Plant Circular RNA Database

Detail information of Os12g0207300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0207300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_010794
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 5603819-5604925  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							Os12g0207300						
					
						Parent gene annotation
						
							Similar to Clathrin coat assembly protein AP17 (Clathrin coat as
sociated protein AP17) (Plasma membrane adaptor AP-2 17 kDa prot
ein) (HA2 17 kDa subunit) (Clathrin assembly protein 2 small cha
in). (Os12t0207300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						7
					
						Tissues
						seed
					
						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
						Os12t0207300-01:2

General Information
CircRNA Name	Os12g0207300_circ_g.1
ID in PlantcircBase	osa_circ_010794
Alias	NA
Organism	Oryza sativa
Position	chr12: 5603819-5604925 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	Os12g0207300
Parent gene annotation	Similar to Clathrin coat assembly protein AP17 (Clathrin coat as sociated protein AP17) (Plasma membrane adaptor AP-2 17 kDa prot ein) (HA2 17 kDa subunit) (Clathrin assembly protein 2 small cha in). (Os12t0207300-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	7
Tissues	seed
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	Os12t0207300-01:2

			
						 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  
						
							CTGTGAATTTTGTTTCTTATTGTTATGCTATGTTCTGTAGGTTTATTTGATATTGGATGAGTTT
ATTCTCGCTGGAGAACTTCAAGAGACAAGCAAAAGGttccggacgcataaagttatatacaggc
gatatgcaggactgtttttctcaatgtgtgtggatatcactgacaatgagttggcatacttgga
atgcatcc

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						Genomic sequence
						
							TTCCGGACGCATAAAGTTATATACAGGCGATATGCAGGACTGTTTTTCTCAATGTGTGTGGATA
TCACTGACAATGAGTTGGCATACTTGGAATGCATCCACTTGTTTGTCGAGATATTAGATCATTT
CTTCAGCAATGTGTGTGAACTCGACTTAGTATTTAATTTCCACAAGGTAACAGCTATTTCTCAA
CAGGCTATTCCTGTATCAGTATGACAATTATGATACTCATGATCCAATTGCACTCCTTTCTCAT
GTTTAAGCAGAAGTGAAATTTTATTGGCCAATGCTTTTCTTACGTATTTTTCCTTGCACTGGAA
AAGTTTGAACATGATGCAGAATCGTGCAACTTTATACAACACTTCTATATTATGCTGTTAGAGT
TAGAGCTGTTAACTTCTTCTGGCGTTCTTTTTCTTCTTTTTTTTTTCATTTGATCGAGAACCAT
CCTTCATGGGATGAGTCATTATACAGCTCAGAACAGTGGCATGGTACTCCTGAAAACATAACAT
TACTGGCCTAATCTGAGCAAAATTACTTTGTTTCCTTTTAGTTATTTCTGATATTAAGTTGATC
GTATTTTCTTGCATATCACTCGATACTTGGGTCAATGAGATAAGTGTTGCTGTTATGCAAAGGA
TATTGTATTTTAAAGTTTCAGCTATAGTTATACACTGATAAACATTGTAATATAATATGATACC
GTGTCGTGGTCCCATATGTATTTTCTATTCTTTCCCAATAGGGTCAATAATCAAATTTTATTTG
CATTAGACAATAATTTACCTCATGTCCCAATCTGACAATTATTCACTCCAAAGCATTAACTGAA
TTTGGAATGTATAATATTGTAATTCTGATCTTAACTATTATCTTGACCAAATCCTACCAATAAT
TCTGATCTTAACTACTATCTTGACCAAATCCAACCAATTATACTTCTTGTTTTTCTAAATGATT
TTGCCACATCTTATAAGTTTTGAATAAAGGCCATGGGCAGAAGTAATCTGTGAATTTTGTTTCT
TATTGTTATGCTATGTTCTGTAGGTTTATTTGATATTGGATGAGTTTATTCTCGCTGGAGAACT
TCAAGAGACAAGCAAAAGG

