Os07t0675000-01:6
Os07t0675000-03:2
Os07t0675000-02:7

General Information
CircRNA Name	Os07g0675000_circ_g.3
ID in PlantcircBase	osa_circ_035289
Alias	NA
Organism	Oryza sativa
Position	chr7: 28554763-28557200 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0675000
Parent gene annotation	Similar to predicted protein. (Os07t0675000-01);Protein kinase-l ike domain containing protein. (Os07t0675000-02);Similar to IBR3 (IBA-RESPONSE 3); acyl-CoA dehydrogenase/ oxidoreductase. (Os07 t0675000-03)
Parent gene strand	+
Alternative splicing	Os07g0675000_circ_g.4 Os07g0675000_circ_g.5 Os07g0675000_circ_g.6
Support reads	3
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	Os07t0675000-01:6 Os07t0675000-03:2 Os07t0675000-02:7

			
						 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  
						
							CACAAATCTTGAATATGGATATCTATGTGAGATTATGGGCCGTTCAATTTGGGCTCCACAAATA
TTTAACTGTGGTCCACCTGATACAGGCAACATGGAGgtagaaagatgggggaggcaatatctct
cttccactggtgaagggaagcctgctcgttaccagaagatgcttgatctagctcattggttgaa
agaacata

									
								

					

