Plant Circular RNA Database

Detail information of Os09g0123200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0123200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_038457
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 1794847-1798076  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0123200						
					
						Parent gene annotation
						
							Similar to Flowering time control protein isoform OsFCA-1. (Os09
t0123200-01);Similar to Flowering time control protein isoform O
sFCA-1. (Os09t0123200-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0123200_circ_g.1 Os09g0123200_circ_g.3 Os09g0123200_circ_g.4 						
					
						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
						Os09t0123200-02:11
Os09t0123200-01:12

General Information
CircRNA Name	Os09g0123200_circ_g.2
ID in PlantcircBase	osa_circ_038457
Alias	NA
Organism	Oryza sativa
Position	chr9: 1794847-1798076 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0123200
Parent gene annotation	Similar to Flowering time control protein isoform OsFCA-1. (Os09 t0123200-01);Similar to Flowering time control protein isoform O sFCA-1. (Os09t0123200-02)
Parent gene strand	+
Alternative splicing	Os09g0123200_circ_g.1 Os09g0123200_circ_g.3 Os09g0123200_circ_g.4
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	Os09t0123200-02:11 Os09t0123200-01:12

			
						 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  
						
							TCAGTCACCACCTCAGGCTCAGACACATCCAGCAATGCAACCTGTCCAACAAATTCCTCAGGCA
CAACAAGGACAGCAACAAATGCAGATGAAACAGCAGgttgttgttttgttaaatatgctacttc
tgaagaggctgagcgagccatcagagctcttcacaaccagtacactttacctggggtaactaat
ctctttgt

									
								

					

