Plant Circular RNA Database

Detail information of Os02g0438200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0438200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_014552
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 14014499-14016588  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0438200						
					
						Parent gene annotation
						
							Transcription regulator cyclin domain containing protein. (Os02t
0438200-01);Similar to Cyclin-T1-2. (Os02t0438200-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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
						Os02t0438200-02:5
Os02t0438200-01:5

General Information
CircRNA Name	Os02g0438200_circ_g.1
ID in PlantcircBase	osa_circ_014552
Alias	NA
Organism	Oryza sativa
Position	chr2: 14014499-14016588 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0438200
Parent gene annotation	Transcription regulator cyclin domain containing protein. (Os02t 0438200-01);Similar to Cyclin-T1-2. (Os02t0438200-02)
Parent gene strand	+
Alternative splicing	NA
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	Os02t0438200-02:5 Os02t0438200-01:5

			
						 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  
						
							TCGCTCTACCTGGCTGCTAAGTTTCAGAACGTCAAGCTTCCTGTGCATGGAGGGCATGTTTGGT
GGCACCAATTTGATGTTGCCCCAAAACCTTTGGAAGgctgttcagcacaagcaattcggaagtt
ctgtctgaaactacactgaagattttggagggtccttaagcaggttttttcaaacatactgatg
gatgggga

									
								

					

						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: 721
Transcript exons: 14014499-14014769,14014939-14015020,14015952-14016086,14
016261-14016341,14016437-14016588
GCTGTTCAGCACAAGCAATTCGGAAGTTCTGTCTGAAACTACACTGAAGATTTTGGAGGGTCCT
TAAGCAGGTTTTTTCAAACATACTGATGGATGGGGAATCCCAGACGAGTAAATTATCATGTGAG
CACATGTACTCTTGGTACTTCACCAGGGAAGAACTGGAGAAATTTTCCCCATCTAGGAAAGATG
GTATTACTGAGATAATGGAGTCAGAAATTCGGCAGTTGTACTGTTCATTCATTCGGGATGTTGG
CATTAGACTGAAACTACCACAGATGACTATAGCAACAGCAATAATGTTCTGCCATCGCTTCTAT
CTGTACCAGTCCCTTGCCAAAAACGGATGGCAGACGATTGCAACAGTGTGCATATTTCTGGCTT
CAAAAGTTGAAGATACACCTTGTCCTCTGGACCAAGTAATTAGAGTGGCCTATGGAACAATGTA
CAGGAGGGACCCAGCTACAGCTCGAAGAATCCACCAGAAGACCACTACTTGATGCTATGGAAAA
ACTTGGGATCTCTCAGAAGGAAGTGAAACAAGTAGCTTGGAACTTTGTAAATGATTGGCTTAAA
ACAACACTGTGCCTACAGTATAAGCCCCAATACATAGCTGCTGGTTCGCTCTACCTGGCTGCTA
AGTTTCAGAACGTCAAGCTTCCTGTGCATGGAGGGCATGTTTGGTGGCACCAATTTGATGTTGC
CCCAAAACCTTTGGAAG
						
					

