Plant Circular RNA Database

Detail information of Os09g0514400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0514400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_039823
					
						Alias
						Os_ciR11887
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 20024384-20026241  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os09g0514400						
					
						Parent gene annotation
						
							Similar to Protein farnesyltransferase/geranylgeranyltransferase
 type I alpha subunit (EC 2.5.1.58) (EC 2.5.1.59) (CAAX farnesyl
transferase alpha subunit) (Ras proteins prenyltransferase alpha
) (FTase-alpha) (Type I protein geranyl-geranyltransferase alpha
 subunit) (GGTase-I-alpha). (Os09t0514400-01);Similar to Protein
 farnesyltransferase/geranylgeranyltransferase type I alpha subu
nit (EC 2.5.1.58) (EC 2.5.1.59) (CAAX farnesyltransferase alpha 
subunit) (Ras proteins prenyltransferase alpha) (FTase-alpha) (T
ype I protein geranyl-geranyltransferase alpha subunit) (GGTase-
I-alpha). (Os09t0514400-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0514400_circ_g.2 						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os09t0514400-01:4
Os09t0514400-02:4

General Information
CircRNA Name	Os09g0514400_circ_g.1
ID in PlantcircBase	osa_circ_039823
Alias	Os_ciR11887
Organism	Oryza sativa
Position	chr9: 20024384-20026241 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os09g0514400
Parent gene annotation	Similar to Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit (EC 2.5.1.58) (EC 2.5.1.59) (CAAX farnesyl transferase alpha subunit) (Ras proteins prenyltransferase alpha ) (FTase-alpha) (Type I protein geranyl-geranyltransferase alpha subunit) (GGTase-I-alpha). (Os09t0514400-01);Similar to Protein farnesyltransferase/geranylgeranyltransferase type I alpha subu nit (EC 2.5.1.58) (EC 2.5.1.59) (CAAX farnesyltransferase alpha subunit) (Ras proteins prenyltransferase alpha) (FTase-alpha) (T ype I protein geranyl-geranyltransferase alpha subunit) (GGTase- I-alpha). (Os09t0514400-02)
Parent gene strand	+
Alternative splicing	Os09g0514400_circ_g.2
Support reads	2/1
Tissues	root/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	Os09t0514400-01:4 Os09t0514400-02:4

			
						 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  
						
							GCAGTGGGTTCTTCAAGCACTGGGTGGATGGGAGACTGAACTACAGTATTGCAACCAGCTGCTT
GAGGAAGACGTCTTCAATAATTCAGCTTGGAATCAGcagaatctgatcgatggcgccgtcgtcg
acgtcgtcggagggtgcctccgacgagtggttgccacccagccggcggccggagctggcggacg
tggtcccc

									
								

					

