Plant Circular RNA Database

Detail information of Os04g0656100_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os04g0656100_circ_g.7
					
						ID in PlantcircBase
						osa_circ_025724
					
						Alias
						Os_ciR9641
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 33459707-33460179  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os04g0656100						
					
						Parent gene annotation
						
							H+-ATPase, Blue light-induced stomatal opening of dumbbell-shape
d guard cells, N uptake (Os04t0656100-01);Similar to OSIGBa0158D
24.1 protein. (Os04t0656100-03);Similar to OSIGBa0158D24.1 prote
in. (Os04t0656100-04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0656100_circ_g.1 Os04g0656100_circ_g.2 Os04g0656100_circ_g.3 Os04g0656100_circ_g.4 Os04g0656100_circ_g.5 Os04g0656100_circ_g.6 Os04g0656100_circ_g.8 						
					
						Support reads
						2/1
					
						Tissues
						root/shoot, 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
						Os04t0656100-01:2

General Information
CircRNA Name	Os04g0656100_circ_g.7
ID in PlantcircBase	osa_circ_025724
Alias	Os_ciR9641
Organism	Oryza sativa
Position	chr4: 33459707-33460179 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os04g0656100
Parent gene annotation	H+-ATPase, Blue light-induced stomatal opening of dumbbell-shape d guard cells, N uptake (Os04t0656100-01);Similar to OSIGBa0158D 24.1 protein. (Os04t0656100-03);Similar to OSIGBa0158D24.1 prote in. (Os04t0656100-04)
Parent gene strand	+
Alternative splicing	Os04g0656100_circ_g.1 Os04g0656100_circ_g.2 Os04g0656100_circ_g.3 Os04g0656100_circ_g.4 Os04g0656100_circ_g.5 Os04g0656100_circ_g.6 Os04g0656100_circ_g.8
Support reads	2/1
Tissues	root/shoot, 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	Os04t0656100-01:2

			
						 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  
						
							TGTCCTGCTGGTTATCAACTCCACCATCTCCTTCATCGAAGAGAACAACGCCGGCAACGCCGCT
GCTGCTCTCATGGCCAACCTTGCACCCAAGACCAAGgagaacataccgatcgaggaggtgttcg
agcagctgaaatgtacgcgcgaggggctctcctccgaggaggggaaccggcgtatcgagatgtt
cggcccca

						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: 357
Transcript exons: 33459707-33459826,33459943-33460179
GAGAACATACCGATCGAGGAGGTGTTCGAGCAGCTGAAATGTACGCGCGAGGGGCTCTCCTCCG
AGGAGGGGAACCGGCGTATCGAGATGTTCGGCCCCAACAAGCTCGAGGAGAAGAAGGAGAGCAA
GATACTCAAGTTCTTGGGGTTCATGTGGAACCCGCTGTCGTGGGTCATGGAGATGGCCGCCATC
ATGGCCATCGCGCTGGCCAACGGCGGCGGCAAGCCACCGGACTGGGAGGACTTCGTCGGTATCA
TTGTCCTGCTGGTTATCAACTCCACCATCTCCTTCATCGAAGAGAACAACGCCGGCAACGCCGC
TGCTGCTCTCATGGCCAACCTTGCACCCAAGACCAAG
						
						Genomic sequence
						
							GAGAACATACCGATCGAGGAGGTGTTCGAGCAGCTGAAATGTACGCGCGAGGGGCTCTCCTCCG
AGGAGGGGAACCGGCGTATCGAGATGTTCGGCCCCAACAAGCTCGAGGAGAAGAAGGTGCGTGC
TATGCTTTGTCAAAGCCTTTTGCATTCTCTTGTTGCGTGTGGTTTTCTTTCATTTCTGACGCGA
ATCGCTCATCTTTGTTGCGTCTTTTTGTTTGTGTGCTTGTGCAGGAGAGCAAGATACTCAAGTT
CTTGGGGTTCATGTGGAACCCGCTGTCGTGGGTCATGGAGATGGCCGCCATCATGGCCATCGCG
CTGGCCAACGGCGGCGGCAAGCCACCGGACTGGGAGGACTTCGTCGGTATCATTGTCCTGCTGG
TTATCAACTCCACCATCTCCTTCATCGAAGAGAACAACGCCGGCAACGCCGCTGCTGCTCTCAT
GGCCAACCTTGCACCCAAGACCAAG

