Plant Circular RNA Database

Detail information of Os05g0592500_circ_g.8

			
						 General Information
					
						CircRNA Name
						Os05g0592500_circ_g.8
					
						ID in PlantcircBase
						osa_circ_029180
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 29523805-29525250  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0592500						
					
						Parent gene annotation
						
							SIT4 phosphatase-associated protein family protein. (Os05t059250
0-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0592500_circ_g.3 Os05g0592500_circ_g.4 Os05g0592500_circ_g.5 Os05g0592500_circ_g.6 Os05g0592500_circ_g.7 Os05g0592500_circ_g.9 Os05g0592500_circ_g.10 						
					
						Support reads
						1
					
						Tissues
						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
						Os05t0592500-01:5

General Information
CircRNA Name	Os05g0592500_circ_g.8
ID in PlantcircBase	osa_circ_029180
Alias	NA
Organism	Oryza sativa
Position	chr5: 29523805-29525250 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0592500
Parent gene annotation	SIT4 phosphatase-associated protein family protein. (Os05t059250 0-01)
Parent gene strand	+
Alternative splicing	Os05g0592500_circ_g.3 Os05g0592500_circ_g.4 Os05g0592500_circ_g.5 Os05g0592500_circ_g.6 Os05g0592500_circ_g.7 Os05g0592500_circ_g.9 Os05g0592500_circ_g.10
Support reads	1
Tissues	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	Os05t0592500-01:5

			
						 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  
						
							GGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCTAATAAGCTTATTCAACTG
GGAAATAGCAACAGCATAATCCAGTCTCATTTGCAGttttgttgggagattatttcgtcatgct
cttcaagaatcacgccccaaatctgtcctggttcattcattatcagtatgtatatctttgttgg
atccaaaa

									
								

					

						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: 694
Transcript exons: 29523805-29524007,29524204-29524301,29524683-29524786,29
524862-29525027,29525128-29525250
TTTTGTTGGGAGATTATTTCGTCATGCTCTTCAAGAATCACGCCCCAAATCTGTCCTGGTTCAT
TCATTATCAGTATGTATATCTTTGTTGGATCCAAAAAGACTAGCGTCAGCCTCATACCAAGCAT
TTAGAAGTAACTTGAGCCATGGGACATTGGTTACTGCTAGTCCAGAGACAGTTGATGGTATGCT
GGAGAGCCTAGGTGATTTGCTGAAGTTGTTGGATATTTCTTCTGCTGAAAATGTTTTACCTACA
ACATATGGATGTTTGCAGCCCCCTCTTGGAAAACACCGCTTGAAGATTGTGGAATTCATCTCTG
TTTTGCTGACGATTGGTAGTGAAACTGCGGAACAGGAGCTAATCAACCAATCTGCAGTAAAACG
TTCCATTGATTTGTTCTTCCAGTACCCTTACAATAACTTTCTGCACCATCATGTCGAGAGTATT
ATCATTTCTTGTCTGGAAGTTAATAGATCCCAGCTGATTGACCATGCCCTTAATGAATGCAATC
TTGTTGGCAAAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATCTAACACACCAAC
ATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCT
AATAAGCTTATTCAACTGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAG
						
					