						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
						
							CAGAATCTGATCGATGGCGCCGTCGTCGACGTCGTCGGAGGGTGCCTCCGACGAGTGGTTGCCA
CCCAGCCGGCGGCCGGAGCTGGCGGACGTGGTCCCCGTGACGCAGGACGACGGGCCCCACCCCG
TGGTGGCCATCGCCTACCGGGACGAGTTCCGCGAGGTCATGGACTACTTCCGCGCCCTCTACTT
CGCCGGCGAGCGCAGCGTCCGCGCCCTCCACCTCACCGCCGAGGTCATCGACCTTAATCCCGGC
AACTACACGGTGAGATTGCTCGTGTTATTCCCCCTTTTTTTTCATGTTGGAAATTGAATTTGCA
GTGCAGGAGATTTGCTCATTTAGAACTATGGCCCTGTTTAGGTATATTAATCCATGATTTGCTA
CAGTGATGCTACAGTAATCAGCCGCTAATCGTGGATTAATATACATCATTAGATTCGTCTCGCA
AAATAGCTTAGGGGTTATGGAATCGGTTTTATCGGTAATCTATGTTTAATACTTCTAAATAGCA
AGATTCCGGAGGGCTATTTAATAGCTCGGAGCATCCAAACAAGGCCTATGTACATGTAGAACTA
GCCTTCACTTGTTATAGTAAGAGTAGCATGTTGGGATATTGGCAAATTCCGGCTTAGCTAGTGG
TATCTTGGCGGATTTATCTATTTCGGAATTTGATTATAAAAGTATAACTGTGATGGCAAGCTTG
ACTAGCATATATAATGTTGTTTTGGAGACACAACGCGGCAAGACAAATTTAGGAAAATTGATTA
ATTTTTTTTTCTTGTGGACGCATTGAGAATGTCTAGATTTATGGTAGAGCAGGAGAAAACAGTT
AGTGTTTGATTTTAATCTGCATACTGTGGTGGTGTCTCTTTCAGACTTATCAAATTTTCAGTTT
TTCCGCTGTACTTTTCATGATCAGAAAGATAAATATAATTAAAATATACTGTAGTACTGTACCA
AATTATGTTTGGGGCTTTTAGTCCATATCCATAATAGGACTTTTACTTTGTTTGCTCCCTCCAA
ATTTGTACTCAGCCATCTGTTGTTGCCTCATTGGCATTTTGCATGCAGAATGTGCAAATTTCTC
CCAGTTCTGAGTTTAACAAGCAACAAAACATGGTGGCATGTAAAATTGTCTTTCCTTGTTATGT
GTTTAGCGTCATGCATTTCATTTGGATGCCAGTTTTGAACTTAATGATCTTTTTTTGCTTGATA
GGTGTGGCATTTTAGGCGTCTTGTTCTAGAGGCACTGGATGCTGATCTGCGTGAGGAAATGGAT
TTTGTGGACCGAATTGCTGAATGTAACCCAAAAAATTATCAAATCTGGTGAGTGACATTAAGTT
TATACCCATATTTGGTAGCTGTGGAGTTTTTCATGAAGTTTATACTTGCTATCATTAATTCTGA
GCGTTCTGTAATTAAAACTTCATTCTTCTGCTTTTTTGTTGGGAAATCTTGATTAACGTCCCAG
TACTATATATATTTTCTCAGGCATCACAAGAGATGGCTTGCGGAGAAATTAGGACCAGATATTG
CAAATAAAGAGCACGAATTTACAAGGAAGATACTTTCTATGGATGCTAAAAATTACCATGCTTG
GTCTCATAGGCAGGTATATAATGTTTCCTCTCGATGTGCGCTAAAATTAGGCTGTTGATACTCG
TTTGAGTTCATTTATCTATATTTGAGTGCTGCACTGAGCAAACCTTTGAGGGAAAGCTGAGTTC
TAATAATATAATTTATGTATCATTACTGCTGCAGTGGGTTCTTCAAGCACTGGGTGGATGGGAG
ACTGAACTACAGTATTGCAACCAGCTGCTTGAGGAAGACGTCTTCAATAATTCAGCTTGGAATC
AG
						
					

			
		

Sequences
Splice junction sequence	GCAGTGGGTTCTTCAAGCACTGGGTGGATGGGAGACTGAACTACAGTATTGCAACCAGCTGCTT GAGGAAGACGTCTTCAATAATTCAGCTTGGAATCAGcagaatctgatcgatggcgccgtcgtcg acgtcgtcggagggtgcctccgacgagtggttgccacccagccggcggccggagctggcggacg tggtcccc
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	CAGAATCTGATCGATGGCGCCGTCGTCGACGTCGTCGGAGGGTGCCTCCGACGAGTGGTTGCCA CCCAGCCGGCGGCCGGAGCTGGCGGACGTGGTCCCCGTGACGCAGGACGACGGGCCCCACCCCG TGGTGGCCATCGCCTACCGGGACGAGTTCCGCGAGGTCATGGACTACTTCCGCGCCCTCTACTT CGCCGGCGAGCGCAGCGTCCGCGCCCTCCACCTCACCGCCGAGGTCATCGACCTTAATCCCGGC AACTACACGGTGAGATTGCTCGTGTTATTCCCCCTTTTTTTTCATGTTGGAAATTGAATTTGCA GTGCAGGAGATTTGCTCATTTAGAACTATGGCCCTGTTTAGGTATATTAATCCATGATTTGCTA CAGTGATGCTACAGTAATCAGCCGCTAATCGTGGATTAATATACATCATTAGATTCGTCTCGCA AAATAGCTTAGGGGTTATGGAATCGGTTTTATCGGTAATCTATGTTTAATACTTCTAAATAGCA AGATTCCGGAGGGCTATTTAATAGCTCGGAGCATCCAAACAAGGCCTATGTACATGTAGAACTA GCCTTCACTTGTTATAGTAAGAGTAGCATGTTGGGATATTGGCAAATTCCGGCTTAGCTAGTGG TATCTTGGCGGATTTATCTATTTCGGAATTTGATTATAAAAGTATAACTGTGATGGCAAGCTTG ACTAGCATATATAATGTTGTTTTGGAGACACAACGCGGCAAGACAAATTTAGGAAAATTGATTA ATTTTTTTTTCTTGTGGACGCATTGAGAATGTCTAGATTTATGGTAGAGCAGGAGAAAACAGTT AGTGTTTGATTTTAATCTGCATACTGTGGTGGTGTCTCTTTCAGACTTATCAAATTTTCAGTTT TTCCGCTGTACTTTTCATGATCAGAAAGATAAATATAATTAAAATATACTGTAGTACTGTACCA AATTATGTTTGGGGCTTTTAGTCCATATCCATAATAGGACTTTTACTTTGTTTGCTCCCTCCAA ATTTGTACTCAGCCATCTGTTGTTGCCTCATTGGCATTTTGCATGCAGAATGTGCAAATTTCTC CCAGTTCTGAGTTTAACAAGCAACAAAACATGGTGGCATGTAAAATTGTCTTTCCTTGTTATGT GTTTAGCGTCATGCATTTCATTTGGATGCCAGTTTTGAACTTAATGATCTTTTTTTGCTTGATA GGTGTGGCATTTTAGGCGTCTTGTTCTAGAGGCACTGGATGCTGATCTGCGTGAGGAAATGGAT TTTGTGGACCGAATTGCTGAATGTAACCCAAAAAATTATCAAATCTGGTGAGTGACATTAAGTT TATACCCATATTTGGTAGCTGTGGAGTTTTTCATGAAGTTTATACTTGCTATCATTAATTCTGA GCGTTCTGTAATTAAAACTTCATTCTTCTGCTTTTTTGTTGGGAAATCTTGATTAACGTCCCAG TACTATATATATTTTCTCAGGCATCACAAGAGATGGCTTGCGGAGAAATTAGGACCAGATATTG CAAATAAAGAGCACGAATTTACAAGGAAGATACTTTCTATGGATGCTAAAAATTACCATGCTTG GTCTCATAGGCAGGTATATAATGTTTCCTCTCGATGTGCGCTAAAATTAGGCTGTTGATACTCG TTTGAGTTCATTTATCTATATTTGAGTGCTGCACTGAGCAAACCTTTGAGGGAAAGCTGAGTTC TAATAATATAATTTATGTATCATTACTGCTGCAGTGGGTTCTTCAAGCACTGGGTGGATGGGAG ACTGAACTACAGTATTGCAACCAGCTGCTTGAGGAAGACGTCTTCAATAATTCAGCTTGGAATC AG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.115963213