						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
						
							GTTGTTGTTTTGTTAAATATGCTACTTCTGAAGAGGCTGAGCGAGCCATCAGAGCTCTTCACAA
CCAGTACACTTTACCTGGGGTAACTAATCTCTTTGTTGTGTACTCATTTATAGTCAGTCTTTTG
TCTGTAAGACTCTTGAATTATTGACTGTGTGTATCTTTTCTGTCAGGCAATGGGCCCTATTCAA
GTCAGATATGCTGATGGTGAAAGGGAACGCCATGGTAACTAATAGTATTTTTGTTATCAGTGGG
CTATTGGTACTTTAGAACAATGCTGGGATTTGAGTCAATTGTATAGCATAGCTCCACCCCATAA
CTTCTATGGTTGATAATCGTACTGTTCCCTTTTTAGGCTAAACAAAAATATTAGTGGAGTGAAA
TATGTTTGACTTGTTAATAGAAATTTACTTTCTTCACTTATATTTTCTTTATTGTACTTATTGG
GTGGTTTCATCACTTTTCATCTATTTGTTAGGGGCTATTGAGCACAAGCTGTTTGTCGCATCAC
TCAATAAGCAAGCTACTGCGAAGGAGATTGAAGAGGTAAGGGTCTGTTGTTCAAAAGAAGGTTA
TGTAGATTTAGAACTCATCTATCCAAGACCAATGTGAAATTTTGCATTGCTTTTTGATGCTTTA
TTTATGAACTCATCATTTTAAGTTAAGAAGCATATATCAAGTACATATTAAATCAAATTTGTGT
CTGGTTTATTTTGTAGATTTTTGCGCCGTATGGTCATGTGGAAGATGTCTACATTATGAAAGAT
GGCATGAGGCAGAGCCGAGGTCTGTCATATTAACTTGATTGATTTGCAGTTTATTTTTTTTCCC
TTACAAACCATTGTTGTAACATATGCAAAATCAAGGTTGTGGCTTTGTCAAATTCTCATCACGA
GAACCGGCGCTGGCAGCCATGAGTGCTCTGAGTGGGAATTATGTAATGAGGGTAAGTTTCTGTT
AGCTGAGTTCTTATTGACTTTCTGAAAATTTATAATATATCCATTATGTTGTGTTAGGGGTGCG
AGCAACCATTAATAATTCGGTTCGCTGATCCTAAGAGACCTAGACCTGGAGAATCAAGGTGGCT
ACACTTTCACCCTATGTTTTCTTTGCTGATACCTCCATGCTAATCTAGGTTCAGCACATGTTTT
ATATTTTATACCTAGATAAATACAATTGCTCCCGTTTCCCAGTAAATACTGATGTCTGAATTGT
CTTTTGTTAGGGGTGGTCCTGCATTTGGAGGTCCTGGTTTCAGTCCACGATCTGATGCAGCTCT
TGTTATCAGGTTTGGTTACCCCTTCATTGAACAGCTACTTTTTAAAGATTGGAGAATAATGTTA
AATTGCAAGTGAAAATAGTTGCAAATAGTTTGCCCCCGTCCCTTCAGCCTGTTCACTGATTTTT
GAGGCTTGCATTTTGCAAGTAACAATTTATAGTCCTACAAAGGCTAGTAAATGAAAACGTCCAT
ATAAACTTTGATCAGTAGTCCATCCAACAAACCGAACAATAAAACAGGTATTTTGACACCCCAT
TCCAAAATTAGTCCAATTTATCCATCCCTTCAGTATGTTTTCTAATTAAACAGTGCGGGCATTA
TACCCTTGTTTCATATTTTTCCTTTTGATGACTGTCTTTGTAGTACTATATTAAACTGATTTCT
TGCTTGAGAATAGTTAGAACTTGAACTGAGTCTACTTTTTCTATCCAGGCCGACCGCCAACCTT
GATGAACCAAGGGGTCGGCATATGCCTCCTGACTCTTGGCATCCATCAAGCCCAAGGTCAGCAC
CTCATCAGTTTAATAACTTTGGATCTGACAATCCTATGGCTCCGAAAGGGAGTACTGTTACATC
AACAACAGATACGGTATGTGGTTCAAATCAATCTTTTTATGACAGTTCAATTCTGTTTGCTTCC
ATTTGCTTACCTTTGATACTGCAATATCATAGGCCACTTTTCGACCTCAGATGTTCAGCGGAAA
TGGCTCTTTGTCAAGCCAAACAGCTGTGCCAAGTTCGTCACATATGGTAAACTGGGATATTCGA
CTTTTTCTGTTCATCAATAGCTTTAGATGGAAAATATCGGTTAAACATCATGATACCTTTTACT
TTGTAGGGCATGAACCCTCCTCCCATGGCACAAGGCCATCATCTGGGAGGCCAGCAGATCCCAC
CTTTGCAAAAGCTACCAGGGTTGCCTCAGAATTTCCCTGTTCAATTGCAGAATAATCAGCTGGG
ACAACCCTTGCAGGGTCCTGCTCAACAGATTGGTCAGCTTCAAGTTCCACAATCTATGGGTCCT
GGTTCTTTTGGCCAGAATAGGTTATCTGGTCAGCTTCCTGTGTCACAGCCGTTGATGCAACAAA
ATGCTTCCGTCAGCGCTGTGCAGGTGCCTTCAGCCGTGTCCAATTCCATGCAAGCTATTCCCGG
GCAACAGCATCTTCCCTCAAATGTTGCACCACAAATGCTTCAGCAGCCAGTGCAGCAGATGCCA
TCGCAAGCACCACAATTGCTACTCCAACAGCAAGCTGCTTTGCAATCCAGTTATCAATCTTCAC
AGCAGGCAATTTATCAGCTTCAACAACAGCTGCAACTAATGCAGCAGCAGCAGCAATCGAATCT
AAACCATCAACAACCCACACAGGTCGCTGAGCAACATGTATTTTCTATGCATACACCAATGTGT
ACGCGGTTTGTGTTTAGTTGTATAATGTGGTTTACGGCTGACATTTTTTTTAACCGTTTCTGTT
TCCACTACAGGGTCAGCCAGTGCAATCTAGTAACCCTGGTGCCCCAAATGCCATTATTCCATCA
AACATTAATACAATTCCCCAGCAGGCTACTTCACCTGCAGTTCCTTTAACCTGCAATTGGACTG
AACATACGTCTCCTGAAGGTTTTAAATACTACTACAATAGCATAACTCGAGAGAGTAAGGTGAA
GAATTGAAACTCATCACCAATCATTTTAAAGATCGCAACATTTGTGGGTCTCACTCTTAGAGTT
ATTGTTTTACAGTGGGATAAGCCTGAAGAGTATGTGCTGTATGAGCAACAGCAACAGCAGCAGC
AACAGCAGAAACTACTTTTGCTTCAACAGCACCAACAAAAACTTGCCATGCAGCAACTTCAGTC
ACCACCTCAGGCTCAGACACATCCAGCAATGCAACCTGTCCAACAAATTCCTCAGGCACAACAA
GGACAGCAACAAATGCAGATGAAACAGCAG
						
