Plant Circular RNA Database

Detail information of Os11g0498400_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os11g0498400_circ_g.2
					
						ID in PlantcircBase
						osa_circ_009402
					
						Alias
						Os_ciR7058
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 17722850-17724371  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os11g0498400						
					
						Parent gene annotation
						
							Zinc finger, C2H2-like domain containing protein. (Os11t0498400-
01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os11t0498400-01:2

General Information
CircRNA Name	Os11g0498400_circ_g.2
ID in PlantcircBase	osa_circ_009402
Alias	Os_ciR7058
Organism	Oryza sativa
Position	chr11: 17722850-17724371 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os11g0498400
Parent gene annotation	Zinc finger, C2H2-like domain containing protein. (Os11t0498400- 01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/1
Tissues	root/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	Os11t0498400-01:2

			
						 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  
						
							ATGTTGGAGAGTGTATCCAACTTCAAGGCTGCTGAGTATTCATATTTCTGAGGCACATGATTCC
TTTTTTCAAGCAAAAGTTGCCCGTGGTTTTCCAATGgttgctctggatctctccgaagatgaac
ggtaccagcttgagaggatggaagtggcgagtgccaagtaagagattgatctttacttatgctt
actctttg

									
								

					

						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: 264
Transcript exons: 17722850-17722914,17724173-17724371
GTTGCTCTGGATCTCTCCGAAGATGAACGGTACCAGCTTGAGAGGATGGAAGTGGCGAGTGCCA
ATGCCCTTTTATGCCCAATTTCTGGCTGTGGTGCTCATCTAGATTGCCTGGAGAACTTTGAGGA
CCACTATCGCACCCGTCATACTGCTTCATGCTCTGTATGTTGGAGAGTGTATCCAACTTCAAGG
CTGCTGAGTATTCATATTTCTGAGGCACATGATTCCTTTTTTCAAGCAAAAGTTGCCCGTGGTT
TTCCAATG
						
					

						Genomic sequence
						
							GTTGCTCTGGATCTCTCCGAAGATGAACGGTACCAGCTTGAGAGGATGGAAGTGGCGAGTGCCA
AGTAAGAGATTGATCTTTACTTATGCTTACTCTTTGGATTGATGATTATTTATCCTTTCCGTTT
CACGCCGAATTAGGGGGGGGGGGGGGTTAGTCCCTGTCACATCAGATGTTTGGACACTAATTTG
AAGTATTAAACGTAGACTATTGACAAAACCCACTCCATAACCTTGGACTAATTCGCGAGACGAA
TCTATTGAGCCAAATTAATCCATGATTAGCCTATGTGATGCTACAGTCAACATGTGCTAATTAT
GGATTAATTAGGCTTAAAAAAAATTTCACGTGAATTAGCTCTCATTTATGTAATTAGTTTTGTA
AGTAGTCTATGTTTAATACTCTAAGGGCCCCTTTGAATCGTAGAAATGAAAAAACGGAGGAATA
GGAAAAACATAGGATTCGACAGGAATATAAGTGTAAAACAGAGGATTGCAAAACACAGGGAAAA
CACATGAATGATCGTTTGATTGGACCAGAGGAAAAACACAAGAATCGGATGAGAGAGATAGACT
CAAAGGATTTTTTCCAAGAGGTTGGACCTCTTGCTAAGTTTCCTCCAAAACCTATATGCCATAA
GCCATTCCATAGGAATTTTGTAGGATTTGGAAAACTTCAATCCTTTCAATCAAAGAGCTATATA
GGAAAATTTCCTACAGGATTTCAATTCTATGAAATTCCTTCATAATTTCATTTGATTCAAAGGG
GCCCTTAATTAGTGTCTAAACATCCGATGTGCCAGGGACTACAGTTTAGTCCCTAGATCCAAAC
ACCCCCTAACATACCCTCTCTACAGATTTAAAACAGCATGTTAATGTACTGTTTTTCTGCATCC
CCATAACACCATAAATTTCTTCGCTGTAGCTAAGGAAGTCCCTGAACCAGTGGTCCACACCCCA
CAGTGACTAAAGTCTGAGAAAATGACAACTGGATGTCTTGAACTAAATTATTGTACGAGTTCTC
TAGAACCTATAATTCAAAATGATTGGCGAGTATTCCATCCTGACACCTGCTAAATCATGTCACC
TTTTGCAGTTGTATGTTCTCTGTGTTGTGTTAGTACTGCAAGTTTTGGTCTCATTCTGTTTATT
TGATCATATATACTACTGCAAGTTTATGTCACCTTTTGCAGTTGTATGTTCTTTGTGTTGTGTT
AGTACTGCAAGTTTTGGTCTCATTCTGTTTATTTGATCATATATACTACTGCAAGTTTTGGTCT
TATCTGTTCGATTTATTTGATCATATGTCTTAAGCTCTTGCAGTGCCCTTTTATGCCCAATTTC
TGGCTGTGGTGCTCATCTAGATTGCCTGGAGAACTTTGAGGACCACTATCGCACCCGTCATACT
GCTTCATGCTCTGTATGTTGGAGAGTGTATCCAACTTCAAGGCTGCTGAGTATTCATATTTCTG
AGGCACATGATTCCTTTTTTCAAGCAAAAGTTGCCCGTGGTTTTCCAATG
						