Sequences
Splice junction sequence	TGTCCTGCTGGTTATCAACTCCACCATCTCCTTCATCGAAGAGAACAACGCCGGCAACGCCGCT GCTGCTCTCATGGCCAACCTTGCACCCAAGACCAAGgagaacataccgatcgaggaggtgttcg agcagctgaaatgtacgcgcgaggggctctcctccgaggaggggaaccggcgtatcgagatgtt cggcccca
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: 357 Transcript exons: 33459707-33459826,33459943-33460179 GAGAACATACCGATCGAGGAGGTGTTCGAGCAGCTGAAATGTACGCGCGAGGGGCTCTCCTCCG AGGAGGGGAACCGGCGTATCGAGATGTTCGGCCCCAACAAGCTCGAGGAGAAGAAGGAGAGCAA GATACTCAAGTTCTTGGGGTTCATGTGGAACCCGCTGTCGTGGGTCATGGAGATGGCCGCCATC ATGGCCATCGCGCTGGCCAACGGCGGCGGCAAGCCACCGGACTGGGAGGACTTCGTCGGTATCA TTGTCCTGCTGGTTATCAACTCCACCATCTCCTTCATCGAAGAGAACAACGCCGGCAACGCCGC TGCTGCTCTCATGGCCAACCTTGCACCCAAGACCAAG
Genomic sequence	GAGAACATACCGATCGAGGAGGTGTTCGAGCAGCTGAAATGTACGCGCGAGGGGCTCTCCTCCG AGGAGGGGAACCGGCGTATCGAGATGTTCGGCCCCAACAAGCTCGAGGAGAAGAAGGTGCGTGC TATGCTTTGTCAAAGCCTTTTGCATTCTCTTGTTGCGTGTGGTTTTCTTTCATTTCTGACGCGA ATCGCTCATCTTTGTTGCGTCTTTTTGTTTGTGTGCTTGTGCAGGAGAGCAAGATACTCAAGTT CTTGGGGTTCATGTGGAACCCGCTGTCGTGGGTCATGGAGATGGCCGCCATCATGGCCATCGCG CTGGCCAACGGCGGCGGCAAGCCACCGGACTGGGAGGACTTCGTCGGTATCATTGTCCTGCTGG TTATCAACTCCACCATCTCCTTCATCGAAGAGAACAACGCCGGCAACGCCGCTGCTGCTCTCAT GGCCAACCTTGCACCCAAGACCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_014957 zma_circ_003257 						
					
						PMCS
						0.615061293

Conservation Information
Conserved circRNAs	osi_circ_014957 zma_circ_003257
PMCS	0.615061293

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							33459795-33460176(+)
33459746-33460176(+)
33460156-33459709(-)
						
					