						Genomic sequence
						
							GCTGTTCAGCACAAGCAATTCGGAAGTTCTGTCTGAAACTACACTGAAGATTTTGGAGGGTCCT
TAAGCAGGTTTTTTCAAACATACTGATGGATGGGGAATCCCAGACGAGTAAATTATCATGTGAG
CACATGTACTCTTGGTACTTCACCAGGGAAGAACTGGAGAAATTTTCCCCATCTAGGAAAGATG
GTATTACTGAGATAATGGAGTCAGAAATTCGGCAGTTGTACTGTTCATTCATTCGGGATGTTGG
CATTAGACTGAAACTGTATGTGCCAATTTCCTTGTTGAGTGTACCTTTTAATGTCAGTATAGCT
CACTTTTCAAACTTATATGTTGGTTTTACGGCTAGTTTGTGCCCTTAGTTAGCACACAATAATT
TCTTTTATTCTGGAAGTTTGCTAAGCTTGTTACCTATTTTAACATTTTTCTTTCAGACCACAGA
TGACTATAGCAACAGCAATAATGTTCTGCCATCGCTTCTATCTGTACCAGTCCCTTGCCAAAAA
CGGATGGCAGGTAAGGAGCTTTTTTTTTTAATTTATCTCTTTTGTTGTGGTGGGTTGGTGTCTT
TTAGAAAAAGCATTTTTCTGAAAGAATGTTTTAGAAAAGCAATTGGATACAATCTTCTCTTTAA
AAAATATTTACTGGCAAAGGTTCTCAAGGAACATATATAACCCTTGCATATTTTTTATACTTGA
TCAGTTCATATACTCTTTGCAACTTGTGCTTAACTTTCCGATCTATTATCGGTTGTACAATAAA
TATGAAGCTGCATAATAACACTAACATTTAATCTTGTATTGCTTATTAAGTGCATGGCGATGTT
ACAGTGCCATTAGGTGATTTAGAAATTCAATTCCAAAGGGATCTACTTGTGCCAATCAGTAATC
CTATATTGTAATTCCTTACTTTTTTACTGTGCTGTAAAGTTTTGATATAGTCTGATTTATGGTT
GATTTGCTTGGGATGTTTGGAAGATACAATAGTATTGAGATGTATTGTACAATACAATAGAACA
TCCTTTTTGAGGACAAGTCTGTTCAGCATTCCTGTTGAAGTTACACTATTGCCATTAGCCAACA
GGAATACAGCTTACAATCCTGTTATTAGAAGCTAAAATACTATAACTGACCATCTAATAAGTAT
AAATCCTCCAGTAAGTTTTATAGATTTGATTCGCCTCACCACATTCACTGTATTCCTGTCATGC
GGTTATTTAATTGAGAAACACATTCTTGTCTCTGCAATTAATCTGGAGTTGTGCTCGTTATCTG
CACTTGCAGATGTTACTTGCTGACATGTTTCTTCATTGCTCAAGAAAAGAAAAAAAAAGCTGTG
CATGTGATGCAAGCTGTCTATAACTAAATACTATTACAAGTAATTGGTGTTTATTTTATTTGCT
TATTGTCATTCCAGAGCCAATAGCTTTACTTGTTTTTTATTGCAGACGATTGCAACAGTGTGCA
TATTTCTGGCTTCAAAAGTTGAAGATACACCTTGTCCTCTGGACCAAGTAATTAGAGTGGCCTA
TGGAACAATGTACAGGAGGGACCCAGCTACAGCTCGAAGAATCCACCAGAAGGTATAGTTGGAT
CATTAATTGAGTTTTCAGTATATATGTACCATCCAGTTAATGGTTGACAAGTAGTATCTATCAA
CAGGATGTATTTGAGAAGCAGAAAGCACTAATTTTGACCGGGGAGAGATTAGTCCTTACAACTG
TTCGGTTTGATTTCAACATCCAACATCCTTACAGACCACTACTTGATGCTATGGAAAAACTTGG
GATCTCTCAGAAGGAAGTGAAACAAGTAGCTTGGAACTTTGTAAATGATTGGTATGAGATGTGA
CATATCACTTTGTGACATTATTGTTTTGATGCTTCATTCATTCAACTGATCAATCTGGATGTAT
TCATTCTGTTGCTCGTAGGCTTAAAACAACACTGTGCCTACAGTATAAGCCCCAATACATAGCT
GCTGGTTCGCTCTACCTGGCTGCTAAGTTTCAGAACGTCAAGCTTCCTGTGCATGGAGGGCATG
TTTGGTGGCACCAATTTGATGTTGCCCCAAAACCTTTGGAAG
						
					

			
		