					

			
		

Sequences
Splice junction sequence	TCAGTCACCACCTCAGGCTCAGACACATCCAGCAATGCAACCTGTCCAACAAATTCCTCAGGCA CAACAAGGACAGCAACAAATGCAGATGAAACAGCAGgttgttgttttgttaaatatgctacttc tgaagaggctgagcgagccatcagagctcttcacaaccagtacactttacctggggtaactaat ctctttgt
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	GTTGTTGTTTTGTTAAATATGCTACTTCTGAAGAGGCTGAGCGAGCCATCAGAGCTCTTCACAA CCAGTACACTTTACCTGGGGTAACTAATCTCTTTGTTGTGTACTCATTTATAGTCAGTCTTTTG TCTGTAAGACTCTTGAATTATTGACTGTGTGTATCTTTTCTGTCAGGCAATGGGCCCTATTCAA GTCAGATATGCTGATGGTGAAAGGGAACGCCATGGTAACTAATAGTATTTTTGTTATCAGTGGG CTATTGGTACTTTAGAACAATGCTGGGATTTGAGTCAATTGTATAGCATAGCTCCACCCCATAA CTTCTATGGTTGATAATCGTACTGTTCCCTTTTTAGGCTAAACAAAAATATTAGTGGAGTGAAA TATGTTTGACTTGTTAATAGAAATTTACTTTCTTCACTTATATTTTCTTTATTGTACTTATTGG GTGGTTTCATCACTTTTCATCTATTTGTTAGGGGCTATTGAGCACAAGCTGTTTGTCGCATCAC TCAATAAGCAAGCTACTGCGAAGGAGATTGAAGAGGTAAGGGTCTGTTGTTCAAAAGAAGGTTA TGTAGATTTAGAACTCATCTATCCAAGACCAATGTGAAATTTTGCATTGCTTTTTGATGCTTTA TTTATGAACTCATCATTTTAAGTTAAGAAGCATATATCAAGTACATATTAAATCAAATTTGTGT CTGGTTTATTTTGTAGATTTTTGCGCCGTATGGTCATGTGGAAGATGTCTACATTATGAAAGAT GGCATGAGGCAGAGCCGAGGTCTGTCATATTAACTTGATTGATTTGCAGTTTATTTTTTTTCCC TTACAAACCATTGTTGTAACATATGCAAAATCAAGGTTGTGGCTTTGTCAAATTCTCATCACGA GAACCGGCGCTGGCAGCCATGAGTGCTCTGAGTGGGAATTATGTAATGAGGGTAAGTTTCTGTT AGCTGAGTTCTTATTGACTTTCTGAAAATTTATAATATATCCATTATGTTGTGTTAGGGGTGCG AGCAACCATTAATAATTCGGTTCGCTGATCCTAAGAGACCTAGACCTGGAGAATCAAGGTGGCT ACACTTTCACCCTATGTTTTCTTTGCTGATACCTCCATGCTAATCTAGGTTCAGCACATGTTTT ATATTTTATACCTAGATAAATACAATTGCTCCCGTTTCCCAGTAAATACTGATGTCTGAATTGT CTTTTGTTAGGGGTGGTCCTGCATTTGGAGGTCCTGGTTTCAGTCCACGATCTGATGCAGCTCT TGTTATCAGGTTTGGTTACCCCTTCATTGAACAGCTACTTTTTAAAGATTGGAGAATAATGTTA AATTGCAAGTGAAAATAGTTGCAAATAGTTTGCCCCCGTCCCTTCAGCCTGTTCACTGATTTTT GAGGCTTGCATTTTGCAAGTAACAATTTATAGTCCTACAAAGGCTAGTAAATGAAAACGTCCAT