						Genomic sequence
						
							TTTTGTTGGGAGATTATTTCGTCATGCTCTTCAAGAATCACGCCCCAAATCTGTCCTGGTTCAT
TCATTATCAGTATGTATATCTTTGTTGGATCCAAAAAGACTAGCGTCAGCCTCATACCAAGCAT
TTAGAAGTAACTTGAGCCATGGGACATTGGTTACTGCTAGTCCAGAGACAGTTGATGGTATGCT
GGAGAGCCTAGGTGAGTGCTCTTCTTTTTTTTTTTTGATAGTATTATTAGGCTACTGCTACCTA
AGTAGTTTCTCTCTTAGGATCTTAGTTCTATATACTGTAGACAACATCTGTCTTATGGTATATT
GTGTTTTTGGTGATTTTTTTTAGAGAATCTTTAATATGCATTTCTTCTGCTTACTGATCTATCT
GAAATCACATCGTAGGTGATTTGCTGAAGTTGTTGGATATTTCTTCTGCTGAAAATGTTTTACC
TACAACATATGGATGTTTGCAGCCCCCTCTTGGAAAACACCGCTTGAAGGTATGGCTTCATGTA
GTGAGTTTTTGTAATTGATAGTTTGTGTGCATGTTTCTTTATATTTTGCTCAAGCTAATCCTTC
TTTGCTGAATACCCTGGATCTTAAGCTTTTCTAATTATTTGACGTAAAGCAAAAATCTTGCTTA
TGGGTACCTTGACTTACTTTTATTAATCTTGCCTCGGGATTTCTGGCGAAGTAATTTCTGATAT
ATGCATGCAATTGAGTTCTGATGGTCTAAAACTATCGTGTCCCTTGCATAAGTCTCTTTTGTTA
GTCTAGGCTTGCAATGTCCAATGAATCATTTCTGTTCTTTTGACATGTTCCTTCACAGTCCTTT
CCTGTTCCATTTTGGTTTTAATGCGCGGTATGTTTGTTCCTCCCAGATTGTGGAATTCATCTCT
GTTTTGCTGACGATTGGTAGTGAAACTGCGGAACAGGAGCTAATCAACCAATCTGCAGTAAAAC
GTTCCATTGATTTGTTCTTCCAGTAAGTGGGGCTATTTTATGTGCTCTTCTTCCTAACAATTGC
AAGAGAATCATCACATATTGGTTCGTGCTGCAGGTACCCTTACAATAACTTTCTGCACCATCAT
GTCGAGAGTATTATCATTTCTTGTCTGGAAGTTAATAGATCCCAGCTGATTGACCATGCCCTTA
ATGAATGCAATCTTGTTGGCAAAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATC
TAACACAGTAATCTATTCCTGAATTCTTATGTCCTTCATACCCCTTGTTGCAAGACCAGATATA
CACAGGGTCCTGTATATTGAGTATTCTTATCTTCTATGTGCAGCCAACATTACTATCTGAAGGG
AAGGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCTAATAAGCTTATTCAAC
TGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAG
						
					

			
		

