Plant Circular RNA Database

Detail information of Os01g0645200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0645200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_002885
					
						Alias
						Os01circ18052
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 25975530-25977160  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os01g0645200						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os01t0645200-01);Bile acid:sodium 
symporter domain containing protein. (Os01t0645200-02);Bile acid
:sodium symporter domain containing protein. (Os01t0645200-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						5/1
					
						Tissues
						leaf/shoot
					
						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
						Os01t0645200-03:5
Os01t0645200-02:5

General Information
CircRNA Name	Os01g0645200_circ_g.1
ID in PlantcircBase	osa_circ_002885
Alias	Os01circ18052
Organism	Oryza sativa
Position	chr1: 25975530-25977160 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os01g0645200
Parent gene annotation	Hypothetical conserved gene. (Os01t0645200-01);Bile acid:sodium symporter domain containing protein. (Os01t0645200-02);Bile acid :sodium symporter domain containing protein. (Os01t0645200-03)
Parent gene strand	+
Alternative splicing	NA
Support reads	5/1
Tissues	leaf/shoot
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	Os01t0645200-03:5 Os01t0645200-02:5

			
						 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  
						
							CTGGTCTTATTTTAGTGTCATGTTGCCCTGGTGGACAAGCATCAAATGTTGCTACTTATATATC
CAAAGGAAATGTCGCACTTTCAGTTCTTATGACAACaagctgtcaactattgtgcaaggctgaa
gctaacatatccagtaatctgccagagagcattcctagtgaagcaaaccagtacgagaaaatag
ttgagctg

									
								

					

						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: 471
Transcript exons: 25975530-25975653,25975778-25975819,25975914-25976027,25
976135-25976197,25977033-25977160
AAGCTGTCAACTATTGTGCAAGGCTGAAGCTAACATATCCAGTAATCTGCCAGAGAGCATTCCT
AGTGAAGCAAACCAGTACGAGAAAATAGTTGAGCTGCTTACCACTCTTTTCCCTGTCTGGGTCA
TATTAGGTACCATTATTGGCATCTACAAGCCATCGATGGTTACCTGGTTGGAGACTGATCTTTT
CACTGTGGGCCTAGGATTCCTAATGCTATCAATGGGACTAACATTGACCTTCGAAGATTTCAGG
AGATGCATGAGGAATCCATGGACTGTGGGTGTGGGATTTCTTGCGCAGTATTTGATCAAACCTA
TGCTGGGATTTGCTATTGCCATGACCTTGAAGTTATCTGCTCCTCTTGCAACTGGTCTTATTTT
AGTGTCATGTTGCCCTGGTGGACAAGCATCAAATGTTGCTACTTATATATCCAAAGGAAATGTC
GCACTTTCAGTTCTTATGACAAC
						
					

						Genomic sequence
						
							AAGCTGTCAACTATTGTGCAAGGCTGAAGCTAACATATCCAGTAATCTGCCAGAGAGCATTCCT
AGTGAAGCAAACCAGTACGAGAAAATAGTTGAGCTGCTTACCACTCTTTTCCCTGTCTGGGTAA
GTTGATTTGGGAGCATTTGAGGATTTTATCTGCCCTTTTTTAGCTTCTAGTTCTGTTACATTTG
GTGGTTTGTAAAGCAAATATTAAAAAATGTACTAAGGCAGAGCTCACCTTTTGCAGGTCATATT
AGGTACCATTATTGGCATCTACAAGCCATCGATGGTAAAATTTCTAACTTGACAATACCCATTA
CTGTCTGTACTCAACAGCAAATGCCACAGAAACTGACTTTATAGTTTTCTTGGAAAACTTTCAG
GTTACCTGGTTGGAGACTGATCTTTTCACTGTGGGCCTAGGATTCCTAATGCTATCAATGGGAC
TAACATTGACCTTCGAAGATTTCAGGAGATGCATGAGGAATCCATGGACTGTATGTTTCTGCTC
CTGAACGTCTTCTCTTAAAGAAATAGTGATTATTTTTCTGTACTTGAGGCCTCCAACTTGATAT
AGGTTTACTAATGCAATTGCCTGTTGCAGGTGGGTGTGGGATTTCTTGCGCAGTATTTGATCAA
ACCTATGCTGGGATTTGCTATTGCCATGGTAATGCTAGGCCATGCCTTCCTATTATTTCTAATG
AAAGAACAAAAAAATGAAATAAACACAATCTGTTATTCCTTTGTTTGGATATGCTGCTATGGCA
GCTATGCTAGGCTTTCCTTTCATGCGAAACAGGCTTGTTAAAGATTCTCATGTAAACTCTGGGA
AATATTAAATTGAAAGGTTGGTGCCTTGCTCAAAGAAATAATTGATTTGACAAGCCCTTCCCTG
AAAAGATGCACATGCCATTATGCTACGGTTTCTTTTCATGAGATTTTTCATGCAAATGTTAATT
GTAATTAAATTAAAAAGGTTGATGTCTTGATTAAATCAATAATCAATAAACTGATCTGACAAAG
CAACCTTAAAGATTTGAAGGTTCAAGATCAACATCAAAGATTTTTTTAAAGGTTCAAGATTGTT
CTCTGGTTTCATTTTTAGGACCTTTTCCTTTCATTTCCTGTGTCTTGGATACTTTGAGCATGTC
ACGTATCTCAAGTTTCTTTTGTTTTTCCATTTAATTTTACCTTTTTCCCTTGTAAGGTGATATC
TCATCTCATTGCAATTTTTATGTGAAGAAAGTTAATCTATGTAGGGTAGCCGATACAATTTTAT
CATATCAAATGTAAACTCTACCCGTTATCTGCATTCTTTGTTTTCCATTGCTGTCTATTTGAAT
CCATAGAATACAATTTCAGTGGTATAGTGTTTCTCTTTGGTTATTGCAAAAAAAGTTTGAACCT
AAAATTCCTTCTAGTGCATTTTTTTTCACTAAGATATCTGCACAAATTTGACGTCTATATTTAG
GTGCAACCTAATATGGATGTTTATTTTACAGACCTTGAAGTTATCTGCTCCTCTTGCAACTGGT
CTTATTTTAGTGTCATGTTGCCCTGGTGGACAAGCATCAAATGTTGCTACTTATATATCCAAAG
GAAATGTCGCACTTTCAGTTCTTATGACAAC
						
