Plant Circular RNA Database

Detail information of Os02g0146600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0146600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_013121
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 2558792-2559617  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0146600						
					
						Parent gene annotation
						
							Similar to Eukaryotic initiation factor 4A (eIF4A) (eIF-4A). (Os
02t0146600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0141300_circ_g.1 Os02g0141300_circ_igg.1 Os02g0141300_circ_g.2 Os02g0141300_circ_g.3 Os02g0141300_circ_g.4 Os02g0141300_circ_g.5 Os02g0141300_circ_g.6 Os02g0141300_circ_g.7 Os02g0142250_circ_ag.1 Os02g0142300_circ_g.1 Os02g0142450_circ_g.1 Os02g0142450_circ_g.2 Os02g0142450_circ_g.3 Os02g0142500_circ_igg.1 Os02g0142500_circ_ag.1 Os02g0142500_circ_ag.2 Os02g0143100_circ_g.1 Os02g0143100_circ_g.2 Os02g0143100_circ_g.3 Os02g0143100_circ_g.4 Os02g0143100_circ_g.5 Os02g0143100_circ_g.6 Os02g0143100_circ_g.7 Os02g0143200_circ_g.1 Os02g0143200_circ_g.2 Os02g0145000_circ_g.1 EPlOSAG00000039494_circ_ig.1 EPlOSAG00000039494_circ_ig.2 ENSRNA049472287_circ_ig.1 Os02g0146500_circ_g.1 Os02g0146500_circ_g.2 Os02g0146600_circ_g.2 Os02g0146600_circ_g.3 Os02g0146700_circ_g.1 Os02g0146700_circ_g.2 Os02g0146700_circ_g.3 Os02g0146700_circ_g.4 Os02g0146700_circ_g.5 Os02g0146900_circ_g.1 Os02g0147100_circ_ag.1 Os02g0147100_circ_ag.2 Os02g0147100_circ_ag.3 Os02g0147100_circ_ag.4 Os02g0147100_circ_ag.5 Os02g0147700_circ_igg.1 Os02g0147700_circ_igg.2 						
					
						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
						Os02t0146600-01:3

General Information
CircRNA Name	Os02g0146600_circ_g.1
ID in PlantcircBase	osa_circ_013121
Alias	NA
Organism	Oryza sativa
Position	chr2: 2558792-2559617 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0146600
Parent gene annotation	Similar to Eukaryotic initiation factor 4A (eIF4A) (eIF-4A). (Os 02t0146600-01)
Parent gene strand	+
Alternative splicing	Os02g0141300_circ_g.1 Os02g0141300_circ_igg.1 Os02g0141300_circ_g.2 Os02g0141300_circ_g.3 Os02g0141300_circ_g.4 Os02g0141300_circ_g.5 Os02g0141300_circ_g.6 Os02g0141300_circ_g.7 Os02g0142250_circ_ag.1 Os02g0142300_circ_g.1 Os02g0142450_circ_g.1 Os02g0142450_circ_g.2 Os02g0142450_circ_g.3 Os02g0142500_circ_igg.1 Os02g0142500_circ_ag.1 Os02g0142500_circ_ag.2 Os02g0143100_circ_g.1 Os02g0143100_circ_g.2 Os02g0143100_circ_g.3 Os02g0143100_circ_g.4 Os02g0143100_circ_g.5 Os02g0143100_circ_g.6 Os02g0143100_circ_g.7 Os02g0143200_circ_g.1 Os02g0143200_circ_g.2 Os02g0145000_circ_g.1 EPlOSAG00000039494_circ_ig.1 EPlOSAG00000039494_circ_ig.2 ENSRNA049472287_circ_ig.1 Os02g0146500_circ_g.1 Os02g0146500_circ_g.2 Os02g0146600_circ_g.2 Os02g0146600_circ_g.3 Os02g0146700_circ_g.1 Os02g0146700_circ_g.2 Os02g0146700_circ_g.3 Os02g0146700_circ_g.4 Os02g0146700_circ_g.5 Os02g0146900_circ_g.1 Os02g0147100_circ_ag.1 Os02g0147100_circ_ag.2 Os02g0147100_circ_ag.3 Os02g0147100_circ_ag.4 Os02g0147100_circ_ag.5 Os02g0147700_circ_igg.1 Os02g0147700_circ_igg.2
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	Os02t0146600-01:3

			
						 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  
						
							GTTTGACATGCTACGTCGGCAATCTCTCCGCCCAGACCACATTAAGATGTTTGTGCTGGATGAA
GCTGATGAGATGCTCTCCCGTGGTTTCAAGGATCAGccatggcaggaatggcacccgaaggctc
ccagtttgatgctaagcactatgacagcaagatgcaggaactactgtaagccatcgttctattc
taccgtat