Sequences
Splice junction sequence	GGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCTAATAAGCTTATTCAACTG GGAAATAGCAACAGCATAATCCAGTCTCATTTGCAGttttgttgggagattatttcgtcatgct cttcaagaatcacgccccaaatctgtcctggttcattcattatcagtatgtatatctttgttgg atccaaaa
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: 694 Transcript exons: 29523805-29524007,29524204-29524301,29524683-29524786,29 524862-29525027,29525128-29525250 TTTTGTTGGGAGATTATTTCGTCATGCTCTTCAAGAATCACGCCCCAAATCTGTCCTGGTTCAT TCATTATCAGTATGTATATCTTTGTTGGATCCAAAAAGACTAGCGTCAGCCTCATACCAAGCAT TTAGAAGTAACTTGAGCCATGGGACATTGGTTACTGCTAGTCCAGAGACAGTTGATGGTATGCT GGAGAGCCTAGGTGATTTGCTGAAGTTGTTGGATATTTCTTCTGCTGAAAATGTTTTACCTACA ACATATGGATGTTTGCAGCCCCCTCTTGGAAAACACCGCTTGAAGATTGTGGAATTCATCTCTG TTTTGCTGACGATTGGTAGTGAAACTGCGGAACAGGAGCTAATCAACCAATCTGCAGTAAAACG TTCCATTGATTTGTTCTTCCAGTACCCTTACAATAACTTTCTGCACCATCATGTCGAGAGTATT ATCATTTCTTGTCTGGAAGTTAATAGATCCCAGCTGATTGACCATGCCCTTAATGAATGCAATC TTGTTGGCAAAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATCTAACACACCAAC ATTACTATCTGAAGGGAAGGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCT AATAAGCTTATTCAACTGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAG
Genomic sequence	TTTTGTTGGGAGATTATTTCGTCATGCTCTTCAAGAATCACGCCCCAAATCTGTCCTGGTTCAT TCATTATCAGTATGTATATCTTTGTTGGATCCAAAAAGACTAGCGTCAGCCTCATACCAAGCAT TTAGAAGTAACTTGAGCCATGGGACATTGGTTACTGCTAGTCCAGAGACAGTTGATGGTATGCT GGAGAGCCTAGGTGAGTGCTCTTCTTTTTTTTTTTTGATAGTATTATTAGGCTACTGCTACCTA AGTAGTTTCTCTCTTAGGATCTTAGTTCTATATACTGTAGACAACATCTGTCTTATGGTATATT GTGTTTTTGGTGATTTTTTTTAGAGAATCTTTAATATGCATTTCTTCTGCTTACTGATCTATCT GAAATCACATCGTAGGTGATTTGCTGAAGTTGTTGGATATTTCTTCTGCTGAAAATGTTTTACC TACAACATATGGATGTTTGCAGCCCCCTCTTGGAAAACACCGCTTGAAGGTATGGCTTCATGTA GTGAGTTTTTGTAATTGATAGTTTGTGTGCATGTTTCTTTATATTTTGCTCAAGCTAATCCTTC TTTGCTGAATACCCTGGATCTTAAGCTTTTCTAATTATTTGACGTAAAGCAAAAATCTTGCTTA TGGGTACCTTGACTTACTTTTATTAATCTTGCCTCGGGATTTCTGGCGAAGTAATTTCTGATAT ATGCATGCAATTGAGTTCTGATGGTCTAAAACTATCGTGTCCCTTGCATAAGTCTCTTTTGTTA GTCTAGGCTTGCAATGTCCAATGAATCATTTCTGTTCTTTTGACATGTTCCTTCACAGTCCTTT CCTGTTCCATTTTGGTTTTAATGCGCGGTATGTTTGTTCCTCCCAGATTGTGGAATTCATCTCT GTTTTGCTGACGATTGGTAGTGAAACTGCGGAACAGGAGCTAATCAACCAATCTGCAGTAAAAC GTTCCATTGATTTGTTCTTCCAGTAAGTGGGGCTATTTTATGTGCTCTTCTTCCTAACAATTGC AAGAGAATCATCACATATTGGTTCGTGCTGCAGGTACCCTTACAATAACTTTCTGCACCATCAT GTCGAGAGTATTATCATTTCTTGTCTGGAAGTTAATAGATCCCAGCTGATTGACCATGCCCTTA ATGAATGCAATCTTGTTGGCAAAATTCTTGCTGCTGAAAGAAGTTCCTCCCTGTCAACAGAATC TAACACAGTAATCTATTCCTGAATTCTTATGTCCTTCATACCCCTTGTTGCAAGACCAGATATA CACAGGGTCCTGTATATTGAGTATTCTTATCTTCTATGTGCAGCCAACATTACTATCTGAAGGG AAGGTGCCTCCAAAAATTGGGAATATTGGGCACATAACTCGAATAGCTAATAAGCTTATTCAAC TGGGAAATAGCAACAGCATAATCCAGTCTCATTTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.234384359

Conservation Information
Conserved circRNAs	NA
PMCS	0.234384359

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29523993-29523933(+)
29523934-29525243(-)
						
						Potential amino acid sequence
						
							MLESLGDLLKLLDISSAENVLPTTYGCLQPPLGKHRLKIVEFISVLLTIGSETAEQELINQSAV
KRSIDLFFQYPYNNFLHHHVESIIISCLEVNRSQLIDHALNECNLVGKILAAERSSSLSTESNT
PTLLSEGKVPPKIGNIGHITRIANKLIQLGNSNSIIQSHLQFCWEIISSCSSRITPQICPGSFI
ISMYIFVGSKKTSVSLIPSI*(+)
MLGMRLTLVFLDPTKIYILIMNEPGQIWGVILEEHDEIISQQNCK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29523993-29523933(+) 29523934-29525243(-)
Potential amino acid sequence	MLESLGDLLKLLDISSAENVLPTTYGCLQPPLGKHRLKIVEFISVLLTIGSETAEQELINQSAV KRSIDLFFQYPYNNFLHHHVESIIISCLEVNRSQLIDHALNECNLVGKILAAERSSSLSTESNT PTLLSEGKVPPKIGNIGHITRIANKLIQLGNSNSIIQSHLQFCWEIISSCSSRITPQICPGSFI ISMYIFVGSKKTSVSLIPSI(+) MLGMRLTLVFLDPTKIYILIMNEPGQIWGVILEEHDEIISQQNCK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0592500_circ_g.8

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