Plant Circular RNA Database

Detail information of Os03g0311300_circ_g.11

			
						 General Information
					
						CircRNA Name
						Os03g0311300_circ_g.11
					
						ID in PlantcircBase
						osa_circ_019498
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 11112997-11118809  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0311300						
					
						Parent gene annotation
						
							Similar to HAD-superfamily hydrolase, subfamily IA, variant 3 co
ntaining protein, expressed. (Os03t0311300-01);Similar to HAD-su
perfamily hydrolase, subfamily IA, variant 3 containing protein,
 expressed. (Os03t0311300-02);NHL repeat domain containing prote
in. (Os03t0311300-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0311300_circ_g.4 Os03g0311300_circ_g.5 Os03g0311300_circ_g.6 Os03g0311300_circ_g.7 Os03g0311300_circ_g.8 Os03g0311300_circ_g.9 Os03g0311300_circ_g.10 Os03g0311300_circ_g.12 Os03g0311300_circ_g.13 Os03g0311300_circ_g.14 Os03g0311300_circ_g.15 Os03g0311300_circ_g.16 Os03g0311300_circ_g.17 Os03g0311300_circ_g.18 Os03g0311300_circ_g.19 Os03g0311300_circ_g.20 						
					
						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
						Os03t0311300-02:6
Os03t0311300-03:6

General Information
CircRNA Name	Os03g0311300_circ_g.11
ID in PlantcircBase	osa_circ_019498
Alias	NA
Organism	Oryza sativa
Position	chr3: 11112997-11118809 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0311300
Parent gene annotation	Similar to HAD-superfamily hydrolase, subfamily IA, variant 3 co ntaining protein, expressed. (Os03t0311300-01);Similar to HAD-su perfamily hydrolase, subfamily IA, variant 3 containing protein, expressed. (Os03t0311300-02);NHL repeat domain containing prote in. (Os03t0311300-03)
Parent gene strand	+
Alternative splicing	Os03g0311300_circ_g.4 Os03g0311300_circ_g.5 Os03g0311300_circ_g.6 Os03g0311300_circ_g.7 Os03g0311300_circ_g.8 Os03g0311300_circ_g.9 Os03g0311300_circ_g.10 Os03g0311300_circ_g.12 Os03g0311300_circ_g.13 Os03g0311300_circ_g.14 Os03g0311300_circ_g.15 Os03g0311300_circ_g.16 Os03g0311300_circ_g.17 Os03g0311300_circ_g.18 Os03g0311300_circ_g.19 Os03g0311300_circ_g.20
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	Os03t0311300-02:6 Os03t0311300-03:6

			
						 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  
						
							CAATGGCTGGACAACATCAGATCTGGAAACACAACACATTGGACGGTGTAACAGAAGTTCTCAG
TGGTGATGGCTACGAGAGAAATTTGAATGGATCGAGgttgtaaatgatggggacatgtacttgt
ggagagaactgggggtgaactcttggcctacatttgttgtgattgggcccaacgggaaggtttt
agcacaaa

						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: 740
Transcript exons: 11112997-11113119,11115862-11116059,11116183-11116284,11
116682-11116746,11117764-11117855,11118650-11118809
GTTGTAAATGATGGGGACATGTACTTGTGGAGAGAACTGGGGGTGAACTCTTGGCCTACATTTG
TTGTGATTGGGCCCAACGGGAAGGTTTTAGCACAAATATCAGGTGAAGGTCACAGAAAGGACCT
TGATGATGTGGTTGGTGCAGCTCTTGAATTTTATGAAGAAAATAAATTATTACAAAACAGTTCT
CTTCCCTTGGCATTGGAGAAGGACAAGGATAGTCGTTTACTAGCTTCACCGCTTAAATTTCCTG
GGAAACTTGCAATAGATGTACTGAACAATCGGTTGTTTATATCAGACAGTAATCATAATCGAAT
TGTAGTTACCAACCTGGAAGGGGAATTTATATGTCAAATTGGAAGTTCTGAAGAAGGACTACTT
GATGGCACATTTGATACTGCTTCATTTAATCGCCCTCAAGGTCTTGCTTACAACTCCAAAAAGA
ATATCCTGTATGTTGCAGATACTGAGAACCATGCACTGCGAGAGATTAATTTTGTGAGCGAGAC
TGTCAAAACACTGGCGGGAAATGGAACGAAAGGCTCTGATTACAGAGGAGGAGGTCAGGGAACT
AATCAGGTTCTAAATTCACCATGGGATGTCTGCTATGATCCCTCAAAGGAGACCCTATACATCG
CAATGGCTGGACAACATCAGATCTGGAAACACAACACATTGGACGGTGTAACAGAAGTTCTCAG
TGGTGATGGCTACGAGAGAAATTTGAATGGATCGAG
						