Sequences
Splice junction sequence	TCGCTCTACCTGGCTGCTAAGTTTCAGAACGTCAAGCTTCCTGTGCATGGAGGGCATGTTTGGT GGCACCAATTTGATGTTGCCCCAAAACCTTTGGAAGgctgttcagcacaagcaattcggaagtt ctgtctgaaactacactgaagattttggagggtccttaagcaggttttttcaaacatactgatg gatgggga
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: 721 Transcript exons: 14014499-14014769,14014939-14015020,14015952-14016086,14 016261-14016341,14016437-14016588 GCTGTTCAGCACAAGCAATTCGGAAGTTCTGTCTGAAACTACACTGAAGATTTTGGAGGGTCCT TAAGCAGGTTTTTTCAAACATACTGATGGATGGGGAATCCCAGACGAGTAAATTATCATGTGAG CACATGTACTCTTGGTACTTCACCAGGGAAGAACTGGAGAAATTTTCCCCATCTAGGAAAGATG GTATTACTGAGATAATGGAGTCAGAAATTCGGCAGTTGTACTGTTCATTCATTCGGGATGTTGG CATTAGACTGAAACTACCACAGATGACTATAGCAACAGCAATAATGTTCTGCCATCGCTTCTAT CTGTACCAGTCCCTTGCCAAAAACGGATGGCAGACGATTGCAACAGTGTGCATATTTCTGGCTT CAAAAGTTGAAGATACACCTTGTCCTCTGGACCAAGTAATTAGAGTGGCCTATGGAACAATGTA CAGGAGGGACCCAGCTACAGCTCGAAGAATCCACCAGAAGACCACTACTTGATGCTATGGAAAA ACTTGGGATCTCTCAGAAGGAAGTGAAACAAGTAGCTTGGAACTTTGTAAATGATTGGCTTAAA ACAACACTGTGCCTACAGTATAAGCCCCAATACATAGCTGCTGGTTCGCTCTACCTGGCTGCTA AGTTTCAGAACGTCAAGCTTCCTGTGCATGGAGGGCATGTTTGGTGGCACCAATTTGATGTTGC CCCAAAACCTTTGGAAG
Genomic sequence	GCTGTTCAGCACAAGCAATTCGGAAGTTCTGTCTGAAACTACACTGAAGATTTTGGAGGGTCCT TAAGCAGGTTTTTTCAAACATACTGATGGATGGGGAATCCCAGACGAGTAAATTATCATGTGAG CACATGTACTCTTGGTACTTCACCAGGGAAGAACTGGAGAAATTTTCCCCATCTAGGAAAGATG GTATTACTGAGATAATGGAGTCAGAAATTCGGCAGTTGTACTGTTCATTCATTCGGGATGTTGG CATTAGACTGAAACTGTATGTGCCAATTTCCTTGTTGAGTGTACCTTTTAATGTCAGTATAGCT CACTTTTCAAACTTATATGTTGGTTTTACGGCTAGTTTGTGCCCTTAGTTAGCACACAATAATT TCTTTTATTCTGGAAGTTTGCTAAGCTTGTTACCTATTTTAACATTTTTCTTTCAGACCACAGA TGACTATAGCAACAGCAATAATGTTCTGCCATCGCTTCTATCTGTACCAGTCCCTTGCCAAAAA CGGATGGCAGGTAAGGAGCTTTTTTTTTTAATTTATCTCTTTTGTTGTGGTGGGTTGGTGTCTT TTAGAAAAAGCATTTTTCTGAAAGAATGTTTTAGAAAAGCAATTGGATACAATCTTCTCTTTAA AAAATATTTACTGGCAAAGGTTCTCAAGGAACATATATAACCCTTGCATATTTTTTATACTTGA TCAGTTCATATACTCTTTGCAACTTGTGCTTAACTTTCCGATCTATTATCGGTTGTACAATAAA TATGAAGCTGCATAATAACACTAACATTTAATCTTGTATTGCTTATTAAGTGCATGGCGATGTT ACAGTGCCATTAGGTGATTTAGAAATTCAATTCCAAAGGGATCTACTTGTGCCAATCAGTAATC CTATATTGTAATTCCTTACTTTTTTACTGTGCTGTAAAGTTTTGATATAGTCTGATTTATGGTT GATTTGCTTGGGATGTTTGGAAGATACAATAGTATTGAGATGTATTGTACAATACAATAGAACA TCCTTTTTGAGGACAAGTCTGTTCAGCATTCCTGTTGAAGTTACACTATTGCCATTAGCCAACA GGAATACAGCTTACAATCCTGTTATTAGAAGCTAAAATACTATAACTGACCATCTAATAAGTAT AAATCCTCCAGTAAGTTTTATAGATTTGATTCGCCTCACCACATTCACTGTATTCCTGTCATGC GGTTATTTAATTGAGAAACACATTCTTGTCTCTGCAATTAATCTGGAGTTGTGCTCGTTATCTG CACTTGCAGATGTTACTTGCTGACATGTTTCTTCATTGCTCAAGAAAAGAAAAAAAAAGCTGTG CATGTGATGCAAGCTGTCTATAACTAAATACTATTACAAGTAATTGGTGTTTATTTTATTTGCT TATTGTCATTCCAGAGCCAATAGCTTTACTTGTTTTTTATTGCAGACGATTGCAACAGTGTGCA TATTTCTGGCTTCAAAAGTTGAAGATACACCTTGTCCTCTGGACCAAGTAATTAGAGTGGCCTA TGGAACAATGTACAGGAGGGACCCAGCTACAGCTCGAAGAATCCACCAGAAGGTATAGTTGGAT CATTAATTGAGTTTTCAGTATATATGTACCATCCAGTTAATGGTTGACAAGTAGTATCTATCAA CAGGATGTATTTGAGAAGCAGAAAGCACTAATTTTGACCGGGGAGAGATTAGTCCTTACAACTG TTCGGTTTGATTTCAACATCCAACATCCTTACAGACCACTACTTGATGCTATGGAAAAACTTGG GATCTCTCAGAAGGAAGTGAAACAAGTAGCTTGGAACTTTGTAAATGATTGGTATGAGATGTGA CATATCACTTTGTGACATTATTGTTTTGATGCTTCATTCATTCAACTGATCAATCTGGATGTAT TCATTCTGTTGCTCGTAGGCTTAAAACAACACTGTGCCTACAGTATAAGCCCCAATACATAGCT GCTGGTTCGCTCTACCTGGCTGCTAAGTTTCAGAACGTCAAGCTTCCTGTGCATGGAGGGCATG TTTGGTGGCACCAATTTGATGTTGCCCCAAAACCTTTGGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.204833927

