Plant Circular RNA Database

Detail information of Os10g0410600_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os10g0410600_circ_g.4
					
						ID in PlantcircBase
						osa_circ_006784
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 14257623-14260157  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os10g0410600						
					
						Parent gene annotation
						
							Similar to Serine/threonine protein phosphatase. (Os10t0410600-0
1);Similar to Phosphoprotein phosphatase 2A isoform 4. (Os10t041
0600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0410600_circ_g.1 Os10g0410600_circ_g.2 Os10g0410600_circ_g.3 Os10g0410600_circ_g.5 						
					
						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
						Os10t0410600-02:8

General Information
CircRNA Name	Os10g0410600_circ_g.4
ID in PlantcircBase	osa_circ_006784
Alias	NA
Organism	Oryza sativa
Position	chr10: 14257623-14260157 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os10g0410600
Parent gene annotation	Similar to Serine/threonine protein phosphatase. (Os10t0410600-0 1);Similar to Phosphoprotein phosphatase 2A isoform 4. (Os10t041 0600-02)
Parent gene strand	+
Alternative splicing	Os10g0410600_circ_g.1 Os10g0410600_circ_g.2 Os10g0410600_circ_g.3 Os10g0410600_circ_g.5
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	Os10t0410600-02:8

			
						 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  
						
							GGTCGTGACCATATTCAGTGCACCTAATTATTGTTATCGCTGTGGCAACATGGCATCCATCCTG
GAGGTTGATGACTGCAGGAATCACACATTTATTCAGccagttaagagcccagtcacaatttgtg
gtgatatccatgggcaattccatgatctagtagagctctttcggattggtgggaaggtactcaa
tccattgg

									
								

					

						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
						
							CCAGTTAAGAGCCCAGTCACAATTTGTGGTGATATCCATGGGCAATTCCATGATCTAGTAGAGC
TCTTTCGGATTGGTGGGAAGGTACTCAATCCATTGGCATTAGTTTTGTTTCTTTCTGCTCTCTT
TGGTCTTTGTTTCATGCTTTAAAAGCTGACATTTGTTTTGTACTGTTTACCAGTGTCCAGATAC
AAATTATTTGTTTATGGGAGATTATGTAGATCGTGGCTACTATTCTGTTGAGACTGTTACAGTA
AGTCTCCTGAGTTTTGATTTTGTTTGCTGAAATTTTAATTGAAGTTCAACAATGTCATGCTTAT
GGTTTGTTTGTTTACGACGTTTGGCCCTACCATGTTTTACCATGTGCATCATGGTTTGGCAGCT
CTTTGTTTCAAACCTAGCAGATGTATCGGCAATATTTGTGTTTAAGTTAATGGTATTGAAGCCT