					

			
		

Sequences
Splice junction sequence	ATGTTGGAGAGTGTATCCAACTTCAAGGCTGCTGAGTATTCATATTTCTGAGGCACATGATTCC TTTTTTCAAGCAAAAGTTGCCCGTGGTTTTCCAATGgttgctctggatctctccgaagatgaac ggtaccagcttgagaggatggaagtggcgagtgccaagtaagagattgatctttacttatgctt actctttg
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: 264 Transcript exons: 17722850-17722914,17724173-17724371 GTTGCTCTGGATCTCTCCGAAGATGAACGGTACCAGCTTGAGAGGATGGAAGTGGCGAGTGCCA ATGCCCTTTTATGCCCAATTTCTGGCTGTGGTGCTCATCTAGATTGCCTGGAGAACTTTGAGGA CCACTATCGCACCCGTCATACTGCTTCATGCTCTGTATGTTGGAGAGTGTATCCAACTTCAAGG CTGCTGAGTATTCATATTTCTGAGGCACATGATTCCTTTTTTCAAGCAAAAGTTGCCCGTGGTT TTCCAATG
Genomic sequence	GTTGCTCTGGATCTCTCCGAAGATGAACGGTACCAGCTTGAGAGGATGGAAGTGGCGAGTGCCA AGTAAGAGATTGATCTTTACTTATGCTTACTCTTTGGATTGATGATTATTTATCCTTTCCGTTT CACGCCGAATTAGGGGGGGGGGGGGGTTAGTCCCTGTCACATCAGATGTTTGGACACTAATTTG AAGTATTAAACGTAGACTATTGACAAAACCCACTCCATAACCTTGGACTAATTCGCGAGACGAA TCTATTGAGCCAAATTAATCCATGATTAGCCTATGTGATGCTACAGTCAACATGTGCTAATTAT GGATTAATTAGGCTTAAAAAAAATTTCACGTGAATTAGCTCTCATTTATGTAATTAGTTTTGTA AGTAGTCTATGTTTAATACTCTAAGGGCCCCTTTGAATCGTAGAAATGAAAAAACGGAGGAATA GGAAAAACATAGGATTCGACAGGAATATAAGTGTAAAACAGAGGATTGCAAAACACAGGGAAAA CACATGAATGATCGTTTGATTGGACCAGAGGAAAAACACAAGAATCGGATGAGAGAGATAGACT CAAAGGATTTTTTCCAAGAGGTTGGACCTCTTGCTAAGTTTCCTCCAAAACCTATATGCCATAA GCCATTCCATAGGAATTTTGTAGGATTTGGAAAACTTCAATCCTTTCAATCAAAGAGCTATATA GGAAAATTTCCTACAGGATTTCAATTCTATGAAATTCCTTCATAATTTCATTTGATTCAAAGGG GCCCTTAATTAGTGTCTAAACATCCGATGTGCCAGGGACTACAGTTTAGTCCCTAGATCCAAAC ACCCCCTAACATACCCTCTCTACAGATTTAAAACAGCATGTTAATGTACTGTTTTTCTGCATCC CCATAACACCATAAATTTCTTCGCTGTAGCTAAGGAAGTCCCTGAACCAGTGGTCCACACCCCA CAGTGACTAAAGTCTGAGAAAATGACAACTGGATGTCTTGAACTAAATTATTGTACGAGTTCTC TAGAACCTATAATTCAAAATGATTGGCGAGTATTCCATCCTGACACCTGCTAAATCATGTCACC TTTTGCAGTTGTATGTTCTCTGTGTTGTGTTAGTACTGCAAGTTTTGGTCTCATTCTGTTTATT TGATCATATATACTACTGCAAGTTTATGTCACCTTTTGCAGTTGTATGTTCTTTGTGTTGTGTT AGTACTGCAAGTTTTGGTCTCATTCTGTTTATTTGATCATATATACTACTGCAAGTTTTGGTCT TATCTGTTCGATTTATTTGATCATATGTCTTAAGCTCTTGCAGTGCCCTTTTATGCCCAATTTC TGGCTGTGGTGCTCATCTAGATTGCCTGGAGAACTTTGAGGACCACTATCGCACCCGTCATACT GCTTCATGCTCTGTATGTTGGAGAGTGTATCCAACTTCAAGGCTGCTGAGTATTCATATTTCTG AGGCACATGATTCCTTTTTTCAAGCAAAAGTTGCCCGTGGTTTTCCAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.221607173

