Plant Circular RNA Database

Detail information of Os11g0189600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os11g0189600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_008744
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 4526689-4532464  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0189600						
					
						Parent gene annotation
						
							Similar to Cycloartenol synthase. (Os11t0189600-01);Similar to c
DNA clone:J013062J12, full insert sequence. (Os11t0189600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0189600_circ_g.1 Os11g0189600_circ_g.3 						
					
						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
						Os11t0189600-01:5
Os11t0189600-02:5

General Information
CircRNA Name	Os11g0189600_circ_g.2
ID in PlantcircBase	osa_circ_008744
Alias	NA
Organism	Oryza sativa
Position	chr11: 4526689-4532464 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0189600
Parent gene annotation	Similar to Cycloartenol synthase. (Os11t0189600-01);Similar to c DNA clone:J013062J12, full insert sequence. (Os11t0189600-02)
Parent gene strand	+
Alternative splicing	Os11g0189600_circ_g.1 Os11g0189600_circ_g.3
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	Os11t0189600-01:5 Os11t0189600-02:5

			
						 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  
						
							TGGGAGAAAACTGAGGGAGAAAGCTCTGGCCACTTCCATGAGGAATGTTCACTATGAAGATGAG
TGCACTCGATACATCTGTTTCGGTGGTGTACCCAAGattataacattgcatgtcagtggagttc
tgaacactgttttatcatcggaacatcagaaggagatgcgccggtacatctataatcaccaggc
aaggttac

						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: 726
Transcript exons: 4526689-4526775,4527223-4527420,4527529-4527613,4528760-
4528926,4532276-4532464
ATTATAACATTGCATGTCAGTGGAGTTCTGAACACTGTTTTATCATCGGAACATCAGAAGGAGA
TGCGCCGGTACATCTATAATCACCAGAATGAAGATGGAGGGTGGGGGTTGCACATTGAGGGCCA
CAGCACCATGCTTGGCTCATCCCTGAACTATGTTGCTTTGAGATTGCTTGGGGAGGGTCCAAAT
GGTGGAGATGGATGCATAGAGAATGGTCGAAACTGGATTTTAGATCATGGAGGAGCCACATTTA
CGACATCATGGGGGAAGTTCTGGCTCTCGGTACTTGGAGTATTTGATTGGTCCGGTAATAACCC
AGTGCCACCAGAGTTATTACTATTGCCGTATCAACTGCCGTTTCACCCAGGTCGAATGTCGAGC
TATATCCGAATGGTGTTTATACCCATGTCTTACATTTATGGAAAAAGGTTTGTTGGCCCAGTAA
CACCAGTTGTGCTAGAGCTAAGAAGTGAACTATACAATGACCCCTATGATGAGATTGACTGGAA
CAAAGCTCGTACTCAGTGTGCAAAGGAAGATATGTACTATCCACGTTCATCCAAACTGGATATG
TTTTGGTCCTTTCTCCACAAGTTTATTGAACCAGTTTTGTTGCGCTGGCCTGGGAGAAAACTGA
GGGAGAAAGCTCTGGCCACTTCCATGAGGAATGTTCACTATGAAGATGAGTGCACTCGATACAT
CTGTTTCGGTGGTGTACCCAAG
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TGGGAGAAAACTGAGGGAGAAAGCTCTGGCCACTTCCATGAGGAATGTTCACTATGAAGATGAG TGCACTCGATACATCTGTTTCGGTGGTGTACCCAAGattataacattgcatgtcagtggagttc tgaacactgttttatcatcggaacatcagaaggagatgcgccggtacatctataatcaccaggc aaggttac
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: 726 Transcript exons: 4526689-4526775,4527223-4527420,4527529-4527613,4528760- 4528926,4532276-4532464 ATTATAACATTGCATGTCAGTGGAGTTCTGAACACTGTTTTATCATCGGAACATCAGAAGGAGA TGCGCCGGTACATCTATAATCACCAGAATGAAGATGGAGGGTGGGGGTTGCACATTGAGGGCCA CAGCACCATGCTTGGCTCATCCCTGAACTATGTTGCTTTGAGATTGCTTGGGGAGGGTCCAAAT GGTGGAGATGGATGCATAGAGAATGGTCGAAACTGGATTTTAGATCATGGAGGAGCCACATTTA CGACATCATGGGGGAAGTTCTGGCTCTCGGTACTTGGAGTATTTGATTGGTCCGGTAATAACCC AGTGCCACCAGAGTTATTACTATTGCCGTATCAACTGCCGTTTCACCCAGGTCGAATGTCGAGC TATATCCGAATGGTGTTTATACCCATGTCTTACATTTATGGAAAAAGGTTTGTTGGCCCAGTAA CACCAGTTGTGCTAGAGCTAAGAAGTGAACTATACAATGACCCCTATGATGAGATTGACTGGAA CAAAGCTCGTACTCAGTGTGCAAAGGAAGATATGTACTATCCACGTTCATCCAAACTGGATATG TTTTGGTCCTTTCTCCACAAGTTTATTGAACCAGTTTTGTTGCGCTGGCCTGGGAGAAAACTGA GGGAGAAAGCTCTGGCCACTTCCATGAGGAATGTTCACTATGAAGATGAGTGCACTCGATACAT CTGTTTCGGTGGTGTACCCAAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.20174451

