Plant Circular RNA Database

Detail information of orai.007G030900_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.007G030900_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000694
					
						Alias
						Chr07:2135769|2137087
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr07: 2135769-2137087  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.007G030900						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						ovule
					
						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
						Gorai.007G030900.2:3
Gorai.007G030900.1:3
Gorai.007G030900.4:3
Gorai.007G030900.3:3
Gorai.007G030900.6:3
Gorai.007G030900.5:3

General Information
CircRNA Name	orai.007G030900_circ_g.1
ID in PlantcircBase	gra_circ_000694
Alias	Chr07:2135769\|2137087
Organism	Gossypium raimondii
Position	chrChr07: 2135769-2137087 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.007G030900
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	ovule
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	Gorai.007G030900.2:3 Gorai.007G030900.1:3 Gorai.007G030900.4:3 Gorai.007G030900.3:3 Gorai.007G030900.6:3 Gorai.007G030900.5:3

			
						 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  
						
							GTTTGTGGAGGCTACGTCAGTGGTTGGAAATGGTGAATTGCGTCTTACAGGACAACTTGGTGAT
GTTATTAAAGAATCAGCACAAATAGCACTGACATGGctatttgaatgttccatttgacctttca
aaggtgatttttgtggctaccgcaaataggatgcagcctattcctcccccactcttggacagga
tggaagtc

									
								

					

						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: 712
Transcript exons: 2135769-2135982,2136363-2136665,2136893-2137087
CTATTTGAATGTTCCATTTGACCTTTCAAAGGTGATTTTTGTGGCTACCGCAAATAGGATGCAG
CCTATTCCTCCCCCACTCTTGGACAGGATGGAAGTCATTGAGCTGCCTGGATATACAGCTGAAG
AAAAGCTCAGAATAGCCATGCAACATTTGATCCCAAGAGTCTTGGATCAGCATGGATTGAGCTC
TGCGTTCCTTCAAATTCCAGAGGACATGGTTAAACTTGTCATTCAGAGGTACACCAGGGAAGCT
GGCGTCCGTAATCTGGAAAGGAACTTGGCTGCCTTAGCTCGTGCTGCTGCAGTAAGAGTTGCTG
AGCGAGAACAGGCTGTCTCAGTTAGCAAAGATGTTCATAAGATAACTTCACCACTGTTGGATAA
CAGGCTTGCTGAGGGAGCAGAAATGGAAATGGAAGTCATTCCAATGGTTGTAAATAATCATGAG
ATATCAAATGCATTCAGAATTGCCTCACCTTTGGTTGTTGATGAGGCTATGCTGGAAAAAATAT
TGGGGCCTCCTAGATTTGACGATCAAGAAGCTGCAGATCGTGTTGCCACTCCTGGAGTATCTGT
TGGGCTTGTTTGGACAGCTTTTGGAGGAGAGGTTCAGTTTGTGGAGGCTACGTCAGTGGTTGGA
AATGGTGAATTGCGTCTTACAGGACAACTTGGTGATGTTATTAAAGAATCAGCACAAATAGCAC
TGACATGG
						
					