						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
						
							GTAGAAAGATGGGGGAGGCAATATCTCTCTTCCACTGGTGAAGGGAAGCCTGCTCGTTACCAGA
AGATGCTTGATCTAGCTCATTGGTTGAAAGAACATATACCAAAAGAAGATTCATCGGCAGGATT
TGGAACAGGTCTTGTTCATGGTGATTACCGTGTTGATAATCTTGTTTTTCATCCAACAGAGGTT
TGCATCTTTTTTGGCATCATAAGTATTTATGCATTTCATCAAAAACAAGTATTTATGCAATCTT
CTAATGCATCACGGGCATATTACTAGTTGTTTAAGTTCTTCAACATACCACTTCTCATGCAGGA
CCGAGTTATTGGTGTACTTGATTGGGAACTATCTACTTTGGGTAATCAAATGTGTGATGTTGCA
TACAGCTCTTTGGTATGAAGCACTTTATATTTTTAAAATATTGTTATGCATCCTTTTTATGTTG
TGTTTTTGTGCTGTTATTAGACAGTCTTAACTCTTGAAAGAAACATTAAGGAATGATATGTCTT
AACTGAATTTAGTTATATAGTATATATAAATGAGGAGTATACATAGTAATTTCTTTTAGTCACT
CTAATACTTTGATAGCATTTGTATTTAATTCCAGAGATCTTGACATTTTTTCTGGCCATAGTTG
GTAACAACCAGAGAAATATGTGCATACATACCCCAATTAGAAACAAAGCTGGCATGCATATTAA
TTTTTCAATTGATTTAGTGTAATATTTCTTGCATGATAGACTTACATTTGATATGGAATCAGCT
TGCAGCATGTCAATATGTTTACAAAGCAACTATATCTGCTAGCACTGAGTACATATCTTTGGAA
TTTTGGATTTGCTATTATCTCAACATGCTATATTTGCTACTCCACTATCAATGTCCCTACTTTC
TAACCACACCTTGTACCAATAACTAATCAATTATGTCTGATAGCACTTAAATTGATTCGTAGTA
CTAGGATGTGTCCCATCCATCCAAAATCCCTTATATTTTGGGACGGACGGAGTATGTTTTACTA
TGTGTTCAATGGTATTATTAATCACTTTGATCTTGATTATTATGATTTGTACGTGCAGCCGTAT
ATTATTGATGCAACAACTAGTACAGGTTATTCTTATGGTGGATTTGAATATACTGGCATTCCAG
ATGGCATTCCCCCACTGGAAGAGTACCTCGCTGCATACTGCTCTATCTCTGTAAGAATCACGTC
TCCTACATCTTGGTCTACAAGTTATTCTTATGGTGGAGTTGAACAACATCTTGATACTGGCTGA
ATATATACACCAAACTTATTGCTTCTTTATTCCTCATTAATCATTATATTCTTTAAAATTGTTT
CTCAGGCAAGACCCTGGCCGGCTGCAAGTTGGAAGTTTTATGTTGCCTTTTCGCTTTTTCGAGG
GGCATCTATATATGCAGGAGTATATCACAGATGGACTATGGTACTTATCTGTAACCCTTGAAAT
CTAATTCTGCTTATATATTCTAATTTATTTGAGCTGTCACACAGGGTAATGCTTCAGGTGGTGA
GCGTGCTAGATTTTCTGGCAAGATTGCTAATGCTATGGTTGACCGTGCCTGGGATATCATAAAT
AGAGAAAATGTCCTGAGAGAACAGCCTGCTAGGGGTAATTATATTTTATAATCTCTCCACAGTC
CATACCATATGGTTGGCGAGTGCAAATGCTGCTTATTTTTTTCTTAAATTTCTATGGTTATTTC
GTAATAATAGTGTTGGCAAAGACATGAAAAATGTGGTTATATTTCTTTATTCTTTCCAAGTCTA
ATAAAAAAAATTAACTTCTTTACTTTTAATATCAGGTATGCATGCCTCAAATGGCCCATCGCAA
GAATTCCAAAGAAAGCATGAAGGATCAATTTCGACAAAAGATCAAGGAAAATTTGTTCCTAGTG
AAAAGGTTATGCAGCTTCGAAACAAATTGATGAAGTTTATGGAAGATTACATATACCCGATGGA
GAGTGAGTTCTATAAACGCGCACATTCGACCTCAAGGTGGACAATTCATCCAGAAGAAGAAAAA
CTAAAAGCCTTAGCAAAGAGAGAGGGACTATGGAACTTGTTTATTCCGGTAACTTTCCCTTTTT
TTATATTAAAACCTTAAGGCCCTTCATTTTTTTCCTGATACATTGATTCATCACACATATTTGT
CGTGTTAGTACTGTAGACTGCATTTATTTTGGACTTTCTTCTTCTAATCAAAATGTTTGATCTG
CAGCTAGACAGTGCTGCTAGAGCAAGAGAGCTTCTGTTTGAGGACATGTCTCATGGTTCTCCTG
GAAGTTCTGAGGAGCTTTTGCTAGGTGCAGGTCTCACAAATCTTGAATATGGATATCTATGTGA
GATTATGGGCCGTTCAATTTGGGCTCCACAAATATTTAACTGTGGTCCACCTGATACAGGCAAC
ATGGAG
						
					

			
		