Sequences
Splice junction sequence	CTGTGAATTTTGTTTCTTATTGTTATGCTATGTTCTGTAGGTTTATTTGATATTGGATGAGTTT ATTCTCGCTGGAGAACTTCAAGAGACAAGCAAAAGGttccggacgcataaagttatatacaggc gatatgcaggactgtttttctcaatgtgtgtggatatcactgacaatgagttggcatacttgga atgcatcc
Assembled circRNA sequence	NA 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	NA
Genomic sequence	TTCCGGACGCATAAAGTTATATACAGGCGATATGCAGGACTGTTTTTCTCAATGTGTGTGGATA TCACTGACAATGAGTTGGCATACTTGGAATGCATCCACTTGTTTGTCGAGATATTAGATCATTT CTTCAGCAATGTGTGTGAACTCGACTTAGTATTTAATTTCCACAAGGTAACAGCTATTTCTCAA CAGGCTATTCCTGTATCAGTATGACAATTATGATACTCATGATCCAATTGCACTCCTTTCTCAT GTTTAAGCAGAAGTGAAATTTTATTGGCCAATGCTTTTCTTACGTATTTTTCCTTGCACTGGAA AAGTTTGAACATGATGCAGAATCGTGCAACTTTATACAACACTTCTATATTATGCTGTTAGAGT TAGAGCTGTTAACTTCTTCTGGCGTTCTTTTTCTTCTTTTTTTTTTCATTTGATCGAGAACCAT CCTTCATGGGATGAGTCATTATACAGCTCAGAACAGTGGCATGGTACTCCTGAAAACATAACAT TACTGGCCTAATCTGAGCAAAATTACTTTGTTTCCTTTTAGTTATTTCTGATATTAAGTTGATC GTATTTTCTTGCATATCACTCGATACTTGGGTCAATGAGATAAGTGTTGCTGTTATGCAAAGGA TATTGTATTTTAAAGTTTCAGCTATAGTTATACACTGATAAACATTGTAATATAATATGATACC GTGTCGTGGTCCCATATGTATTTTCTATTCTTTCCCAATAGGGTCAATAATCAAATTTTATTTG CATTAGACAATAATTTACCTCATGTCCCAATCTGACAATTATTCACTCCAAAGCATTAACTGAA TTTGGAATGTATAATATTGTAATTCTGATCTTAACTATTATCTTGACCAAATCCTACCAATAAT TCTGATCTTAACTACTATCTTGACCAAATCCAACCAATTATACTTCTTGTTTTTCTAAATGATT TTGCCACATCTTATAAGTTTTGAATAAAGGCCATGGGCAGAAGTAATCTGTGAATTTTGTTTCT TATTGTTATGCTATGTTCTGTAGGTTTATTTGATATTGGATGAGTTTATTCTCGCTGGAGAACT TCAAGAGACAAGCAAAAGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.159071718

Conservation Information
Conserved circRNAs	NA
PMCS	0.159071718

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5603871-5604922(+)
5604883-5603936(+)
5603832-5603974(-)
5603918-5604909(-)
						
						Potential amino acid sequence
						
							MCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVYLILDEFILAGELQETSKRFRT
HKVIYRRYAGLFFSMCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVYLILDEFI
LAGELQETSKRFRTHKVIYRRYAGLFFSMCVDITDNELAYLECIHLFVEILDHFFSNVCELDLV
FNFHKVYLILDEFILAGELQETSKRFRTHKVIYRRYAGLFFSMCVDITDNELAYLECIHLFVEI
LDHFFSNVCELDLVFNFHKVYLILDEFILAGELQETSKR(+)
MSLFSLENFKRQAKGSGRIKLYTGDMQDCFSQCVWISLTMSWHTWNASTCLSRY*(+)
MRPEPFACLLKFSSENKLIQYQINLVEIKY*(-)
MHSKYANSLSVISTHIEKNSPAYRLYITLCVRNLLLVS*(-)
						
						Sponge-miRNAs
						
							osa-miR5337a 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5603871-5604922(+) 5604883-5603936(+) 5603832-5603974(-) 5603918-5604909(-)
Potential amino acid sequence	MCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVYLILDEFILAGELQETSKRFRT HKVIYRRYAGLFFSMCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVYLILDEFI LAGELQETSKRFRTHKVIYRRYAGLFFSMCVDITDNELAYLECIHLFVEILDHFFSNVCELDLV FNFHKVYLILDEFILAGELQETSKRFRTHKVIYRRYAGLFFSMCVDITDNELAYLECIHLFVEI LDHFFSNVCELDLVFNFHKVYLILDEFILAGELQETSKR(+) MSLFSLENFKRQAKGSGRIKLYTGDMQDCFSQCVWISLTMSWHTWNASTCLSRY(+) MRPEPFACLLKFSSENKLIQYQINLVEIKY(-) MHSKYANSLSVISTHIEKNSPAYRLYITLCVRNLLLVS*(-)
Sponge-miRNAs	osa-miR5337a
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0207300_circ_g.1

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