						Genomic sequence
						
							CTATTTGAATGTTCCATTTGACCTTTCAAAGGTGATTTTTGTGGCTACCGCAAATAGGATGCAG
CCTATTCCTCCCCCACTCTTGGACAGGATGGAAGTCATTGAGCTGCCTGGATATACAGCTGAAG
AAAAGCTCAGAATAGCCATGCAACATTTGATCCCAAGAGTCTTGGATCAGCATGGATTGAGCTC
TGCGTTCCTTCAAATTCCAGAGGTATTTGTCACGTGTTCATCTTTTCACTCTAAGTTCATTAAC
ATCTGTTGCTTCCTGATACCTGAGATGTTTTGAGAAATTTGTCAACTGGTGTTTTTGCTCCCTC
ATCACCTCCGTGGTTGAATAAGCAATTATAGGACTAATGTATTGATGTCTACACAGTGTTGCCT
TTATTGATTATCCTCATGGAAGATCTCTAGACTGTTTCACTTTCAACATATAACAAAATGAAGC
TACTTTCATTACTTGAACTCTTCTGTTTAGAATTTAGCTTGAGATTTCAGAGTAAGATGCAAGA
TGAAAGAAGCAACTTTGATCTGAATATGAGACTTGTATGTTATTGTATAATCTTCTCTTAGTGC
TTTTGTTTTTGGTGGTAGGACATGGTTAAACTTGTCATTCAGAGGTACACCAGGGAAGCTGGCG
TCCGTAATCTGGAAAGGAACTTGGCTGCCTTAGCTCGTGCTGCTGCAGTAAGAGTTGCTGAGCG
AGAACAGGCTGTCTCAGTTAGCAAAGATGTTCATAAGATAACTTCACCACTGTTGGATAACAGG
CTTGCTGAGGGAGCAGAAATGGAAATGGAAGTCATTCCAATGGTTGTAAATAATCATGAGATAT
CAAATGCATTCAGAATTGCCTCACCTTTGGTTGTTGATGAGGCTATGCTGGAAAAAATATTGGG
GGTAATAATTCCTCATTTTACTCCTTTTATCAGGATAATCACCTTTATTTCTTTTTATTTTTTT
GGAGCAGCCTTATGATTCACTTTTGTAAATCTTCACAACCGGTTCATATTAAAAAACTTAAATT
CTGGGGAGGGGGCATAGTTGAATATGTTTATGCTTACTGTAGGTTGAGTTCATATTCTTTCTGA
ACATGCCCTAGGACACTTATTTACTCTCTAATGCAGCCTCCTAGATTTGACGATCAAGAAGCTG
CAGATCGTGTTGCCACTCCTGGAGTATCTGTTGGGCTTGTTTGGACAGCTTTTGGAGGAGAGGT
TCAGTTTGTGGAGGCTACGTCAGTGGTTGGAAATGGTGAATTGCGTCTTACAGGACAACTTGGT
GATGTTATTAAAGAATCAGCACAAATAGCACTGACATGG
						
					

			
		