Sequences
Splice junction sequence	CACAAATCTTGAATATGGATATCTATGTGAGATTATGGGCCGTTCAATTTGGGCTCCACAAATA TTTAACTGTGGTCCACCTGATACAGGCAACATGGAGgtagaaagatgggggaggcaatatctct cttccactggtgaagggaagcctgctcgttaccagaagatgcttgatctagctcattggttgaa agaacata
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	GTAGAAAGATGGGGGAGGCAATATCTCTCTTCCACTGGTGAAGGGAAGCCTGCTCGTTACCAGA AGATGCTTGATCTAGCTCATTGGTTGAAAGAACATATACCAAAAGAAGATTCATCGGCAGGATT TGGAACAGGTCTTGTTCATGGTGATTACCGTGTTGATAATCTTGTTTTTCATCCAACAGAGGTT TGCATCTTTTTTGGCATCATAAGTATTTATGCATTTCATCAAAAACAAGTATTTATGCAATCTT CTAATGCATCACGGGCATATTACTAGTTGTTTAAGTTCTTCAACATACCACTTCTCATGCAGGA CCGAGTTATTGGTGTACTTGATTGGGAACTATCTACTTTGGGTAATCAAATGTGTGATGTTGCA TACAGCTCTTTGGTATGAAGCACTTTATATTTTTAAAATATTGTTATGCATCCTTTTTATGTTG TGTTTTTGTGCTGTTATTAGACAGTCTTAACTCTTGAAAGAAACATTAAGGAATGATATGTCTT AACTGAATTTAGTTATATAGTATATATAAATGAGGAGTATACATAGTAATTTCTTTTAGTCACT CTAATACTTTGATAGCATTTGTATTTAATTCCAGAGATCTTGACATTTTTTCTGGCCATAGTTG GTAACAACCAGAGAAATATGTGCATACATACCCCAATTAGAAACAAAGCTGGCATGCATATTAA TTTTTCAATTGATTTAGTGTAATATTTCTTGCATGATAGACTTACATTTGATATGGAATCAGCT TGCAGCATGTCAATATGTTTACAAAGCAACTATATCTGCTAGCACTGAGTACATATCTTTGGAA TTTTGGATTTGCTATTATCTCAACATGCTATATTTGCTACTCCACTATCAATGTCCCTACTTTC TAACCACACCTTGTACCAATAACTAATCAATTATGTCTGATAGCACTTAAATTGATTCGTAGTA CTAGGATGTGTCCCATCCATCCAAAATCCCTTATATTTTGGGACGGACGGAGTATGTTTTACTA TGTGTTCAATGGTATTATTAATCACTTTGATCTTGATTATTATGATTTGTACGTGCAGCCGTAT ATTATTGATGCAACAACTAGTACAGGTTATTCTTATGGTGGATTTGAATATACTGGCATTCCAG ATGGCATTCCCCCACTGGAAGAGTACCTCGCTGCATACTGCTCTATCTCTGTAAGAATCACGTC TCCTACATCTTGGTCTACAAGTTATTCTTATGGTGGAGTTGAACAACATCTTGATACTGGCTGA ATATATACACCAAACTTATTGCTTCTTTATTCCTCATTAATCATTATATTCTTTAAAATTGTTT CTCAGGCAAGACCCTGGCCGGCTGCAAGTTGGAAGTTTTATGTTGCCTTTTCGCTTTTTCGAGG GGCATCTATATATGCAGGAGTATATCACAGATGGACTATGGTACTTATCTGTAACCCTTGAAAT CTAATTCTGCTTATATATTCTAATTTATTTGAGCTGTCACACAGGGTAATGCTTCAGGTGGTGA GCGTGCTAGATTTTCTGGCAAGATTGCTAATGCTATGGTTGACCGTGCCTGGGATATCATAAAT AGAGAAAATGTCCTGAGAGAACAGCCTGCTAGGGGTAATTATATTTTATAATCTCTCCACAGTC CATACCATATGGTTGGCGAGTGCAAATGCTGCTTATTTTTTTCTTAAATTTCTATGGTTATTTC GTAATAATAGTGTTGGCAAAGACATGAAAAATGTGGTTATATTTCTTTATTCTTTCCAAGTCTA ATAAAAAAAATTAACTTCTTTACTTTTAATATCAGGTATGCATGCCTCAAATGGCCCATCGCAA GAATTCCAAAGAAAGCATGAAGGATCAATTTCGACAAAAGATCAAGGAAAATTTGTTCCTAGTG AAAAGGTTATGCAGCTTCGAAACAAATTGATGAAGTTTATGGAAGATTACATATACCCGATGGA GAGTGAGTTCTATAAACGCGCACATTCGACCTCAAGGTGGACAATTCATCCAGAAGAAGAAAAA CTAAAAGCCTTAGCAAAGAGAGAGGGACTATGGAACTTGTTTATTCCGGTAACTTTCCCTTTTT TTATATTAAAACCTTAAGGCCCTTCATTTTTTTCCTGATACATTGATTCATCACACATATTTGT CGTGTTAGTACTGTAGACTGCATTTATTTTGGACTTTCTTCTTCTAATCAAAATGTTTGATCTG CAGCTAGACAGTGCTGCTAGAGCAAGAGAGCTTCTGTTTGAGGACATGTCTCATGGTTCTCCTG GAAGTTCTGAGGAGCTTTTGCTAGGTGCAGGTCTCACAAATCTTGAATATGGATATCTATGTGA GATTATGGGCCGTTCAATTTGGGCTCCACAAATATTTAACTGTGGTCCACCTGATACAGGCAAC ATGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.134361126

