Plant Circular RNA Database

Detail information of Os02g0158800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0158800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_013197
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 3200972-3201965  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0158800						
					
						Parent gene annotation
						
							Protein of unknown function DUF246, plant family protein. (Os02t
0158800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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
						Os02t0158800-01:4

General Information
CircRNA Name	Os02g0158800_circ_g.2
ID in PlantcircBase	osa_circ_013197
Alias	NA
Organism	Oryza sativa
Position	chr2: 3200972-3201965 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0158800
Parent gene annotation	Protein of unknown function DUF246, plant family protein. (Os02t 0158800-01)
Parent gene strand	+
Alternative splicing	NA
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	Os02t0158800-01:4

			
						 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  
						
							ACTGGGTTACACAAGAGGAACACAGATATACGTTGCGTCAGGGCAAGTGTATGGCGGCAAAAAC
AGGATGGCTCCCCTCCGAAACATGTTCCCAAATTTGgcgtactgtgaagaacatcccaaagtat
gcatctgctcagttttacattgataatgtactcccgaggatcaaagagaaaaagataatgtcta
ttaagcca

									
								

					

						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: 577
Transcript exons: 3200972-3201088,3201292-3201435,3201539-3201662,3201774-
3201965
GCGTACTGTGAAGAACATCCCAAAGTATGCATCTGCTCAGTTTTACATTGATAATGTACTCCCG
AGGATCAAAGAGAAAAAGATAATGTCTATTAAGCCATTTGTCGACAGGTTGGGGTACGATAATG
TCCCAATGGAGATTAACCGGCTACGATGCAGAGTTAATTATCATGCACTAAAGTTCCTGCCTGA
CATTGAAGAAATGGCTGATAAGCTGGCAGCAAGGATGAGGAACCGAACTGGCAGTGTAAATCCG
TACATGGCTCTTCATCTGAGATTTGAGAAAGGAATGGTAGGCCTGTCCTTTTGTGATTTTGCTG
GGACGCGGGAGGAGAAAGAGATGATGGCTGCTTATAGGCAGAAAGAATGGCCAAGGCGCTATAA
GAATGGGTCTCACCTGTGGCCATTAGCTCTGCAAAAGAGAAAAGAAGGCCGTTGCCCTCTTGAG
CCTGGCGAGATCGCTATCATCCTCCGGGCACTGGGTTACACAAGAGGAACACAGATATACGTTG
CGTCAGGGCAAGTGTATGGCGGCAAAAACAGGATGGCTCCCCTCCGAAACATGTTCCCAAATTT
G
						
					

						Genomic sequence
						
							GCGTACTGTGAAGAACATCCCAAAGTATGCATCTGCTCAGTTTTACATTGATAATGTACTCCCG
AGGATCAAAGAGAAAAAGATAATGTCTATTAAGCCATTTGTCGACAGGTTGGGGTAAGTCAATA
ATTGACTGATGATTATTCATACATTTTATTCCGAAATCCAAAATATCAATCAAGTTCAATCAGC
TCCAGCACATTATGAAGGGAACATTGTTCCCTCCTTTTTTTGCTTTGTAGTTTCTGATATACTA
CAATTTACCATATCTTTGCATGGCATTGAACAACCAAAGCCTAACATAAAAACTTCAATTTCAG
GTACGATAATGTCCCAATGGAGATTAACCGGCTACGATGCAGAGTTAATTATCATGCACTAAAG
TTCCTGCCTGACATTGAAGAAATGGCTGATAAGCTGGCAGCAAGGATGAGGAACCGAACTGGCA
GTGTAAATCCGTACATGTAAGCTACCTTAGAGAATACAGCCATCTGCTGCTTGCCCAACCTAAC
TGAAGTTGGCAACTTAAGTTCATTTCTAATCAAGTGTAGCACTTTCCTTTTGAAGGGCTCTTCA
TCTGAGATTTGAGAAAGGAATGGTAGGCCTGTCCTTTTGTGATTTTGCTGGGACGCGGGAGGAG
AAAGAGATGATGGCTGCTTATAGGCAGAAAGAATGGCCAAGGCGCTATAAGGTCATACAGAGTC
CCAGTTGTCTGATGAGTTCAGTCTTTAAACTTTGTAGATGTGAAGCACACATGCTTTAGCAATC
TAACAAATTGTCTCTTTCCTGTATTCCCATGCAGAATGGGTCTCACCTGTGGCCATTAGCTCTG
CAAAAGAGAAAAGAAGGCCGTTGCCCTCTTGAGCCTGGCGAGATCGCTATCATCCTCCGGGCAC
TGGGTTACACAAGAGGAACACAGATATACGTTGCGTCAGGGCAAGTGTATGGCGGCAAAAACAG
GATGGCTCCCCTCCGAAACATGTTCCCAAATTTG
						