AATTTCTTTTGTATTACTTGTTGACATGATGTGGTACCATTGCCCAGCTTTTGGTTGCACTGAA
GGTGCGCTACCCACAGCGGATTACAATCCTTCGTGGAAACCATGAGAGTCGGCAGGTATGTAGA
TTTCATCATGCCCATGAGATGATTCTATTGTTTGTTTTCTTTTCCCGCCCTCAAATAAATTTAA
AACAGAAACCTTCTCATTCTAAAATGCAACCTTTCTTCTTAAACCATTTCTTCATTTGGACTCA
TCTAGATGATGTTTGCTCTTCATTCCATCTTTGTTTAAACTGTCTTGAAATCTTCAATAATTGC
AGATCACACAGGTGTATGGATTCTACGACGAATGCCTACGAAAGTGAGTCAGTTTAGGTGCTTG
AAAGTCTACTTATTCTGTATCTATGCCAAAGTTAATAGTTTGGAAAACTCTAGTCTATCTAAGT
TGATTTTTGTAGTATTGACTTGTGAATACAAAGTGGACAAGCTTGATTTTTTTTATTGATTGAT
CTTGTTCTGCTTTTTGATTAGGTATGGAAGTGCAAATGTCTGGAAGATCTTCACCGATCTTTTT
GACTATTTTCCATTGACAGCATTGGTGCGTGCTCAACTTGTAGTCCTCTTCCTTCTATGATTTT
TTTTTCTATTGTTCTTTTAAAATTGACATTCTGTATGAACATTGCTCAATGTTCTATACGAAAA
TCTGAAGCCAATACCAGATTAAGTTAGTCTCAGATGAAACCCACTTATTATCATCTATGCATGT
GCTACTTTATCAACTTTTGGCAACCACTACTCTCTAAAATAAAATCTGGCCTCAGTAGTCTAAA
CGTGTGTCCTCTTTGGACTGATTAGTTTCTGGTGCTTGTAGATAATTTTTGGATTGTTTCTTGA
ATGAGTTTTGTCTCCAAGGGGGTCAATAATGCTGGCATCCCTTGTGTCACTGCCTTAATTACTG
ATTAAGCTTTTCCTCTTCCTGAAAACCAAAATTGCTGTAACAACTGTAGGCAACCAAGTGTTTA
TGCAGCCATAATTGTTGGTTCTTTCCTGTTCCTTTTGTTTCCTGGAGTTGATAATATATGTGCA
AGACCAGTTGAAATTCTTTATTTGATCTATCATTTTTTACCTGTTGATTGGCCTGTAGAATTTT
AACTTGGTGTTTCCTCTTAATAACCAGTTGATGTTTCTGTTCTCGCTCAGAAGTTTAGAAATCA
TTTTTTATTTGTTCAGAAAATTTTATTGATGTTAAATTATTGTCTTGGTTGAAGGTTGAATCAG
AGATTTTCTGCCTCCATGGTGGTTTATCGCCATCAATCGACAATCTTGATAGTGTTCGCAGCTT
AGATCGTGTTCAAGAGGTCCCTCATGAGGGACCAATGTGTGATCTTCTATGGTCTGACCCGGAT
GATCGATGCGGTTGGGGCATATCTCCTCGTGGTGCTGGCTACACTTTTGGCCAGGTACTAAATA
CTCTATTTTCCATTAATTTTCTTTCATCTATTAATAGACTATCTGTTCTGTTCTCAACCGTACA
CATTCAATTTTTCAGGACATATCGGAGCAGTTTAACCATACCAATAATCTCAAACTTGTAGCCC
GGGCTCATCAATTAGTTATGGAAGGATATAACTGGGCGCACGTAAGTTGCTTAGCATAGATTTA
AGAGAGAATTTCTTGTGTACCCCTGAAATTTCACCTAATCCCTTCTACGCCCTTGAATTTTGCT
CATTCCCTTGCATACCCATGAATTTTAGTTTTGATCTCTTCCATGCCCTTTCCGCTAGTTGACC
GGGCGTAGAAGGGATCCAAACTAAAATTCAGGGGTACATAAGGGAATGAGCAAAATTCAGGGGC
ATATAAGGGATTAGGTGAACTTTCGTGGGTACATAGGGAATTTTCTCATTTTTCTAGATTTAAT
TTTGTTGTTGATTTTGCTACCGAACTAGCATTGTCTTATTTATTCTTCACCACGCACAGGAACA
AAAGGTCGTGACCATATTCAGTGCACCTAATTATTGTTATCGCTGTGGCAACATGGCATCCATC
CTGGAGGTTGATGACTGCAGGAATCACACATTTATTCAG
						