Conservation Information
Conserved circRNAs	NA
PMCS	0.134361126

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							28554830-28557197(+)
28557116-28554763(+)
28554882-28557168(-)
						
					

						Potential amino acid sequence
						
							MLDLAHWLKEHIPKEDSSAGFGTGLVHGDYRVDNLVFHPTEDRVIGVLDWELSTLGNQMCDVAY
SSLPYIIDATTSTGYSYGGFEYTGIPDGIPPLEEYLAAYCSISARPWPAASWKFYVAFSLFRGA
SIYAGVYHRWTMGNASGGERARFSGKIANAMVDRAWDIINRENVLREQPARGMHASNGPSQEFQ
RKHEGSISTKDQGKFVPSEKVMQLRNKLMKFMEDYIYPMESEFYKRAHSTSRWTIHPEEEKLKA
LAKREGLWNLFIPLDSAARARELLFEDMSHGSPGSSEELLLGAGLTNLEYGYLCEIMGRSIWAP
QIFNCGPPDTGNMEVERWGRQYLSSTGEGKPARYQKMLDLAHWLKEHIPKEDSSAGFGTGLVHG
DYRVDNLVFHPTEDRVIGVLDWELSTLGNQMCDVAYSSLPYIIDATTSTGYSYGGFEYTGIPDG
IPPLEEYLAAYCSISARPWPAASWKFYVAFSLFRGASIYAGVYHRWTMGNASGGERARFSGKIA
NAMVDRAWDIINRENVLREQPARGMHASNGPSQEFQRKHEGSISTKDQGKFVPSEKVMQLRNKL
MKFMEDYIYPMESEFYKRAHSTSRWTIHPEEEKLKALAKREGLWNLFIPLDSAARARELLFEDM
SHGSPGSSEELLLGAGLTNLEYGYLCEIMGRSIWAPQIFNCGPPDTGNMEVERWGRQYLSSTGE
GKPARYQKMLDLAHWLKEHIPKEDSSAGFGTGLVHGDYRVDNLVFHPTEDRVIGVLDWELSTLG
NQMCDVAYSSLPYIIDATTSTGYSYGGFEYTGIPDGIPPLEEYLAAYCSISARPWPAASWKFYV
AFSLFRGASIYAGVYHRWTMGNASGGERARFSGKIANAMVDRAWDIINRENVLREQPARGMHAS
NGPSQEFQRKHEGSISTKDQGKFVPSEKVMQLRNKLMKFMEDYIYPMESEFYKRAHSTSRWTIH
PEEEKLKALAKREGLWNLFIPLDSAARARELLFEDMSHGSPGSSEELLLGAGLTNLEYGYLCEI
MGRSIWAPQIFNCGPPDTGNMEVERWGRQYLSSTGEGKPARYQKMLDLAHWLKEHIPKEDSSAG
FGTGLVHGDYRVDNLVFHPTEDRVIGVLDWELSTLGNQMCDVAYSSLPYIIDATTSTGYSYGGF
EYTGIPDGIPPLEEYLAAYCSISARPWPAASWKFYVAFSLFRGASIYAGVYHRWTMGNASGGER
ARFSGKIANAMVDRAWDIINRENVLREQPARGMHASNGPSQEFQRKHEGSISTKDQGKFVPSEK
VMQLRNKLMKFMEDYIYPMESEFYKRAHSTSRWTIHPEEEKLKALAKREGLWNLFIPLDSAARA
RELLFEDMSHGSPGSSEELLLGAGLTNLEYGYLCEIMGRSIWAPQIFNCGPPDTGNME(+)
MDIYVRLWAVQFGLHKYLTVVHLIQATWR*(+)
