Plant Circular RNA Database

Detail information of Os02g0120100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0120100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_012807
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 1051378-1053212  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0120100						
					
						Parent gene annotation
						
							ATMRK serine/threonine protein kinase-like domain containing pro
tein. (Os02t0120100-01);Similar to ATP binding protein. (Os02t01
20100-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0120100_circ_g.2 Os02g0120100_circ_g.4 Os02g0120100_circ_g.5 Os02g0120100_circ_g.6 Os02g0120100_circ_g.7 Os02g0120100_circ_g.8 Os02g0120100_circ_g.9 Os02g0120100_circ_g.10 Os02g0120100_circ_g.11 Os02g0120100_circ_g.12 Os02g0120100_circ_g.13 Os02g0120100_circ_g.14 Os02g0120100_circ_g.15 Os02g0120100_circ_g.16 Os02g0120100_circ_g.17 Os02g0120100_circ_g.18 Os02g0120100_circ_g.19 Os02g0120100_circ_g.20 Os02g0120100_circ_g.21 Os02g0120100_circ_g.22 Os02g0120100_circ_g.23 						
					
						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  
						
							CT-AC							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
						Os02t0120100-02:6
Os02t0120100-01:6

General Information
CircRNA Name	Os02g0120100_circ_g.3
ID in PlantcircBase	osa_circ_012807
Alias	NA
Organism	Oryza sativa
Position	chr2: 1051378-1053212 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0120100
Parent gene annotation	ATMRK serine/threonine protein kinase-like domain containing pro tein. (Os02t0120100-01);Similar to ATP binding protein. (Os02t01 20100-02)
Parent gene strand	-
Alternative splicing	Os02g0120100_circ_g.2 Os02g0120100_circ_g.4 Os02g0120100_circ_g.5 Os02g0120100_circ_g.6 Os02g0120100_circ_g.7 Os02g0120100_circ_g.8 Os02g0120100_circ_g.9 Os02g0120100_circ_g.10 Os02g0120100_circ_g.11 Os02g0120100_circ_g.12 Os02g0120100_circ_g.13 Os02g0120100_circ_g.14 Os02g0120100_circ_g.15 Os02g0120100_circ_g.16 Os02g0120100_circ_g.17 Os02g0120100_circ_g.18 Os02g0120100_circ_g.19 Os02g0120100_circ_g.20 Os02g0120100_circ_g.21 Os02g0120100_circ_g.22 Os02g0120100_circ_g.23
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	CT-AC 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	Os02t0120100-02:6 Os02t0120100-01:6

			
						 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  
						
							TTATAAGTTAAACCGTTGTAATATACCTGTTACAATATATAAGTTGGGCTGTCTTGTACAGGCA
CCGATAAACTGTACAACATTTCTATGGCGGACCTTTctctttggggagtctctgaagaatctcc
agtatctgggagaagtcaggcctttcagcaggatctctatgccagcatttctgaagcagctcag
acagcttg

									
								

					

						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: 616
Transcript exons: 1051378-1051512,1052343-1052396,1052501-1052581,1052667-
1052761,1052877-1053053,1053139-1053212
CTCTTTGGGGAGTCTCTGAAGAATCTCCAGTATCTGGGAGAAGTCAGGCCTTTCAGCAGGATCT
CTATGCCAGCATTTCTGAAGCAGCTCAGACAGCTTGGGGTGCGTATCTTTCGGAATTGTTGGTC
TAAGGCCCTTCTGAACAACACCTATGGCTGCTTGTAGTGGTGTTAGGTACTCATAGGGTATCTT
GCCAGTTAGCAGCTCCCATAGAACAATACCAAAGCTAAAAACATCTGCTTTATGATCATAGGGC
TTATGTTCAATGACCTCAGGTGCCATCCAACGATAAGTTCCAGTCTCTGCAGTCATCACTCCGG
ATTGATCTTTGACACGTGCAACACCAAAATCTGCAACCTTTACGACCTTGTTTTCATCCATAAG
AAGATTCGCTGTCTTGAGATCACGGTGAATTATGTTGTTCTGATGCAGATAGTTCATTCCTTTA
GAGATATCTGTCGCCACTCTCAGTATTTCGGATAGCTTGAAAGAATTGTTCTTTTTATGAAGGT
AATCATGCAGACTACCTCCTGACATGAAATCTGTTACAATATATAAGTTGGGCTGTCTTGTACA
GGCACCGATAAACTGTACAACATTTCTATGGCGGACCTTT
						