ATAAACTTTGATCAGTAGTCCATCCAACAAACCGAACAATAAAACAGGTATTTTGACACCCCAT TCCAAAATTAGTCCAATTTATCCATCCCTTCAGTATGTTTTCTAATTAAACAGTGCGGGCATTA TACCCTTGTTTCATATTTTTCCTTTTGATGACTGTCTTTGTAGTACTATATTAAACTGATTTCT TGCTTGAGAATAGTTAGAACTTGAACTGAGTCTACTTTTTCTATCCAGGCCGACCGCCAACCTT GATGAACCAAGGGGTCGGCATATGCCTCCTGACTCTTGGCATCCATCAAGCCCAAGGTCAGCAC CTCATCAGTTTAATAACTTTGGATCTGACAATCCTATGGCTCCGAAAGGGAGTACTGTTACATC AACAACAGATACGGTATGTGGTTCAAATCAATCTTTTTATGACAGTTCAATTCTGTTTGCTTCC ATTTGCTTACCTTTGATACTGCAATATCATAGGCCACTTTTCGACCTCAGATGTTCAGCGGAAA TGGCTCTTTGTCAAGCCAAACAGCTGTGCCAAGTTCGTCACATATGGTAAACTGGGATATTCGA CTTTTTCTGTTCATCAATAGCTTTAGATGGAAAATATCGGTTAAACATCATGATACCTTTTACT TTGTAGGGCATGAACCCTCCTCCCATGGCACAAGGCCATCATCTGGGAGGCCAGCAGATCCCAC CTTTGCAAAAGCTACCAGGGTTGCCTCAGAATTTCCCTGTTCAATTGCAGAATAATCAGCTGGG ACAACCCTTGCAGGGTCCTGCTCAACAGATTGGTCAGCTTCAAGTTCCACAATCTATGGGTCCT GGTTCTTTTGGCCAGAATAGGTTATCTGGTCAGCTTCCTGTGTCACAGCCGTTGATGCAACAAA ATGCTTCCGTCAGCGCTGTGCAGGTGCCTTCAGCCGTGTCCAATTCCATGCAAGCTATTCCCGG GCAACAGCATCTTCCCTCAAATGTTGCACCACAAATGCTTCAGCAGCCAGTGCAGCAGATGCCA TCGCAAGCACCACAATTGCTACTCCAACAGCAAGCTGCTTTGCAATCCAGTTATCAATCTTCAC AGCAGGCAATTTATCAGCTTCAACAACAGCTGCAACTAATGCAGCAGCAGCAGCAATCGAATCT AAACCATCAACAACCCACACAGGTCGCTGAGCAACATGTATTTTCTATGCATACACCAATGTGT ACGCGGTTTGTGTTTAGTTGTATAATGTGGTTTACGGCTGACATTTTTTTTAACCGTTTCTGTT TCCACTACAGGGTCAGCCAGTGCAATCTAGTAACCCTGGTGCCCCAAATGCCATTATTCCATCA AACATTAATACAATTCCCCAGCAGGCTACTTCACCTGCAGTTCCTTTAACCTGCAATTGGACTG AACATACGTCTCCTGAAGGTTTTAAATACTACTACAATAGCATAACTCGAGAGAGTAAGGTGAA GAATTGAAACTCATCACCAATCATTTTAAAGATCGCAACATTTGTGGGTCTCACTCTTAGAGTT ATTGTTTTACAGTGGGATAAGCCTGAAGAGTATGTGCTGTATGAGCAACAGCAACAGCAGCAGC AACAGCAGAAACTACTTTTGCTTCAACAGCACCAACAAAAACTTGCCATGCAGCAACTTCAGTC ACCACCTCAGGCTCAGACACATCCAGCAATGCAACCTGTCCAACAAATTCCTCAGGCACAACAA GGACAGCAACAAATGCAGATGAAACAGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.116963514