MNLLLVYVLSTNELDQASSGNEQASLHQWKRDIASPIFLPPCCLYQVDHS*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	28554830-28557197(+) 28557116-28554763(+) 28554882-28557168(-)
Potential amino acid sequence	MLDLAHWLKEHIPKEDSSAGFGTGLVHGDYRVDNLVFHPTEDRVIGVLDWELSTLGNQMCDVAY SSLPYIIDATTSTGYSYGGFEYTGIPDGIPPLEEYLAAYCSISARPWPAASWKFYVAFSLFRGA SIYAGVYHRWTMGNASGGERARFSGKIANAMVDRAWDIINRENVLREQPARGMHASNGPSQEFQ RKHEGSISTKDQGKFVPSEKVMQLRNKLMKFMEDYIYPMESEFYKRAHSTSRWTIHPEEEKLKA LAKREGLWNLFIPLDSAARARELLFEDMSHGSPGSSEELLLGAGLTNLEYGYLCEIMGRSIWAP QIFNCGPPDTGNMEVERWGRQYLSSTGEGKPARYQKMLDLAHWLKEHIPKEDSSAGFGTGLVHG DYRVDNLVFHPTEDRVIGVLDWELSTLGNQMCDVAYSSLPYIIDATTSTGYSYGGFEYTGIPDG IPPLEEYLAAYCSISARPWPAASWKFYVAFSLFRGASIYAGVYHRWTMGNASGGERARFSGKIA NAMVDRAWDIINRENVLREQPARGMHASNGPSQEFQRKHEGSISTKDQGKFVPSEKVMQLRNKL MKFMEDYIYPMESEFYKRAHSTSRWTIHPEEEKLKALAKREGLWNLFIPLDSAARARELLFEDM SHGSPGSSEELLLGAGLTNLEYGYLCEIMGRSIWAPQIFNCGPPDTGNMEVERWGRQYLSSTGE GKPARYQKMLDLAHWLKEHIPKEDSSAGFGTGLVHGDYRVDNLVFHPTEDRVIGVLDWELSTLG NQMCDVAYSSLPYIIDATTSTGYSYGGFEYTGIPDGIPPLEEYLAAYCSISARPWPAASWKFYV AFSLFRGASIYAGVYHRWTMGNASGGERARFSGKIANAMVDRAWDIINRENVLREQPARGMHAS NGPSQEFQRKHEGSISTKDQGKFVPSEKVMQLRNKLMKFMEDYIYPMESEFYKRAHSTSRWTIH PEEEKLKALAKREGLWNLFIPLDSAARARELLFEDMSHGSPGSSEELLLGAGLTNLEYGYLCEI MGRSIWAPQIFNCGPPDTGNMEVERWGRQYLSSTGEGKPARYQKMLDLAHWLKEHIPKEDSSAG FGTGLVHGDYRVDNLVFHPTEDRVIGVLDWELSTLGNQMCDVAYSSLPYIIDATTSTGYSYGGF EYTGIPDGIPPLEEYLAAYCSISARPWPAASWKFYVAFSLFRGASIYAGVYHRWTMGNASGGER ARFSGKIANAMVDRAWDIINRENVLREQPARGMHASNGPSQEFQRKHEGSISTKDQGKFVPSEK VMQLRNKLMKFMEDYIYPMESEFYKRAHSTSRWTIHPEEEKLKALAKREGLWNLFIPLDSAARA RELLFEDMSHGSPGSSEELLLGAGLTNLEYGYLCEIMGRSIWAPQIFNCGPPDTGNME(+) MDIYVRLWAVQFGLHKYLTVVHLIQATWR(+) MNLLLVYVLSTNELDQASSGNEQASLHQWKRDIASPIFLPPCCLYQVDHS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0675000_circ_g.3

Address

Any questions?

Supported by