						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	CAATGGCTGGACAACATCAGATCTGGAAACACAACACATTGGACGGTGTAACAGAAGTTCTCAG TGGTGATGGCTACGAGAGAAATTTGAATGGATCGAGgttgtaaatgatggggacatgtacttgt ggagagaactgggggtgaactcttggcctacatttgttgtgattgggcccaacgggaaggtttt agcacaaa
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: 740 Transcript exons: 11112997-11113119,11115862-11116059,11116183-11116284,11 116682-11116746,11117764-11117855,11118650-11118809 GTTGTAAATGATGGGGACATGTACTTGTGGAGAGAACTGGGGGTGAACTCTTGGCCTACATTTG TTGTGATTGGGCCCAACGGGAAGGTTTTAGCACAAATATCAGGTGAAGGTCACAGAAAGGACCT TGATGATGTGGTTGGTGCAGCTCTTGAATTTTATGAAGAAAATAAATTATTACAAAACAGTTCT CTTCCCTTGGCATTGGAGAAGGACAAGGATAGTCGTTTACTAGCTTCACCGCTTAAATTTCCTG GGAAACTTGCAATAGATGTACTGAACAATCGGTTGTTTATATCAGACAGTAATCATAATCGAAT TGTAGTTACCAACCTGGAAGGGGAATTTATATGTCAAATTGGAAGTTCTGAAGAAGGACTACTT GATGGCACATTTGATACTGCTTCATTTAATCGCCCTCAAGGTCTTGCTTACAACTCCAAAAAGA ATATCCTGTATGTTGCAGATACTGAGAACCATGCACTGCGAGAGATTAATTTTGTGAGCGAGAC TGTCAAAACACTGGCGGGAAATGGAACGAAAGGCTCTGATTACAGAGGAGGAGGTCAGGGAACT AATCAGGTTCTAAATTCACCATGGGATGTCTGCTATGATCCCTCAAAGGAGACCCTATACATCG CAATGGCTGGACAACATCAGATCTGGAAACACAACACATTGGACGGTGTAACAGAAGTTCTCAG TGGTGATGGCTACGAGAGAAATTTGAATGGATCGAG
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
						0.306809055

Conservation Information
Conserved circRNAs	NA
PMCS	0.306809055

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11113016-11113000(+)
						
						Potential amino acid sequence
						
							MYLWRELGVNSWPTFVVIGPNGKVLAQISGEGHRKDLDDVVGAALEFYEENKLLQNSSLPLALE
KDKDSRLLASPLKFPGKLAIDVLNNRLFISDSNHNRIVVTNLEGEFICQIGSSEEGLLDGTFDT
ASFNRPQGLAYNSKKNILYVADTENHALREINFVSETVKTLAGNGTKGSDYRGGGQGTNQVLNS
PWDVCYDPSKETLYIAMAGQHQIWKHNTLDGVTEVLSGDGYERNLNGSRL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11113016-11113000(+)
Potential amino acid sequence	MYLWRELGVNSWPTFVVIGPNGKVLAQISGEGHRKDLDDVVGAALEFYEENKLLQNSSLPLALE KDKDSRLLASPLKFPGKLAIDVLNNRLFISDSNHNRIVVTNLEGEFICQIGSSEEGLLDGTFDT ASFNRPQGLAYNSKKNILYVADTENHALREINFVSETVKTLAGNGTKGSDYRGGGQGTNQVLNS PWDVCYDPSKETLYIAMAGQHQIWKHNTLDGVTEVLSGDGYERNLNGSRL*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0311300_circ_g.11

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