Conservation Information
Conserved circRNAs	NA
PMCS	0.204833927

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14016035-14014542(+)
14016536-14014531(+)
14014759-14016514(-)
						
						Potential amino acid sequence
						
							MEQCTGGTQLQLEESTRRPLLDAMEKLGISQKEVKQVAWNFVNDWLKTTLCLQYKPQYIAAGSL
YLAAKFQNVKLPVHGGHVWWHQFDVAPKPLEGCSAQAIRKFCLKLH*(+)
MEGMFGGTNLMLPQNLWKAVQHKQFGSSV*(+)
MPTSRMNEQYNCRISDSIISVIPSFLDGENFSSSSLVKYQEYMCSHDNLLVWDSPSISMFEKTC
LRTLQNLQCSFRQNFRIACAEQPSKGFGATSNWCHQTCPPCTGSLTF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14016035-14014542(+) 14016536-14014531(+) 14014759-14016514(-)
Potential amino acid sequence	MEQCTGGTQLQLEESTRRPLLDAMEKLGISQKEVKQVAWNFVNDWLKTTLCLQYKPQYIAAGSL YLAAKFQNVKLPVHGGHVWWHQFDVAPKPLEGCSAQAIRKFCLKLH(+) MEGMFGGTNLMLPQNLWKAVQHKQFGSSV(+) MPTSRMNEQYNCRISDSIISVIPSFLDGENFSSSSLVKYQEYMCSHDNLLVWDSPSISMFEKTC LRTLQNLQCSFRQNFRIACAEQPSKGFGATSNWCHQTCPPCTGSLTF*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0438200_circ_g.1

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