						Potential amino acid sequence
						
							MFGPNKLEEKKESKILKFLGFMWNPLSWVMEMAAIMAIALANGGGKPPDWEDFVGIIVLLVINS
TISFIEENNAGNAAAALMANLAPKTKENIPIEEVFEQLKCTREGLSSEEGNRRIEMFGPNKLEE
KKESKILKFLGFMWNPLSWVMEMAAIMAIALANGGGKPPDWEDFVGIIVLLVINSTISFIEENN
AGNAAAALMANLAPKTKENIPIEEVFEQLKCTREGLSSEEGNRRIEMFGPNKLEEKKESKILKF
LGFMWNPLSWVMEMAAIMAIALANGGGKPPDWEDFVGIIVLLVINSTISFIEENNAGNAAAALM
ANLAPKTKENIPIEEVFEQLKCTREGLSSEEGNRRIEMFGPNKLEEKKESKILKFLGFMWNPLS
WVMEMAAIMAIALANGGGKPPDWEDFVGIIVLLVINSTISFIEENNAGNAAAALMANLAPKTK(
+)
MYARGALLRGGEPAYRDVRPQQARGEEGEQDTQVLGVHVEPAVVGHGDGRHHGHRAGQRRRQAT
GLGGLRRYHCPAGYQLHHLLHRREQRRQRRCCSHGQPCTQDQGEHTDRGGVRAAEMYARGALLR
GGEPAYRDVRPQQARGEEGEQDTQVLGVHVEPAVVGHGDGRHHGHRAGQRRRQATGLGGLRRYH
CPAGYQLHHLLHRREQRRQRRCCSHGQPCTQDQGEHTDRGGVRAAEMYARGALLRGGEPAYRDV
RPQQARGEEGEQDTQVLGVHVEPAVVGHGDGRHHGHRAGQRRRQATGLGGLRRYHCPAGYQLHH
LLHRREQRRQRRCCSHGQPCTQDQGEHTDRGGVRAAEMYARGALLRGGEPAYRDVRPQQARGEE
GEQDTQVLGVHVEPAVVGHGDGRHHGHRAGQRRRQATGLGGLRRYHCPAGYQLHHLLHRREQRR
QRRCCSHGQPCTQDQ(+)
MRAAAALPALFSSMKEMVELITSRTMIPTKSSQSGGLPPPLASAMAMMAAISMTHDSGFHMNPK
NLSILLSFFSSSLLGPNISIRRFPSSEESPSRVHFSCSNTSSIGMFSLVLGARLAMRAAAALPA
LFSSMKEMVELITSRTMIPTKSSQSGGLPPPLASAMAMMAAISMTHDSGFHMNPKNLSILLSFF
SSSLLGPNISIRRFPSSEESPSRVHFSCSNTSSIGMFSLVLGARLAMRAAAALPALFSSMKEMV
ELITSRTMIPTKSSQSGGLPPPLASAMAMMAAISMTHDSGFHMNPKNLSILLSFFSSSLLGPNI
SIRRFPSSEESPSRVHFSCSNTSSIGMFSLVLGARLAMRAAAALPALFSSMKEMVELITSRTMI
PTKSSQSGGLPPPLASAMAMMAAISMTHDSGFHMNPKNLSILLSFFSSSLLGPNISIRRFPSSE
ESPSRVHFSCSNTSSIGMF(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	33459795-33460176(+) 33459746-33460176(+) 33460156-33459709(-)
Potential amino acid sequence	MFGPNKLEEKKESKILKFLGFMWNPLSWVMEMAAIMAIALANGGGKPPDWEDFVGIIVLLVINS TISFIEENNAGNAAAALMANLAPKTKENIPIEEVFEQLKCTREGLSSEEGNRRIEMFGPNKLEE KKESKILKFLGFMWNPLSWVMEMAAIMAIALANGGGKPPDWEDFVGIIVLLVINSTISFIEENN AGNAAAALMANLAPKTKENIPIEEVFEQLKCTREGLSSEEGNRRIEMFGPNKLEEKKESKILKF LGFMWNPLSWVMEMAAIMAIALANGGGKPPDWEDFVGIIVLLVINSTISFIEENNAGNAAAALM ANLAPKTKENIPIEEVFEQLKCTREGLSSEEGNRRIEMFGPNKLEEKKESKILKFLGFMWNPLS WVMEMAAIMAIALANGGGKPPDWEDFVGIIVLLVINSTISFIEENNAGNAAAALMANLAPKTK( +) MYARGALLRGGEPAYRDVRPQQARGEEGEQDTQVLGVHVEPAVVGHGDGRHHGHRAGQRRRQAT GLGGLRRYHCPAGYQLHHLLHRREQRRQRRCCSHGQPCTQDQGEHTDRGGVRAAEMYARGALLR GGEPAYRDVRPQQARGEEGEQDTQVLGVHVEPAVVGHGDGRHHGHRAGQRRRQATGLGGLRRYH CPAGYQLHHLLHRREQRRQRRCCSHGQPCTQDQGEHTDRGGVRAAEMYARGALLRGGEPAYRDV RPQQARGEEGEQDTQVLGVHVEPAVVGHGDGRHHGHRAGQRRRQATGLGGLRRYHCPAGYQLHH LLHRREQRRQRRCCSHGQPCTQDQGEHTDRGGVRAAEMYARGALLRGGEPAYRDVRPQQARGEE GEQDTQVLGVHVEPAVVGHGDGRHHGHRAGQRRRQATGLGGLRRYHCPAGYQLHHLLHRREQRR QRRCCSHGQPCTQDQ(+) MRAAAALPALFSSMKEMVELITSRTMIPTKSSQSGGLPPPLASAMAMMAAISMTHDSGFHMNPK NLSILLSFFSSSLLGPNISIRRFPSSEESPSRVHFSCSNTSSIGMFSLVLGARLAMRAAAALPA LFSSMKEMVELITSRTMIPTKSSQSGGLPPPLASAMAMMAAISMTHDSGFHMNPKNLSILLSFF SSSLLGPNISIRRFPSSEESPSRVHFSCSNTSSIGMFSLVLGARLAMRAAAALPALFSSMKEMV ELITSRTMIPTKSSQSGGLPPPLASAMAMMAAISMTHDSGFHMNPKNLSILLSFFSSSLLGPNI SIRRFPSSEESPSRVHFSCSNTSSIGMFSLVLGARLAMRAAAALPALFSSMKEMVELITSRTMI PTKSSQSGGLPPPLASAMAMMAAISMTHDSGFHMNPKNLSILLSFFSSSLLGPNISIRRFPSSE ESPSRVHFSCSNTSSIGMF(-)
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 Os04g0656100_circ_g.7

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