					

			
		

Sequences
Splice junction sequence	GGTCGTGACCATATTCAGTGCACCTAATTATTGTTATCGCTGTGGCAACATGGCATCCATCCTG GAGGTTGATGACTGCAGGAATCACACATTTATTCAGccagttaagagcccagtcacaatttgtg gtgatatccatgggcaattccatgatctagtagagctctttcggattggtgggaaggtactcaa tccattgg
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	CCAGTTAAGAGCCCAGTCACAATTTGTGGTGATATCCATGGGCAATTCCATGATCTAGTAGAGC TCTTTCGGATTGGTGGGAAGGTACTCAATCCATTGGCATTAGTTTTGTTTCTTTCTGCTCTCTT TGGTCTTTGTTTCATGCTTTAAAAGCTGACATTTGTTTTGTACTGTTTACCAGTGTCCAGATAC AAATTATTTGTTTATGGGAGATTATGTAGATCGTGGCTACTATTCTGTTGAGACTGTTACAGTA AGTCTCCTGAGTTTTGATTTTGTTTGCTGAAATTTTAATTGAAGTTCAACAATGTCATGCTTAT GGTTTGTTTGTTTACGACGTTTGGCCCTACCATGTTTTACCATGTGCATCATGGTTTGGCAGCT CTTTGTTTCAAACCTAGCAGATGTATCGGCAATATTTGTGTTTAAGTTAATGGTATTGAAGCCT AATTTCTTTTGTATTACTTGTTGACATGATGTGGTACCATTGCCCAGCTTTTGGTTGCACTGAA GGTGCGCTACCCACAGCGGATTACAATCCTTCGTGGAAACCATGAGAGTCGGCAGGTATGTAGA TTTCATCATGCCCATGAGATGATTCTATTGTTTGTTTTCTTTTCCCGCCCTCAAATAAATTTAA AACAGAAACCTTCTCATTCTAAAATGCAACCTTTCTTCTTAAACCATTTCTTCATTTGGACTCA TCTAGATGATGTTTGCTCTTCATTCCATCTTTGTTTAAACTGTCTTGAAATCTTCAATAATTGC AGATCACACAGGTGTATGGATTCTACGACGAATGCCTACGAAAGTGAGTCAGTTTAGGTGCTTG AAAGTCTACTTATTCTGTATCTATGCCAAAGTTAATAGTTTGGAAAACTCTAGTCTATCTAAGT TGATTTTTGTAGTATTGACTTGTGAATACAAAGTGGACAAGCTTGATTTTTTTTATTGATTGAT CTTGTTCTGCTTTTTGATTAGGTATGGAAGTGCAAATGTCTGGAAGATCTTCACCGATCTTTTT GACTATTTTCCATTGACAGCATTGGTGCGTGCTCAACTTGTAGTCCTCTTCCTTCTATGATTTT TTTTTCTATTGTTCTTTTAAAATTGACATTCTGTATGAACATTGCTCAATGTTCTATACGAAAA TCTGAAGCCAATACCAGATTAAGTTAGTCTCAGATGAAACCCACTTATTATCATCTATGCATGT GCTACTTTATCAACTTTTGGCAACCACTACTCTCTAAAATAAAATCTGGCCTCAGTAGTCTAAA CGTGTGTCCTCTTTGGACTGATTAGTTTCTGGTGCTTGTAGATAATTTTTGGATTGTTTCTTGA ATGAGTTTTGTCTCCAAGGGGGTCAATAATGCTGGCATCCCTTGTGTCACTGCCTTAATTACTG ATTAAGCTTTTCCTCTTCCTGAAAACCAAAATTGCTGTAACAACTGTAGGCAACCAAGTGTTTA TGCAGCCATAATTGTTGGTTCTTTCCTGTTCCTTTTGTTTCCTGGAGTTGATAATATATGTGCA AGACCAGTTGAAATTCTTTATTTGATCTATCATTTTTTACCTGTTGATTGGCCTGTAGAATTTT AACTTGGTGTTTCCTCTTAATAACCAGTTGATGTTTCTGTTCTCGCTCAGAAGTTTAGAAATCA TTTTTTATTTGTTCAGAAAATTTTATTGATGTTAAATTATTGTCTTGGTTGAAGGTTGAATCAG AGATTTTCTGCCTCCATGGTGGTTTATCGCCATCAATCGACAATCTTGATAGTGTTCGCAGCTT AGATCGTGTTCAAGAGGTCCCTCATGAGGGACCAATGTGTGATCTTCTATGGTCTGACCCGGAT GATCGATGCGGTTGGGGCATATCTCCTCGTGGTGCTGGCTACACTTTTGGCCAGGTACTAAATA CTCTATTTTCCATTAATTTTCTTTCATCTATTAATAGACTATCTGTTCTGTTCTCAACCGTACA CATTCAATTTTTCAGGACATATCGGAGCAGTTTAACCATACCAATAATCTCAAACTTGTAGCCC GGGCTCATCAATTAGTTATGGAAGGATATAACTGGGCGCACGTAAGTTGCTTAGCATAGATTTA AGAGAGAATTTCTTGTGTACCCCTGAAATTTCACCTAATCCCTTCTACGCCCTTGAATTTTGCT CATTCCCTTGCATACCCATGAATTTTAGTTTTGATCTCTTCCATGCCCTTTCCGCTAGTTGACC GGGCGTAGAAGGGATCCAAACTAAAATTCAGGGGTACATAAGGGAATGAGCAAAATTCAGGGGC ATATAAGGGATTAGGTGAACTTTCGTGGGTACATAGGGAATTTTCTCATTTTTCTAGATTTAAT TTTGTTGTTGATTTTGCTACCGAACTAGCATTGTCTTATTTATTCTTCACCACGCACAGGAACA AAAGGTCGTGACCATATTCAGTGCACCTAATTATTGTTATCGCTGTGGCAACATGGCATCCATC CTGGAGGTTGATGACTGCAGGAATCACACATTTATTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.143610628

Conservation Information
Conserved circRNAs	NA
PMCS	0.143610628

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14257829-14260154(+)
14260130-14257677(+)
14257675-14259684(-)
						