					

						Genomic sequence
						
							CTCTTTGGGGAGTCTCTGAAGAATCTCCAGTATCTGGGAGAAGTCAGGCCTTTCAGCAGGATCT
CTATGCCAGCATTTCTGAAGCAGCTCAGACAGCTTGGGGTGCGTATCTTTCGGAATTGTTGGTC
TAAGGCCCTGCAGAAAATGATCAAAATACACATGAGTGAACCTTAATTTTGTGTAGAATTGTTG
TAAATAACTAGCAGCTCTCTGCTACATATGTACAAGTTAAAATGCTGTCTTGCAACTCTTTTAG
ATACCAAAGGCAATCTCCTATCTTAGGCCTTTTATCCAAAAAAAAGGCCATACTTTATGAAATC
AAGCAGGTATACCGTATATATGCATGTATATGAGGATATAGATAAATATGCCAATAAATTTCCA
TGAAATTTCTAGGTATGTACAGTGTCTCTAAAGGACCTATATTCTCTTGAAAATACTTGTCTTT
TCAAACTACTCCTACTTGGCAATCACGGCAACTATTTCATTTACAATCAAGGTTCATAATCATT
TTCATATGCAATTCATAGCACTTTCTGCTAATGGTAAGAATCTATGATGTTAAGCAGATATTAT
ATGTGACCCTACAATTGAGGGAGCTACAATGACGTGACTTGACGGAAGTTTGTTCTACTTCATC
TCATTCCCATGAGCATGGTAACCTGAAAACCTAACTTGCACCTCTAATCAGGTGAGTGATTAGT
AGGATGGACACAAAGGGAGGCAATCGCATATTAAAAGAATGGTTTCTTGAAAGAACAAGGATGC
CATCATTTTTTAAAGACTGCTTCTCGAAACTACTGTATCCTTAGAGCATCACACATGTCCCCCA
CTTGAACTAAAGAAATCCAGCACCCACAGGACATAGCTATACAATGGGTTTCATCAACATTTTA
AATTTTTGAGCTAAATACTACGGATACCACGCATGTAACTACAGAATTTAAGCAGGGATGCTTG
CTTACCTTCTGAACAACACCTATGGCTGCTTGTAGTGGTGTTAGGTACTCATAGGGTATCTGAG
AAATTGAATAGTTAGGTGAGTTTAGTTTTATATGTAATTAATATAAGTTGGAAAAAGAAAGAAA
GAAATTGACTTTTTCCTGGAGCAATTTGTAGTTACCTTGCCAGTTAGCAGCTCCCATAGAACAA
TACCAAAGCTAAAAACATCTGCTTTATGATCATAGGGCTTATGTTCAATGACCTGTAGTTACAA
TAGAATACAAATGTTAGAATAAACAAAAATGCTGTTGTTATTCTTATGGAATGAGCGTATGTAT
AACAGGCACCTCAGGTGCCATCCAACGATAAGTTCCAGTCTCTGCAGTCATCACTCCGGATTGA
TCTTTGACACGTGCAACACCAAAATCTGCAACCTTTACGACCTGAAAAATATGATCGCTCTCAT
TTAGAAGTTCAATGACAGGAGCAAATATCACTCTGCACACTCTGTAAATCATATAGCATTATGG
ATGAGATTATGGATGAGAAAAAACTAGCCTTGTTTTCATCCATAAGAAGATTCGCTGTCTTGAG
ATCACGGTGAATTATGTTGTTCTGATGCAGATAGTTCATTCCTTTAGAGATATCTGTCGCCACT
CTCAGTATTTCGGATAGCTTGAAAGAATTGTTCTTTTTATGAAGGTAATCATGCAGACTACCTC
CTGACATGAAATCTAAGAAAATGAATGCAAATTAGAGTGTGTCAAACACTACAGAAGTTTGTCT
ACAAAGATTATAAGTTAAACCGTTGTAATATACCTGTTACAATATATAAGTTGGGCTGTCTTGT
ACAGGCACCGATAAACTGTACAACATTTCTATGGCGGACCTTT
						