Conservation Information
Conserved circRNAs	NA
PMCS	0.221607173

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17722896-17724368(+)
17724329-17724210(+)
17724266-17722852(-)
						
						Potential amino acid sequence
						
							MEVASANALLCPISGCGAHLDCLENFEDHYRTRHTASCSVCWRVYPTSRLLSIHISEAHDSFFQ
AKVARGFPMVALDLSEDERYQLERMEVASANALLCPISGCGAHLDCLENFEDHYRTRHTASCSV
CWRVYPTSRLLSIHISEAHDSFFQAKVARGFPMVALDLSEDERYQLERMEVASANALLCPISGC
GAHLDCLENFEDHYRTRHTASCSVCWRVYPTSRLLSIHISEAHDSFFQAKVARGFPMVALDLSE
DERYQLERMEVASANALLCPISGCGAHLDCLENFEDHYRTRHTASCSVCWRVYPTSRLLSIHIS
EAHDSFFQAKVARGFPM(+)
MIPFFKQKLPVVFQWLLWISPKMNGTSLRGWKWRVPMPFYAQFLAVVLI*(+)
MKQYDGCDSGPQSSPGNLDEHHSQKLGIKGHWHSPLPSSQAGTVHLRRDPEQPLENHGQLLLEK
RNHVPQKYEYSAALKLDTLSNIQSMKQYDGCDSGPQSSPGNLDEHHSQKLGIKGHWHSPLPSSQ
AGTVHLRRDPEQPLENHGQLLLEKRNHVPQKYEYSAALKLDTLSNIQSMKQYDGCDSGPQSSPG
NLDEHHSQKLGIKGHWHSPLPSSQAGTVHLRRDPEQPLENHGQLLLEKRNHVPQKYEYSAALKL
DTLSNIQSMKQYDGCDSGPQSSPGNLDEHHSQKLGIKGHWHSPLPSSQAGTVHLRRDPEQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17722896-17724368(+) 17724329-17724210(+) 17724266-17722852(-)
Potential amino acid sequence	MEVASANALLCPISGCGAHLDCLENFEDHYRTRHTASCSVCWRVYPTSRLLSIHISEAHDSFFQ AKVARGFPMVALDLSEDERYQLERMEVASANALLCPISGCGAHLDCLENFEDHYRTRHTASCSV CWRVYPTSRLLSIHISEAHDSFFQAKVARGFPMVALDLSEDERYQLERMEVASANALLCPISGC GAHLDCLENFEDHYRTRHTASCSVCWRVYPTSRLLSIHISEAHDSFFQAKVARGFPMVALDLSE DERYQLERMEVASANALLCPISGCGAHLDCLENFEDHYRTRHTASCSVCWRVYPTSRLLSIHIS EAHDSFFQAKVARGFPM(+) MIPFFKQKLPVVFQWLLWISPKMNGTSLRGWKWRVPMPFYAQFLAVVLI*(+) MKQYDGCDSGPQSSPGNLDEHHSQKLGIKGHWHSPLPSSQAGTVHLRRDPEQPLENHGQLLLEK RNHVPQKYEYSAALKLDTLSNIQSMKQYDGCDSGPQSSPGNLDEHHSQKLGIKGHWHSPLPSSQ AGTVHLRRDPEQPLENHGQLLLEKRNHVPQKYEYSAALKLDTLSNIQSMKQYDGCDSGPQSSPG NLDEHHSQKLGIKGHWHSPLPSSQAGTVHLRRDPEQPLENHGQLLLEKRNHVPQKYEYSAALKL DTLSNIQSMKQYDGCDSGPQSSPGNLDEHHSQKLGIKGHWHSPLPSSQAGTVHLRRDPEQ(-)
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 Os11g0498400_circ_g.2

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