Plant Circular RNA Database

Detail information of orai.009G228700_circ_g.2

			
						 General Information
					
						CircRNA Name
						orai.009G228700_circ_g.2
					
						ID in PlantcircBase
						gra_circ_000963
					
						Alias
						Chr09:17963973|17965327
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 17963973-17965327  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G228700						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						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.009G228700.6:5
Gorai.009G228700.3:5
Gorai.009G228700.2:5
Gorai.009G228700.9:5
Gorai.009G228700.1:5
Gorai.009G228700.10:5
Gorai.009G228700.5:5
Gorai.009G228700.4:5

General Information
CircRNA Name	orai.009G228700_circ_g.2
ID in PlantcircBase	gra_circ_000963
Alias	Chr09:17963973\|17965327
Organism	Gossypium raimondii
Position	chrChr09: 17963973-17965327 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.009G228700
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	4
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.009G228700.6:5 Gorai.009G228700.3:5 Gorai.009G228700.2:5 Gorai.009G228700.9:5 Gorai.009G228700.1:5 Gorai.009G228700.10:5 Gorai.009G228700.5:5 Gorai.009G228700.4:5

			
						 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  
						
							ATTTCACCGTGTGGAGTTCACTGGGACTTGGAGAAGACTGTTCTCTCGAGTTAAGAAGCATATT
ATATGGGGAGTTCTAAAGTCTGTAACAGGAATGCAGaaaagtcatgcttcatgtggatgcgaag
cagggtgctccgaaagatggaaactcctctctggatcattttcaggtaaaattcaattttctta
ttttcttt

						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
						
							AAAAGTCATGCTTCATGTGGATGCGAAGCAGGGTGCTCCGAAAGATGGAAACTCCTCTCTGGAT
CATTTTCAGGTAAAATTCAATTTTCTTATTTTCTTTTTGTCAGCCCTTGATTCCTTGAGCATAT
ATTTCAAATGAGTTTGAGTGTTTAATGATTGAGAAGCTAGGATGCCTATTTTTATATTAGATAT
TAGAAGCATTTGTGACTACTATTATTTATAAAAATTACGATGAGGTATTTCTTTACCCTGTAGG
TAGAGATATACCCCCTTAAGATTCATTTGACAGAGACAATGTACAGAATGATGTGGGGGTATTT
CTTCCCAGAAGAAGAACAAGATTCGCAAAGACGGCAGGTTAGTTTTGGGCTTCAGATCATGAAG
TCCATGAGCAAATTTCTAGTGCAATTAGTGAATGTCCTCATGCTTGAATTTTGGAGATGCAGGA
AGTTTGGAAGGGCTCCACAACATCTGTTGCAAGACGTCTAAAGAAGGGTGCCTTAAACCATGAT
GCTTCTGCATCAGGCATCCACTCAACAAAGGAGTCTGAAGTACCATCCAAGCCAAGTGTGTCTT
GTACATCCATTACCAATCAGTCTGCTCCTGCTGGATCTGCCCAAGTGAGGATCGTTATGTTTCC
CTACCTTGTAGTATTTCGTCAACTTAGTGATTTATTTAAGTCATATTCCTATATTAAGCTTTGG
ATCATTATATTTCTCTGTTTTAATTTTCATTTTTGAACCCCACATGCAGGCATCTAAGATACAA
GACCCAAAATCACATGTTTCTGGTTCTGGCCCTGAGTTGAGGAGAACATCTTCTTTTGACAGAA
CATGGGAAGAGACTGTTGCAGAATCAGTGGCTAATGAACTTGTCCTACAGGCTCATTCTTCCAG
CGTTTCTTCCACTAAAAGTGGACCACTTGTTTCCACTGAGCAACAAGATGAATCCTCTAAAAAT
AAAATGAAAGACACAAAATCTGTTAAGTCTGGTCGATCATCTCAGGAAGAGAAGAAGGTTGGAA
AATCCAATGAAGAGAAAAAATCTAGGCCTCGGAAAATGATGGAATTTCACAATATCAAGATAAG
TCAGGTTGGTTTAGTTTTGGTTAATTTTAATTTGGTCATCTCTTGTTCTGTATTTCCGTTCTTT
GGTTTTTATTGACGTATATTTCTGTTGTGCATTAGGTTGAACTACTAGTTACATATGAAGGGTC
CAGATTTGTTGTAAATGATCTCAAGTTGCTGATGGATACATTTCACCGTGTGGAGTTCACTGGG
ACTTGGAGAAGACTGTTCTCTCGAGTTAAGAAGCATATTATATGGGGAGTTCTAAAGTCTGTAA
CAGGAATGCAG