Conservation Information
Conserved circRNAs	NA
PMCS	0.116963514

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1795025-1795606(+)
1794897-1797750(-)
						
						Potential amino acid sequence
						
							MGPIQVRYADGERERHGAIEHKLFVASLNKQATAKEIEEIFAPYGHVEDVYIMKDGMRQSRGCG
FVKFSSREPALAAMSALSGNYVMRGCEQPLIIRFADPKRPRPGESRGGPAFGGPGFSPRSDAAL
VIRPTANLDEPRGRHMPPDSWHPSSPRSAPHQFNNFGSDNPMAPKGSTVTSTTDTATFRPQMFS
GNGSLSSQTAVPSSSHMGMNPPPMAQGHHLGGQQIPPLQKLPGLPQNFPVQLQNNQLGQPLQGP
AQQIGQLQVPQSMGPGSFGQNRLSGQLPVSQPLMQQNASVSAVQVPSAVSNSMQAIPGQQHLPS
NVAPQMLQQPVQQMPSQAPQLLLQQQAALQSSYQSSQQAIYQLQQQLQLMQQQQQSNLNHQQPT
QGQPVQSSNPGAPNAIIPSNINTIPQQATSPAVPLTCNWTEHTSPEGFKYYYNSITRESKWDKP
EEYVLYEQQQQQQQQQKLLLLQQHQQKLAMQQLQSPPQAQTHPAMQPVQQIPQAQQGQQQMQMK
QQVVVLLNMLLLKRLSEPSELFTTSTLYLGQWALFKSDMLMVKGNAMGLLSTSCLSHHSISKLL
RRRLKRFLRRMVMWKMSTL*(+)
MARSASSEVAYLTKQQPAVSSAFVAVLVVPEEFVGQVALLDVSEPEVVTEVAAWQVFVGAVEAK
VVSAVAAAVAVAHTAHTLQAYPTYSLELCYCSSI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1795025-1795606(+) 1794897-1797750(-)
Potential amino acid sequence	MGPIQVRYADGERERHGAIEHKLFVASLNKQATAKEIEEIFAPYGHVEDVYIMKDGMRQSRGCG FVKFSSREPALAAMSALSGNYVMRGCEQPLIIRFADPKRPRPGESRGGPAFGGPGFSPRSDAAL VIRPTANLDEPRGRHMPPDSWHPSSPRSAPHQFNNFGSDNPMAPKGSTVTSTTDTATFRPQMFS GNGSLSSQTAVPSSSHMGMNPPPMAQGHHLGGQQIPPLQKLPGLPQNFPVQLQNNQLGQPLQGP AQQIGQLQVPQSMGPGSFGQNRLSGQLPVSQPLMQQNASVSAVQVPSAVSNSMQAIPGQQHLPS NVAPQMLQQPVQQMPSQAPQLLLQQQAALQSSYQSSQQAIYQLQQQLQLMQQQQQSNLNHQQPT QGQPVQSSNPGAPNAIIPSNINTIPQQATSPAVPLTCNWTEHTSPEGFKYYYNSITRESKWDKP EEYVLYEQQQQQQQQQKLLLLQQHQQKLAMQQLQSPPQAQTHPAMQPVQQIPQAQQGQQQMQMK QQVVVLLNMLLLKRLSEPSELFTTSTLYLGQWALFKSDMLMVKGNAMGLLSTSCLSHHSISKLL RRRLKRFLRRMVMWKMSTL(+) MARSASSEVAYLTKQQPAVSSAFVAVLVVPEEFVGQVALLDVSEPEVVTEVAAWQVFVGAVEAK VVSAVAAAVAVAHTAHTLQAYPTYSLELCYCSSI(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0123200_circ_g.2

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