					

			
		

Sequences
Splice junction sequence	ACTGGGTTACACAAGAGGAACACAGATATACGTTGCGTCAGGGCAAGTGTATGGCGGCAAAAAC AGGATGGCTCCCCTCCGAAACATGTTCCCAAATTTGgcgtactgtgaagaacatcccaaagtat gcatctgctcagttttacattgataatgtactcccgaggatcaaagagaaaaagataatgtcta ttaagcca
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: 577 Transcript exons: 3200972-3201088,3201292-3201435,3201539-3201662,3201774- 3201965 GCGTACTGTGAAGAACATCCCAAAGTATGCATCTGCTCAGTTTTACATTGATAATGTACTCCCG AGGATCAAAGAGAAAAAGATAATGTCTATTAAGCCATTTGTCGACAGGTTGGGGTACGATAATG TCCCAATGGAGATTAACCGGCTACGATGCAGAGTTAATTATCATGCACTAAAGTTCCTGCCTGA CATTGAAGAAATGGCTGATAAGCTGGCAGCAAGGATGAGGAACCGAACTGGCAGTGTAAATCCG TACATGGCTCTTCATCTGAGATTTGAGAAAGGAATGGTAGGCCTGTCCTTTTGTGATTTTGCTG GGACGCGGGAGGAGAAAGAGATGATGGCTGCTTATAGGCAGAAAGAATGGCCAAGGCGCTATAA GAATGGGTCTCACCTGTGGCCATTAGCTCTGCAAAAGAGAAAAGAAGGCCGTTGCCCTCTTGAG CCTGGCGAGATCGCTATCATCCTCCGGGCACTGGGTTACACAAGAGGAACACAGATATACGTTG CGTCAGGGCAAGTGTATGGCGGCAAAAACAGGATGGCTCCCCTCCGAAACATGTTCCCAAATTT G
Genomic sequence	GCGTACTGTGAAGAACATCCCAAAGTATGCATCTGCTCAGTTTTACATTGATAATGTACTCCCG AGGATCAAAGAGAAAAAGATAATGTCTATTAAGCCATTTGTCGACAGGTTGGGGTAAGTCAATA ATTGACTGATGATTATTCATACATTTTATTCCGAAATCCAAAATATCAATCAAGTTCAATCAGC TCCAGCACATTATGAAGGGAACATTGTTCCCTCCTTTTTTTGCTTTGTAGTTTCTGATATACTA CAATTTACCATATCTTTGCATGGCATTGAACAACCAAAGCCTAACATAAAAACTTCAATTTCAG GTACGATAATGTCCCAATGGAGATTAACCGGCTACGATGCAGAGTTAATTATCATGCACTAAAG TTCCTGCCTGACATTGAAGAAATGGCTGATAAGCTGGCAGCAAGGATGAGGAACCGAACTGGCA GTGTAAATCCGTACATGTAAGCTACCTTAGAGAATACAGCCATCTGCTGCTTGCCCAACCTAAC TGAAGTTGGCAACTTAAGTTCATTTCTAATCAAGTGTAGCACTTTCCTTTTGAAGGGCTCTTCA TCTGAGATTTGAGAAAGGAATGGTAGGCCTGTCCTTTTGTGATTTTGCTGGGACGCGGGAGGAG AAAGAGATGATGGCTGCTTATAGGCAGAAAGAATGGCCAAGGCGCTATAAGGTCATACAGAGTC CCAGTTGTCTGATGAGTTCAGTCTTTAAACTTTGTAGATGTGAAGCACACATGCTTTAGCAATC TAACAAATTGTCTCTTTCCTGTATTCCCATGCAGAATGGGTCTCACCTGTGGCCATTAGCTCTG CAAAAGAGAAAAGAAGGCCGTTGCCCTCTTGAGCCTGGCGAGATCGCTATCATCCTCCGGGCAC TGGGTTACACAAGAGGAACACAGATATACGTTGCGTCAGGGCAAGTGTATGGCGGCAAAAACAG GATGGCTCCCCTCCGAAACATGTTCCCAAATTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.326167983