Sequences
Splice junction sequence	ATTTCACCGTGTGGAGTTCACTGGGACTTGGAGAAGACTGTTCTCTCGAGTTAAGAAGCATATT ATATGGGGAGTTCTAAAGTCTGTAACAGGAATGCAGaaaagtcatgcttcatgtggatgcgaag cagggtgctccgaaagatggaaactcctctctggatcattttcaggtaaaattcaattttctta ttttcttt
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	AAAAGTCATGCTTCATGTGGATGCGAAGCAGGGTGCTCCGAAAGATGGAAACTCCTCTCTGGAT CATTTTCAGGTAAAATTCAATTTTCTTATTTTCTTTTTGTCAGCCCTTGATTCCTTGAGCATAT ATTTCAAATGAGTTTGAGTGTTTAATGATTGAGAAGCTAGGATGCCTATTTTTATATTAGATAT TAGAAGCATTTGTGACTACTATTATTTATAAAAATTACGATGAGGTATTTCTTTACCCTGTAGG TAGAGATATACCCCCTTAAGATTCATTTGACAGAGACAATGTACAGAATGATGTGGGGGTATTT CTTCCCAGAAGAAGAACAAGATTCGCAAAGACGGCAGGTTAGTTTTGGGCTTCAGATCATGAAG TCCATGAGCAAATTTCTAGTGCAATTAGTGAATGTCCTCATGCTTGAATTTTGGAGATGCAGGA AGTTTGGAAGGGCTCCACAACATCTGTTGCAAGACGTCTAAAGAAGGGTGCCTTAAACCATGAT GCTTCTGCATCAGGCATCCACTCAACAAAGGAGTCTGAAGTACCATCCAAGCCAAGTGTGTCTT GTACATCCATTACCAATCAGTCTGCTCCTGCTGGATCTGCCCAAGTGAGGATCGTTATGTTTCC CTACCTTGTAGTATTTCGTCAACTTAGTGATTTATTTAAGTCATATTCCTATATTAAGCTTTGG ATCATTATATTTCTCTGTTTTAATTTTCATTTTTGAACCCCACATGCAGGCATCTAAGATACAA GACCCAAAATCACATGTTTCTGGTTCTGGCCCTGAGTTGAGGAGAACATCTTCTTTTGACAGAA CATGGGAAGAGACTGTTGCAGAATCAGTGGCTAATGAACTTGTCCTACAGGCTCATTCTTCCAG CGTTTCTTCCACTAAAAGTGGACCACTTGTTTCCACTGAGCAACAAGATGAATCCTCTAAAAAT AAAATGAAAGACACAAAATCTGTTAAGTCTGGTCGATCATCTCAGGAAGAGAAGAAGGTTGGAA AATCCAATGAAGAGAAAAAATCTAGGCCTCGGAAAATGATGGAATTTCACAATATCAAGATAAG TCAGGTTGGTTTAGTTTTGGTTAATTTTAATTTGGTCATCTCTTGTTCTGTATTTCCGTTCTTT GGTTTTTATTGACGTATATTTCTGTTGTGCATTAGGTTGAACTACTAGTTACATATGAAGGGTC CAGATTTGTTGTAAATGATCTCAAGTTGCTGATGGATACATTTCACCGTGTGGAGTTCACTGGG ACTTGGAGAAGACTGTTCTCTCGAGTTAAGAAGCATATTATATGGGGAGTTCTAAAGTCTGTAA CAGGAATGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.16973294

Conservation Information
Conserved circRNAs	NA
PMCS	0.16973294

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17965294-17964228(+)
17963980-17964244(+)
17964255-17965292(-)
						
						Potential amino acid sequence
						
							MGSSKVCNRNAEKSCFMWMRSRVLRKMETPLWIIFR*(+)
MLHVDAKQGAPKDGNSSLDHFQVEIYPLKIHLTETMYRMMWGYFFPEEEQDSQRRQEVWKGSTT
SVARRLKKGALNHDASASGIHSTKESEVPSKPSVSCTSITNQSAPAGSAQASKIQDPKSHVSGS
GPELRRTSSFDRTWEETVAESVANELVLQAHSSSVSSTKSGPLVSTEQQDESSKNKMKDTKSVK
SGRSSQEEKKVGKSNEEKKSRPRKMMEFHNIKISQVELLVTYEGSRFVVNDLKLLMDTFHRVEF
TGTWRRLFSRVKKHIIWGVLKSVTGMQKSHASCGCEAGCSERWKLLSGSFSGRDIPP*(+)
MNLKGVYLYLKMIQRGVSIFRSTLLRIHMKHDFSAFLLQTLELPI*(-)
						
						Sponge-miRNAs
						
							gra-miR8765 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17965294-17964228(+) 17963980-17964244(+) 17964255-17965292(-)
Potential amino acid sequence	MGSSKVCNRNAEKSCFMWMRSRVLRKMETPLWIIFR(+) MLHVDAKQGAPKDGNSSLDHFQVEIYPLKIHLTETMYRMMWGYFFPEEEQDSQRRQEVWKGSTT SVARRLKKGALNHDASASGIHSTKESEVPSKPSVSCTSITNQSAPAGSAQASKIQDPKSHVSGS GPELRRTSSFDRTWEETVAESVANELVLQAHSSSVSSTKSGPLVSTEQQDESSKNKMKDTKSVK SGRSSQEEKKVGKSNEEKKSRPRKMMEFHNIKISQVELLVTYEGSRFVVNDLKLLMDTFHRVEF TGTWRRLFSRVKKHIIWGVLKSVTGMQKSHASCGCEAGCSERWKLLSGSFSGRDIPP(+) MNLKGVYLYLKMIQRGVSIFRSTLLRIHMKHDFSAFLLQTLELPI*(-)
Sponge-miRNAs	gra-miR8765
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G228700_circ_g.2

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