					

			
		

Sequences
Splice junction sequence	TTATAAGTTAAACCGTTGTAATATACCTGTTACAATATATAAGTTGGGCTGTCTTGTACAGGCA CCGATAAACTGTACAACATTTCTATGGCGGACCTTTctctttggggagtctctgaagaatctcc agtatctgggagaagtcaggcctttcagcaggatctctatgccagcatttctgaagcagctcag acagcttg
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: 616 Transcript exons: 1051378-1051512,1052343-1052396,1052501-1052581,1052667- 1052761,1052877-1053053,1053139-1053212 CTCTTTGGGGAGTCTCTGAAGAATCTCCAGTATCTGGGAGAAGTCAGGCCTTTCAGCAGGATCT CTATGCCAGCATTTCTGAAGCAGCTCAGACAGCTTGGGGTGCGTATCTTTCGGAATTGTTGGTC TAAGGCCCTTCTGAACAACACCTATGGCTGCTTGTAGTGGTGTTAGGTACTCATAGGGTATCTT GCCAGTTAGCAGCTCCCATAGAACAATACCAAAGCTAAAAACATCTGCTTTATGATCATAGGGC TTATGTTCAATGACCTCAGGTGCCATCCAACGATAAGTTCCAGTCTCTGCAGTCATCACTCCGG ATTGATCTTTGACACGTGCAACACCAAAATCTGCAACCTTTACGACCTTGTTTTCATCCATAAG AAGATTCGCTGTCTTGAGATCACGGTGAATTATGTTGTTCTGATGCAGATAGTTCATTCCTTTA GAGATATCTGTCGCCACTCTCAGTATTTCGGATAGCTTGAAAGAATTGTTCTTTTTATGAAGGT AATCATGCAGACTACCTCCTGACATGAAATCTGTTACAATATATAAGTTGGGCTGTCTTGTACA GGCACCGATAAACTGTACAACATTTCTATGGCGGACCTTT
Genomic sequence	CTCTTTGGGGAGTCTCTGAAGAATCTCCAGTATCTGGGAGAAGTCAGGCCTTTCAGCAGGATCT CTATGCCAGCATTTCTGAAGCAGCTCAGACAGCTTGGGGTGCGTATCTTTCGGAATTGTTGGTC TAAGGCCCTGCAGAAAATGATCAAAATACACATGAGTGAACCTTAATTTTGTGTAGAATTGTTG TAAATAACTAGCAGCTCTCTGCTACATATGTACAAGTTAAAATGCTGTCTTGCAACTCTTTTAG ATACCAAAGGCAATCTCCTATCTTAGGCCTTTTATCCAAAAAAAAGGCCATACTTTATGAAATC AAGCAGGTATACCGTATATATGCATGTATATGAGGATATAGATAAATATGCCAATAAATTTCCA TGAAATTTCTAGGTATGTACAGTGTCTCTAAAGGACCTATATTCTCTTGAAAATACTTGTCTTT TCAAACTACTCCTACTTGGCAATCACGGCAACTATTTCATTTACAATCAAGGTTCATAATCATT TTCATATGCAATTCATAGCACTTTCTGCTAATGGTAAGAATCTATGATGTTAAGCAGATATTAT ATGTGACCCTACAATTGAGGGAGCTACAATGACGTGACTTGACGGAAGTTTGTTCTACTTCATC TCATTCCCATGAGCATGGTAACCTGAAAACCTAACTTGCACCTCTAATCAGGTGAGTGATTAGT AGGATGGACACAAAGGGAGGCAATCGCATATTAAAAGAATGGTTTCTTGAAAGAACAAGGATGC CATCATTTTTTAAAGACTGCTTCTCGAAACTACTGTATCCTTAGAGCATCACACATGTCCCCCA CTTGAACTAAAGAAATCCAGCACCCACAGGACATAGCTATACAATGGGTTTCATCAACATTTTA AATTTTTGAGCTAAATACTACGGATACCACGCATGTAACTACAGAATTTAAGCAGGGATGCTTG CTTACCTTCTGAACAACACCTATGGCTGCTTGTAGTGGTGTTAGGTACTCATAGGGTATCTGAG AAATTGAATAGTTAGGTGAGTTTAGTTTTATATGTAATTAATATAAGTTGGAAAAAGAAAGAAA GAAATTGACTTTTTCCTGGAGCAATTTGTAGTTACCTTGCCAGTTAGCAGCTCCCATAGAACAA TACCAAAGCTAAAAACATCTGCTTTATGATCATAGGGCTTATGTTCAATGACCTGTAGTTACAA TAGAATACAAATGTTAGAATAAACAAAAATGCTGTTGTTATTCTTATGGAATGAGCGTATGTAT AACAGGCACCTCAGGTGCCATCCAACGATAAGTTCCAGTCTCTGCAGTCATCACTCCGGATTGA TCTTTGACACGTGCAACACCAAAATCTGCAACCTTTACGACCTGAAAAATATGATCGCTCTCAT TTAGAAGTTCAATGACAGGAGCAAATATCACTCTGCACACTCTGTAAATCATATAGCATTATGG ATGAGATTATGGATGAGAAAAAACTAGCCTTGTTTTCATCCATAAGAAGATTCGCTGTCTTGAG ATCACGGTGAATTATGTTGTTCTGATGCAGATAGTTCATTCCTTTAGAGATATCTGTCGCCACT CTCAGTATTTCGGATAGCTTGAAAGAATTGTTCTTTTTATGAAGGTAATCATGCAGACTACCTC CTGACATGAAATCTAAGAAAATGAATGCAAATTAGAGTGTGTCAAACACTACAGAAGTTTGTCT ACAAAGATTATAAGTTAAACCGTTGTAATATACCTGTTACAATATATAAGTTGGGCTGTCTTGT ACAGGCACCGATAAACTGTACAACATTTCTATGGCGGACCTTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.245740418