Sequences
Splice junction sequence	GTTTGTGGAGGCTACGTCAGTGGTTGGAAATGGTGAATTGCGTCTTACAGGACAACTTGGTGAT GTTATTAAAGAATCAGCACAAATAGCACTGACATGGctatttgaatgttccatttgacctttca aaggtgatttttgtggctaccgcaaataggatgcagcctattcctcccccactcttggacagga tggaagtc
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: 712 Transcript exons: 2135769-2135982,2136363-2136665,2136893-2137087 CTATTTGAATGTTCCATTTGACCTTTCAAAGGTGATTTTTGTGGCTACCGCAAATAGGATGCAG CCTATTCCTCCCCCACTCTTGGACAGGATGGAAGTCATTGAGCTGCCTGGATATACAGCTGAAG AAAAGCTCAGAATAGCCATGCAACATTTGATCCCAAGAGTCTTGGATCAGCATGGATTGAGCTC TGCGTTCCTTCAAATTCCAGAGGACATGGTTAAACTTGTCATTCAGAGGTACACCAGGGAAGCT GGCGTCCGTAATCTGGAAAGGAACTTGGCTGCCTTAGCTCGTGCTGCTGCAGTAAGAGTTGCTG AGCGAGAACAGGCTGTCTCAGTTAGCAAAGATGTTCATAAGATAACTTCACCACTGTTGGATAA CAGGCTTGCTGAGGGAGCAGAAATGGAAATGGAAGTCATTCCAATGGTTGTAAATAATCATGAG ATATCAAATGCATTCAGAATTGCCTCACCTTTGGTTGTTGATGAGGCTATGCTGGAAAAAATAT TGGGGCCTCCTAGATTTGACGATCAAGAAGCTGCAGATCGTGTTGCCACTCCTGGAGTATCTGT TGGGCTTGTTTGGACAGCTTTTGGAGGAGAGGTTCAGTTTGTGGAGGCTACGTCAGTGGTTGGA AATGGTGAATTGCGTCTTACAGGACAACTTGGTGATGTTATTAAAGAATCAGCACAAATAGCAC TGACATGG
Genomic sequence	CTATTTGAATGTTCCATTTGACCTTTCAAAGGTGATTTTTGTGGCTACCGCAAATAGGATGCAG CCTATTCCTCCCCCACTCTTGGACAGGATGGAAGTCATTGAGCTGCCTGGATATACAGCTGAAG AAAAGCTCAGAATAGCCATGCAACATTTGATCCCAAGAGTCTTGGATCAGCATGGATTGAGCTC TGCGTTCCTTCAAATTCCAGAGGTATTTGTCACGTGTTCATCTTTTCACTCTAAGTTCATTAAC ATCTGTTGCTTCCTGATACCTGAGATGTTTTGAGAAATTTGTCAACTGGTGTTTTTGCTCCCTC ATCACCTCCGTGGTTGAATAAGCAATTATAGGACTAATGTATTGATGTCTACACAGTGTTGCCT TTATTGATTATCCTCATGGAAGATCTCTAGACTGTTTCACTTTCAACATATAACAAAATGAAGC TACTTTCATTACTTGAACTCTTCTGTTTAGAATTTAGCTTGAGATTTCAGAGTAAGATGCAAGA TGAAAGAAGCAACTTTGATCTGAATATGAGACTTGTATGTTATTGTATAATCTTCTCTTAGTGC TTTTGTTTTTGGTGGTAGGACATGGTTAAACTTGTCATTCAGAGGTACACCAGGGAAGCTGGCG TCCGTAATCTGGAAAGGAACTTGGCTGCCTTAGCTCGTGCTGCTGCAGTAAGAGTTGCTGAGCG AGAACAGGCTGTCTCAGTTAGCAAAGATGTTCATAAGATAACTTCACCACTGTTGGATAACAGG CTTGCTGAGGGAGCAGAAATGGAAATGGAAGTCATTCCAATGGTTGTAAATAATCATGAGATAT CAAATGCATTCAGAATTGCCTCACCTTTGGTTGTTGATGAGGCTATGCTGGAAAAAATATTGGG GGTAATAATTCCTCATTTTACTCCTTTTATCAGGATAATCACCTTTATTTCTTTTTATTTTTTT GGAGCAGCCTTATGATTCACTTTTGTAAATCTTCACAACCGGTTCATATTAAAAAACTTAAATT CTGGGGAGGGGGCATAGTTGAATATGTTTATGCTTACTGTAGGTTGAGTTCATATTCTTTCTGA ACATGCCCTAGGACACTTATTTACTCTCTAATGCAGCCTCCTAGATTTGACGATCAAGAAGCTG CAGATCGTGTTGCCACTCCTGGAGTATCTGTTGGGCTTGTTTGGACAGCTTTTGGAGGAGAGGT TCAGTTTGTGGAGGCTACGTCAGTGGTTGGAAATGGTGAATTGCGTCTTACAGGACAACTTGGT GATGTTATTAAAGAATCAGCACAAATAGCACTGACATGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000394* 						
					
						PMCS
						0.991554119

Conservation Information
Conserved circRNAs	gar_circ_000394*
PMCS	0.991554119

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2135827-2135786(+)
2135786-2136987(-)
						
						Potential amino acid sequence
						
							MQPIPPPLLDRMEVIELPGYTAEEKLRIAMQHLIPRVLDQHGLSSAFLQIPEDMVKLVIQRYTR
EAGVRNLERNLAALARAAAVRVAEREQAVSVSKDVHKITSPLLDNRLAEGAEMEMEVIPMVVNN
HEISNAFRIASPLVVDEAMLEKILGPPRFDDQEAADRVATPGVSVGLVWTAFGGEVQFVEATSV
VGNGELRLTGQLGDVIKESAQIALTWLFECSI*(+)
MEHSNSHVSAICADSLITSPSCPVRRNSPFPTTDVASTN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2135827-2135786(+) 2135786-2136987(-)
Potential amino acid sequence	MQPIPPPLLDRMEVIELPGYTAEEKLRIAMQHLIPRVLDQHGLSSAFLQIPEDMVKLVIQRYTR EAGVRNLERNLAALARAAAVRVAEREQAVSVSKDVHKITSPLLDNRLAEGAEMEMEVIPMVVNN HEISNAFRIASPLVVDEAMLEKILGPPRFDDQEAADRVATPGVSVGLVWTAFGGEVQFVEATSV VGNGELRLTGQLGDVIKESAQIALTWLFECSI(+) MEHSNSHVSAICADSLITSPSCPVRRNSPFPTTDVASTN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.007G030900_circ_g.1

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