					

			
		

Sequences
Splice junction sequence	CTGGTCTTATTTTAGTGTCATGTTGCCCTGGTGGACAAGCATCAAATGTTGCTACTTATATATC CAAAGGAAATGTCGCACTTTCAGTTCTTATGACAACaagctgtcaactattgtgcaaggctgaa gctaacatatccagtaatctgccagagagcattcctagtgaagcaaaccagtacgagaaaatag ttgagctg
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: 471 Transcript exons: 25975530-25975653,25975778-25975819,25975914-25976027,25 976135-25976197,25977033-25977160 AAGCTGTCAACTATTGTGCAAGGCTGAAGCTAACATATCCAGTAATCTGCCAGAGAGCATTCCT AGTGAAGCAAACCAGTACGAGAAAATAGTTGAGCTGCTTACCACTCTTTTCCCTGTCTGGGTCA TATTAGGTACCATTATTGGCATCTACAAGCCATCGATGGTTACCTGGTTGGAGACTGATCTTTT CACTGTGGGCCTAGGATTCCTAATGCTATCAATGGGACTAACATTGACCTTCGAAGATTTCAGG AGATGCATGAGGAATCCATGGACTGTGGGTGTGGGATTTCTTGCGCAGTATTTGATCAAACCTA TGCTGGGATTTGCTATTGCCATGACCTTGAAGTTATCTGCTCCTCTTGCAACTGGTCTTATTTT AGTGTCATGTTGCCCTGGTGGACAAGCATCAAATGTTGCTACTTATATATCCAAAGGAAATGTC GCACTTTCAGTTCTTATGACAAC
Genomic sequence	AAGCTGTCAACTATTGTGCAAGGCTGAAGCTAACATATCCAGTAATCTGCCAGAGAGCATTCCT AGTGAAGCAAACCAGTACGAGAAAATAGTTGAGCTGCTTACCACTCTTTTCCCTGTCTGGGTAA GTTGATTTGGGAGCATTTGAGGATTTTATCTGCCCTTTTTTAGCTTCTAGTTCTGTTACATTTG GTGGTTTGTAAAGCAAATATTAAAAAATGTACTAAGGCAGAGCTCACCTTTTGCAGGTCATATT AGGTACCATTATTGGCATCTACAAGCCATCGATGGTAAAATTTCTAACTTGACAATACCCATTA CTGTCTGTACTCAACAGCAAATGCCACAGAAACTGACTTTATAGTTTTCTTGGAAAACTTTCAG GTTACCTGGTTGGAGACTGATCTTTTCACTGTGGGCCTAGGATTCCTAATGCTATCAATGGGAC TAACATTGACCTTCGAAGATTTCAGGAGATGCATGAGGAATCCATGGACTGTATGTTTCTGCTC CTGAACGTCTTCTCTTAAAGAAATAGTGATTATTTTTCTGTACTTGAGGCCTCCAACTTGATAT AGGTTTACTAATGCAATTGCCTGTTGCAGGTGGGTGTGGGATTTCTTGCGCAGTATTTGATCAA ACCTATGCTGGGATTTGCTATTGCCATGGTAATGCTAGGCCATGCCTTCCTATTATTTCTAATG AAAGAACAAAAAAATGAAATAAACACAATCTGTTATTCCTTTGTTTGGATATGCTGCTATGGCA GCTATGCTAGGCTTTCCTTTCATGCGAAACAGGCTTGTTAAAGATTCTCATGTAAACTCTGGGA AATATTAAATTGAAAGGTTGGTGCCTTGCTCAAAGAAATAATTGATTTGACAAGCCCTTCCCTG AAAAGATGCACATGCCATTATGCTACGGTTTCTTTTCATGAGATTTTTCATGCAAATGTTAATT GTAATTAAATTAAAAAGGTTGATGTCTTGATTAAATCAATAATCAATAAACTGATCTGACAAAG CAACCTTAAAGATTTGAAGGTTCAAGATCAACATCAAAGATTTTTTTAAAGGTTCAAGATTGTT CTCTGGTTTCATTTTTAGGACCTTTTCCTTTCATTTCCTGTGTCTTGGATACTTTGAGCATGTC ACGTATCTCAAGTTTCTTTTGTTTTTCCATTTAATTTTACCTTTTTCCCTTGTAAGGTGATATC TCATCTCATTGCAATTTTTATGTGAAGAAAGTTAATCTATGTAGGGTAGCCGATACAATTTTAT CATATCAAATGTAAACTCTACCCGTTATCTGCATTCTTTGTTTTCCATTGCTGTCTATTTGAAT CCATAGAATACAATTTCAGTGGTATAGTGTTTCTCTTTGGTTATTGCAAAAAAAGTTTGAACCT AAAATTCCTTCTAGTGCATTTTTTTTCACTAAGATATCTGCACAAATTTGACGTCTATATTTAG GTGCAACCTAATATGGATGTTTATTTTACAGACCTTGAAGTTATCTGCTCCTCTTGCAACTGGT CTTATTTTAGTGTCATGTTGCCCTGGTGGACAAGCATCAAATGTTGCTACTTATATATCCAAAG GAAATGTCGCACTTTCAGTTCTTATGACAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002250* osi_circ_010432 osi_circ_002251* 						
					