Conservation Information
Conserved circRNAs	NA
PMCS	0.20174451

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4526753-4532461(+)
4532410-4526692(+)
4526705-4532299(-)
						
						Potential amino acid sequence
						
							MRRYIYNHQNEDGGWGLHIEGHSTMLGSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATF
TTSWGKFWLSVLGVFDWSGNNPVPPELLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPV
TPVVLELRSELYNDPYDEIDWNKARTQCAKEDMYYPRSSKLDMFWSFLHKFIEPVLLRWPGRKL
REKALATSMRNVHYEDECTRYICFGGVPKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGG
WGLHIEGHSTMLGSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGV
FDWSGNNPVPPELLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYND
PYDEIDWNKARTQCAKEDMYYPRSSKLDMFWSFLHKFIEPVLLRWPGRKLREKALATSMRNVHY
EDECTRYICFGGVPKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGGWGLHIEGHSTMLGS
SLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGVFDWSGNNPVPPELL
LLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYNDPYDEIDWNKARTQC
AKEDMYYPRSSKLDMFWSFLHKFIEPVLLRWPGRKLREKALATSMRNVHYEDECTRYICFGGVP
KIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGGWGLHIEGHSTMLGSSLNYVALRLLGEGP
NGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGVFDWSGNNPVPPELLLLPYQLPFHPGRMS
SYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYNDPYDEIDWNKARTQCAKEDMYYPRSSKLD
MFWSFLHKFIEPVLLRWPGRKLREKALATSMRNVHYEDECTRYICFGGVPK(+)
MFTMKMSALDTSVSVVYPRL*(+)
MQCYNLGYTTETDVSSALIFIVNIPHGSGQSFLPQFSPRPAQQNWFNKLVEKGPKHIQFG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4526753-4532461(+) 4532410-4526692(+) 4526705-4532299(-)
Potential amino acid sequence	MRRYIYNHQNEDGGWGLHIEGHSTMLGSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATF TTSWGKFWLSVLGVFDWSGNNPVPPELLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPV TPVVLELRSELYNDPYDEIDWNKARTQCAKEDMYYPRSSKLDMFWSFLHKFIEPVLLRWPGRKL REKALATSMRNVHYEDECTRYICFGGVPKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGG WGLHIEGHSTMLGSSLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGV FDWSGNNPVPPELLLLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYND PYDEIDWNKARTQCAKEDMYYPRSSKLDMFWSFLHKFIEPVLLRWPGRKLREKALATSMRNVHY EDECTRYICFGGVPKIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGGWGLHIEGHSTMLGS SLNYVALRLLGEGPNGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGVFDWSGNNPVPPELL LLPYQLPFHPGRMSSYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYNDPYDEIDWNKARTQC AKEDMYYPRSSKLDMFWSFLHKFIEPVLLRWPGRKLREKALATSMRNVHYEDECTRYICFGGVP KIITLHVSGVLNTVLSSEHQKEMRRYIYNHQNEDGGWGLHIEGHSTMLGSSLNYVALRLLGEGP NGGDGCIENGRNWILDHGGATFTTSWGKFWLSVLGVFDWSGNNPVPPELLLLPYQLPFHPGRMS SYIRMVFIPMSYIYGKRFVGPVTPVVLELRSELYNDPYDEIDWNKARTQCAKEDMYYPRSSKLD MFWSFLHKFIEPVLLRWPGRKLREKALATSMRNVHYEDECTRYICFGGVPK(+) MFTMKMSALDTSVSVVYPRL(+) MQCYNLGYTTETDVSSALIFIVNIPHGSGQSFLPQFSPRPAQQNWFNKLVEKGPKHIQFG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0189600_circ_g.2

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