						Potential amino acid sequence
						
							MGDYVDRGYYSVETVTLLVALKVRYPQRITILRGNHESRQITQVYGFYDECLRKYGSANVWKIF
TDLFDYFPLTALVESEIFCLHGGLSPSIDNLDSVRSLDRVQEVPHEGPMCDLLWSDPDDRCGWG
ISPRGAGYTFGQDISEQFNHTNNLKLVARAHQLVMEGYNWAHEQKVVTIFSAPNYCYRCGNMAS
ILEVDDCRNHTFIQPVKSPVTICGDIHGQFHDLVELFRIGGKCPDTNYLFMGDYVDRGYYSVET
VTLLVALKVRYPQRITILRGNHESRQITQVYGFYDECLRKYGSANVWKIFTDLFDYFPLTALVE
SEIFCLHGGLSPSIDNLDSVRSLDRVQEVPHEGPMCDLLWSDPDDRCGWGISPRGAGYTFGQDI
SEQFNHTNNLKLVARAHQLVMEGYNWAHEQKVVTIFSAPNYCYRCGNMASILEVDDCRNHTFIQ
PVKSPVTICGDIHGQFHDLVELFRIGGKCPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPQR
ITILRGNHESRQITQVYGFYDECLRKYGSANVWKIFTDLFDYFPLTALVESEIFCLHGGLSPSI
DNLDSVRSLDRVQEVPHEGPMCDLLWSDPDDRCGWGISPRGAGYTFGQDISEQFNHTNNLKLVA
RAHQLVMEGYNWAHEQKVVTIFSAPNYCYRCGNMASILEVDDCRNHTFIQPVKSPVTICGDIHG
QFHDLVELFRIGGKCPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPQRITILRGNHESRQIT
QVYGFYDECLRKYGSANVWKIFTDLFDYFPLTALVESEIFCLHGGLSPSIDNLDSVRSLDRVQE
VPHEGPMCDLLWSDPDDRCGWGISPRGAGYTFGQDISEQFNHTNNLKLVARAHQLVMEGYNWAH
EQKVVTIFSAPNYCYRCGNMASILEVDDCRNHTFIQ(+)
MTAGITHLFSQLRAQSQFVVISMGNSMI*(+)
MELPMDITTNCDWALNWLNKCVIPAVINLQDGCHVATAITIIRCTEYGHDLLFVRPVISFHN*(
-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14257829-14260154(+) 14260130-14257677(+) 14257675-14259684(-)
Potential amino acid sequence	MGDYVDRGYYSVETVTLLVALKVRYPQRITILRGNHESRQITQVYGFYDECLRKYGSANVWKIF TDLFDYFPLTALVESEIFCLHGGLSPSIDNLDSVRSLDRVQEVPHEGPMCDLLWSDPDDRCGWG ISPRGAGYTFGQDISEQFNHTNNLKLVARAHQLVMEGYNWAHEQKVVTIFSAPNYCYRCGNMAS ILEVDDCRNHTFIQPVKSPVTICGDIHGQFHDLVELFRIGGKCPDTNYLFMGDYVDRGYYSVET VTLLVALKVRYPQRITILRGNHESRQITQVYGFYDECLRKYGSANVWKIFTDLFDYFPLTALVE SEIFCLHGGLSPSIDNLDSVRSLDRVQEVPHEGPMCDLLWSDPDDRCGWGISPRGAGYTFGQDI SEQFNHTNNLKLVARAHQLVMEGYNWAHEQKVVTIFSAPNYCYRCGNMASILEVDDCRNHTFIQ PVKSPVTICGDIHGQFHDLVELFRIGGKCPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPQR ITILRGNHESRQITQVYGFYDECLRKYGSANVWKIFTDLFDYFPLTALVESEIFCLHGGLSPSI DNLDSVRSLDRVQEVPHEGPMCDLLWSDPDDRCGWGISPRGAGYTFGQDISEQFNHTNNLKLVA RAHQLVMEGYNWAHEQKVVTIFSAPNYCYRCGNMASILEVDDCRNHTFIQPVKSPVTICGDIHG QFHDLVELFRIGGKCPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPQRITILRGNHESRQIT QVYGFYDECLRKYGSANVWKIFTDLFDYFPLTALVESEIFCLHGGLSPSIDNLDSVRSLDRVQE VPHEGPMCDLLWSDPDDRCGWGISPRGAGYTFGQDISEQFNHTNNLKLVARAHQLVMEGYNWAH EQKVVTIFSAPNYCYRCGNMASILEVDDCRNHTFIQ(+) MTAGITHLFSQLRAQSQFVVISMGNSMI(+) MELPMDITTNCDWALNWLNKCVIPAVINLQDGCHVATAITIIRCTEYGHDLLFVRPVISFHN( -)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os10g0410600_circ_g.4

Address

Any questions?

Supported by