						PMCS
						0.262061424

Conservation Information
Conserved circRNAs	osi_circ_002250* osi_circ_010432 osi_circ_002251*
PMCS	0.262061424

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25976007-25975553(+)
25975818-25977157(+)
						
						Potential amino acid sequence
						
							MHEESMDCGCGISCAVFDQTYAGICYCHDLEVICSSCNWSYFSVMLPWWTSIKCCYLYIQRKCR
TFSSYDNKLSTIVQG*(+)
MVTWLETDLFTVGLGFLMLSMGLTLTFEDFRRCMRNPWTVGVGFLAQYLIKPMLGFAIAMTLKL
SAPLATGLILVSCCPGGQASNVATYISKGNVALSVLMTTSCQLLCKAEANISSNLPESIPSEAN
QYEKIVELLTTLFPVWVILGTIIGIYKPSMVTWLETDLFTVGLGFLMLSMGLTLTFEDFRRCMR
NPWTVGVGFLAQYLIKPMLGFAIAMTLKLSAPLATGLILVSCCPGGQASNVATYISKGNVALSV
LMTTSCQLLCKAEANISSNLPESIPSEANQYEKIVELLTTLFPVWVILGTIIGIYKPSMVTWLE
TDLFTVGLGFLMLSMGLTLTFEDFRRCMRNPWTVGVGFLAQYLIKPMLGFAIAMTLKLSAPLAT
GLILVSCCPGGQASNVATYISKGNVALSVLMTTSCQLLCKAEANISSNLPESIPSEANQYEKIV
ELLTTLFPVWVILGTIIGIYKPSMVTWLETDLFTVGLGFLMLSMGLTLTFEDFRRCMRNPWTVG
VGFLAQYLIKPMLGFAIAMTLKLSAPLATGLILVSCCPGGQASNVATYISKGNVALSVLMT(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25976007-25975553(+) 25975818-25977157(+)
Potential amino acid sequence	MHEESMDCGCGISCAVFDQTYAGICYCHDLEVICSSCNWSYFSVMLPWWTSIKCCYLYIQRKCR TFSSYDNKLSTIVQG*(+) MVTWLETDLFTVGLGFLMLSMGLTLTFEDFRRCMRNPWTVGVGFLAQYLIKPMLGFAIAMTLKL SAPLATGLILVSCCPGGQASNVATYISKGNVALSVLMTTSCQLLCKAEANISSNLPESIPSEAN QYEKIVELLTTLFPVWVILGTIIGIYKPSMVTWLETDLFTVGLGFLMLSMGLTLTFEDFRRCMR NPWTVGVGFLAQYLIKPMLGFAIAMTLKLSAPLATGLILVSCCPGGQASNVATYISKGNVALSV LMTTSCQLLCKAEANISSNLPESIPSEANQYEKIVELLTTLFPVWVILGTIIGIYKPSMVTWLE TDLFTVGLGFLMLSMGLTLTFEDFRRCMRNPWTVGVGFLAQYLIKPMLGFAIAMTLKLSAPLAT GLILVSCCPGGQASNVATYISKGNVALSVLMTTSCQLLCKAEANISSNLPESIPSEANQYEKIV ELLTTLFPVWVILGTIIGIYKPSMVTWLETDLFTVGLGFLMLSMGLTLTFEDFRRCMRNPWTVG VGFLAQYLIKPMLGFAIAMTLKLSAPLATGLILVSCCPGGQASNVATYISKGNVALSVLMT(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Chu et al., 2017

circRNA

Detail information of Os01g0645200_circ_g.1

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