Conservation Information
Conserved circRNAs	NA
PMCS	0.115963213

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20024398-20024629(+)
20025963-20024390(+)
20025611-20026221(-)
20024523-20026229(-)
						
						Potential amino acid sequence
						
							MAPSSTSSEGASDEWLPPSRRPELADVVPVTQDDGPHPVVAIAYRDEFREVMDYFRALYFAGER
SVRALHLTAEVIDLNPGNYTVWHFRRLVLEALDADLREEMDFVDRIAECNPKNYQIWHHKRWLA
EKLGPDIANKEHEFTRKILSMDAKNYHAWSHRQWVLQALGGWETELQYCNQLLEEDVFNNSAWN
QQNLIDGAVVDVVGGCLRRVVATQPAAGAGGRGPRDAGRRAPPRGGHRLPGRVPRGHGLLPRPL
LRRRAQRPRPPPHRRGHRP*(+)
MLKITMLGLIGSGFFKHWVDGRLNYSIATSCLRKTSSIIQLGISRI*(+)
MPHRVVAGIKVDDLGGEVEGADAALAGEVEGAEVVHDLAELVPVGDGHHGVGPVVLRHGDHVRQ
LRPPAGWQPLVGGTLRRRRRRRHRSDSADSKLNY*(-)
MATTGWGPSSCVTGTTSASSGRRLGGNHSSEAPSDDVDDGAIDQILLIPS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20024398-20024629(+) 20025963-20024390(+) 20025611-20026221(-) 20024523-20026229(-)
Potential amino acid sequence	MAPSSTSSEGASDEWLPPSRRPELADVVPVTQDDGPHPVVAIAYRDEFREVMDYFRALYFAGER SVRALHLTAEVIDLNPGNYTVWHFRRLVLEALDADLREEMDFVDRIAECNPKNYQIWHHKRWLA EKLGPDIANKEHEFTRKILSMDAKNYHAWSHRQWVLQALGGWETELQYCNQLLEEDVFNNSAWN QQNLIDGAVVDVVGGCLRRVVATQPAAGAGGRGPRDAGRRAPPRGGHRLPGRVPRGHGLLPRPL LRRRAQRPRPPPHRRGHRP(+) MLKITMLGLIGSGFFKHWVDGRLNYSIATSCLRKTSSIIQLGISRI(+) MPHRVVAGIKVDDLGGEVEGADAALAGEVEGAEVVHDLAELVPVGDGHHGVGPVVLRHGDHVRQ LRPPAGWQPLVGGTLRRRRRRRHRSDSADSKLNY(-) MATTGWGPSSCVTGTTSASSGRRLGGNHSSEAPSDDVDDGAIDQILLIPS(-)
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 Os09g0514400_circ_g.1

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