Conservation Information
Conserved circRNAs	NA
PMCS	0.245740418

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1053201-1051505(+)
1053048-1052369(+)
1053050-1053200(-)
						
						Potential amino acid sequence
						
							MADLSLWGVSEESPVSGRSQAFQQDLYASISEAAQTAWGAYLSELLV*(+)
MKSVTIYKLGCLVQAPINCTTFLWRTFLFGESLKNLQYLGEVRPFSRISMPAFLKQLRQLGVRI
FRNCWSKALLNNTYGCL*(+)
MSGGSLHDYLHKKNNSFKLSEILRVATDISKGMNYLHQNNIIHRDLKTANLLMDENKVVKVADF
GVARVKDQSGVMTAETGTYRWMAPEVIEHKPYDHKADVFSFGIVLWELLTGKIPYEYLTPLQAA
IGVVQKGLRPTIPKDTHPKLSELLQKCWHRDPAERPDFSQILEILQRLPKEKGPP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1053201-1051505(+) 1053048-1052369(+) 1053050-1053200(-)
Potential amino acid sequence	MADLSLWGVSEESPVSGRSQAFQQDLYASISEAAQTAWGAYLSELLV(+) MKSVTIYKLGCLVQAPINCTTFLWRTFLFGESLKNLQYLGEVRPFSRISMPAFLKQLRQLGVRI FRNCWSKALLNNTYGCL(+) MSGGSLHDYLHKKNNSFKLSEILRVATDISKGMNYLHQNNIIHRDLKTANLLMDENKVVKVADF GVARVKDQSGVMTAETGTYRWMAPEVIEHKPYDHKADVFSFGIVLWELLTGKIPYEYLTPLQAA IGVVQKGLRPTIPKDTHPKLSELLQKCWHRDPAERPDFSQILEILQRLPKEKGPP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0120100_circ_g.3

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