						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: 611
Transcript exons: 2558792-2558864,2558995-2559101,2559187-2559617
CCATGGCAGGAATGGCACCCGAAGGCTCCCAGTTTGATGCTAAGCACTATGACAGCAAGATGCA
GGAACTACTGCACCAAGGTGACAATGAGGAATTCTTCACTTCATATGATGAAGTTTTTGAGAGT
TTTGATGACATGGGCCTCCAAGAGAACCTTCTCAGAGGCATCTATGCTTATGGTTTTGAGAAGC
CATCAGCTATTCAGCAAAGGGGGATTGTTCCCTTCTGCAAAGGGCTTGATGTGATTCAGCAGGC
TCAATCTGGAACAGGAAAAACTGCTACCTTCTGTTCTGGGATCCTGCAGCAACTTGACTATGGA
TTGGTGGAGTGCCAATCCCTGGTCCTTGCACCAACACGTGAGCTTGCCCAGCAAATTGAAAAGG
TCATGCGTGCTCTTGGTGACTACTTAGGTGTCAAGGTGCATGCCTGTGTTGGTGGAACCTCTGT
CCGTGAGGACCAAAGGATTCTTGCTAGTGGTGTGCATGTTGTTGTTGGCACACCTGGACGTGTG
TTTGACATGCTACGTCGGCAATCTCTCCGCCCAGACCACATTAAGATGTTTGTGCTGGATGAAG
CTGATGAGATGCTCTCCCGTGGTTTCAAGGATCAG
						
						Genomic sequence
						
							CCATGGCAGGAATGGCACCCGAAGGCTCCCAGTTTGATGCTAAGCACTATGACAGCAAGATGCA
GGAACTACTGTAAGCCATCGTTCTATTCTACCGTATTTGTAATCTTAGTAGCAGCTAATGGATG
TTTGATTTCTCATTTGCACCACTCGTTATGCTATATGGGTTTCATTATGGACTTTGTGTCTCTC
GCAACATGCAGGCACCAAGGTGACAATGAGGAATTCTTCACTTCATATGATGAAGTTTTTGAGA
GTTTTGATGACATGGGCCTCCAAGAGAACCTTCTCAGAGGCATCTATGCTTATGGTATACAAAA
AGTCTTATCCCTTTTCCATTGTTTCAACAACACATATTTTGGTGATGTTACAAATCCCTGTACT
TTGATGTGTAGGTTTTGAGAAGCCATCAGCTATTCAGCAAAGGGGGATTGTTCCCTTCTGCAAA
GGGCTTGATGTGATTCAGCAGGCTCAATCTGGAACAGGAAAAACTGCTACCTTCTGTTCTGGGA
TCCTGCAGCAACTTGACTATGGATTGGTGGAGTGCCAATCCCTGGTCCTTGCACCAACACGTGA
GCTTGCCCAGCAAATTGAAAAGGTCATGCGTGCTCTTGGTGACTACTTAGGTGTCAAGGTGCAT
GCCTGTGTTGGTGGAACCTCTGTCCGTGAGGACCAAAGGATTCTTGCTAGTGGTGTGCATGTTG
TTGTTGGCACACCTGGACGTGTGTTTGACATGCTACGTCGGCAATCTCTCCGCCCAGACCACAT
TAAGATGTTTGTGCTGGATGAAGCTGATGAGATGCTCTCCCGTGGTTTCAAGGATCAG