Conservation Information
Conserved circRNAs	NA
PMCS	0.326167983

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3201058-3201019(+)
3201917-3201019(+)
3200991-3201905(-)
3201005-3201874(-)
						
						Potential amino acid sequence
						
							MSIKPFVDRLGYDNVPMEINRLRCRVNYHALKFLPDIEEMADKLAARMRNRTGSVNPYMALHLR
FEKGMVGLSFCDFAGTREEKEMMAAYRQKEWPRRYKNGSHLWPLALQKRKEGRCPLEPGEIAII
LRALGYTRGTQIYVASGQVYGGKNRMAPLRNMFPNLAYCEEHPKVCICSVLH*(+)
MAAKTGWLPSETCSQIWRTVKNIPKYASAQFYIDNVLPRIKEKKIMSIKPFVDRLGYDNVPMEI
NRLRCRVNYHALKFLPDIEEMADKLAARMRNRTGSVNPYMALHLRFEKGMVGLSFCDFAGTREE
KEMMAAYRQKEWPRRYKNGSHLWPLALQKRKEGRCPLEPGEIAIILRALGYTRGTQIYVASGQV
YGGKNRMAPLRNMFPNLAYCEEHPKVCICSVLH*(+)
MFFTVRQIWEHVSEGSHPVFAAIHLP*(-)
MHTLGCSSQYAKFGNMFRRGAILFLPPYTCPDATYICVPLV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3201058-3201019(+) 3201917-3201019(+) 3200991-3201905(-) 3201005-3201874(-)
Potential amino acid sequence	MSIKPFVDRLGYDNVPMEINRLRCRVNYHALKFLPDIEEMADKLAARMRNRTGSVNPYMALHLR FEKGMVGLSFCDFAGTREEKEMMAAYRQKEWPRRYKNGSHLWPLALQKRKEGRCPLEPGEIAII LRALGYTRGTQIYVASGQVYGGKNRMAPLRNMFPNLAYCEEHPKVCICSVLH(+) MAAKTGWLPSETCSQIWRTVKNIPKYASAQFYIDNVLPRIKEKKIMSIKPFVDRLGYDNVPMEI NRLRCRVNYHALKFLPDIEEMADKLAARMRNRTGSVNPYMALHLRFEKGMVGLSFCDFAGTREE KEMMAAYRQKEWPRRYKNGSHLWPLALQKRKEGRCPLEPGEIAIILRALGYTRGTQIYVASGQV YGGKNRMAPLRNMFPNLAYCEEHPKVCICSVLH(+) MFFTVRQIWEHVSEGSHPVFAAIHLP(-) MHTLGCSSQYAKFGNMFRRGAILFLPPYTCPDATYICVPLV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0158800_circ_g.2

Address

Any questions?

Supported by