Sequences
Splice junction sequence	GTTTGACATGCTACGTCGGCAATCTCTCCGCCCAGACCACATTAAGATGTTTGTGCTGGATGAA GCTGATGAGATGCTCTCCCGTGGTTTCAAGGATCAGccatggcaggaatggcacccgaaggctc ccagtttgatgctaagcactatgacagcaagatgcaggaactactgtaagccatcgttctattc taccgtat
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: 611 Transcript exons: 2558792-2558864,2558995-2559101,2559187-2559617 CCATGGCAGGAATGGCACCCGAAGGCTCCCAGTTTGATGCTAAGCACTATGACAGCAAGATGCA GGAACTACTGCACCAAGGTGACAATGAGGAATTCTTCACTTCATATGATGAAGTTTTTGAGAGT TTTGATGACATGGGCCTCCAAGAGAACCTTCTCAGAGGCATCTATGCTTATGGTTTTGAGAAGC CATCAGCTATTCAGCAAAGGGGGATTGTTCCCTTCTGCAAAGGGCTTGATGTGATTCAGCAGGC TCAATCTGGAACAGGAAAAACTGCTACCTTCTGTTCTGGGATCCTGCAGCAACTTGACTATGGA TTGGTGGAGTGCCAATCCCTGGTCCTTGCACCAACACGTGAGCTTGCCCAGCAAATTGAAAAGG TCATGCGTGCTCTTGGTGACTACTTAGGTGTCAAGGTGCATGCCTGTGTTGGTGGAACCTCTGT CCGTGAGGACCAAAGGATTCTTGCTAGTGGTGTGCATGTTGTTGTTGGCACACCTGGACGTGTG TTTGACATGCTACGTCGGCAATCTCTCCGCCCAGACCACATTAAGATGTTTGTGCTGGATGAAG CTGATGAGATGCTCTCCCGTGGTTTCAAGGATCAG
Genomic sequence	CCATGGCAGGAATGGCACCCGAAGGCTCCCAGTTTGATGCTAAGCACTATGACAGCAAGATGCA GGAACTACTGTAAGCCATCGTTCTATTCTACCGTATTTGTAATCTTAGTAGCAGCTAATGGATG TTTGATTTCTCATTTGCACCACTCGTTATGCTATATGGGTTTCATTATGGACTTTGTGTCTCTC GCAACATGCAGGCACCAAGGTGACAATGAGGAATTCTTCACTTCATATGATGAAGTTTTTGAGA GTTTTGATGACATGGGCCTCCAAGAGAACCTTCTCAGAGGCATCTATGCTTATGGTATACAAAA AGTCTTATCCCTTTTCCATTGTTTCAACAACACATATTTTGGTGATGTTACAAATCCCTGTACT TTGATGTGTAGGTTTTGAGAAGCCATCAGCTATTCAGCAAAGGGGGATTGTTCCCTTCTGCAAA GGGCTTGATGTGATTCAGCAGGCTCAATCTGGAACAGGAAAAACTGCTACCTTCTGTTCTGGGA TCCTGCAGCAACTTGACTATGGATTGGTGGAGTGCCAATCCCTGGTCCTTGCACCAACACGTGA GCTTGCCCAGCAAATTGAAAAGGTCATGCGTGCTCTTGGTGACTACTTAGGTGTCAAGGTGCAT GCCTGTGTTGGTGGAACCTCTGTCCGTGAGGACCAAAGGATTCTTGCTAGTGGTGTGCATGTTG TTGTTGGCACACCTGGACGTGTGTTTGACATGCTACGTCGGCAATCTCTCCGCCCAGACCACAT TAAGATGTTTGTGCTGGATGAAGCTGATGAGATGCTCTCCCGTGGTTTCAAGGATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.582524415

Conservation Information
Conserved circRNAs	NA
PMCS	0.582524415

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2559431-2558825(+)
2558795-2559249(+)
						
						Potential amino acid sequence
						
							MPVLVEPLSVRTKGFLLVVCMLLLAHLDVCLTCYVGNLSAQTTLRCLCWMKLMRCSPVVSRISH
GRNGTRRLPV*(+)
MAGMAPEGSQFDAKHYDSKMQELLHQGDNEEFFTSYDEVFESFDDMGLQENLLRGIYAYGFEKP
SAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVECQSLVLAPTRELAQQIEKV
MRALGDYLGVKVHACVGGTSVREDQRILASGVHVVVGTPGRVFDMLRRQSLRPDHIKMFVLDEA
DEMLSRGFKDQPWQEWHPKAPSLMLSTMTARCRNYCTKVTMRNSSLHMMKFLRVLMTWASKRTF
SEASMLMVLRSHQLFSKGGLFPSAKGLM*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2559431-2558825(+) 2558795-2559249(+)
Potential amino acid sequence	MPVLVEPLSVRTKGFLLVVCMLLLAHLDVCLTCYVGNLSAQTTLRCLCWMKLMRCSPVVSRISH GRNGTRRLPV(+) MAGMAPEGSQFDAKHYDSKMQELLHQGDNEEFFTSYDEVFESFDDMGLQENLLRGIYAYGFEKP SAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVECQSLVLAPTRELAQQIEKV MRALGDYLGVKVHACVGGTSVREDQRILASGVHVVVGTPGRVFDMLRRQSLRPDHIKMFVLDEA DEMLSRGFKDQPWQEWHPKAPSLMLSTMTARCRNYCTKVTMRNSSLHMMKFLRVLMTWASKRTF SEASMLMVLRSHQLFSKGGLFPSAKGLM(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0146600_circ_g.1

Address

Any questions?

Supported by