Plant Circular RNA Database

Detail information of orai.001G016000_circ_g.2

			
						 General Information
					
						CircRNA Name
						orai.001G016000_circ_g.2
					
						ID in PlantcircBase
						gra_circ_000011
					
						Alias
						Chr01:1499873|1501211
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr01: 1499873-1501211  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.001G016000						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							orai.001G016000_circ_g.1 orai.001G016000_circ_g.3 						
					
						Support reads
						5/5
					
						Tissues
						leaf/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.001G016000.4:6
Gorai.001G016000.6:6
Gorai.001G016000.2:6
Gorai.001G016000.1:6
Gorai.001G016000.7:6
Gorai.001G016000.3:5
Gorai.001G016000.8:6
Gorai.001G016000.5:6

General Information
CircRNA Name	orai.001G016000_circ_g.2
ID in PlantcircBase	gra_circ_000011
Alias	Chr01:1499873\|1501211
Organism	Gossypium raimondii
Position	chrChr01: 1499873-1501211 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.001G016000
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	orai.001G016000_circ_g.1 orai.001G016000_circ_g.3
Support reads	5/5
Tissues	leaf/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.001G016000.4:6 Gorai.001G016000.6:6 Gorai.001G016000.2:6 Gorai.001G016000.1:6 Gorai.001G016000.7:6 Gorai.001G016000.3:5 Gorai.001G016000.8:6 Gorai.001G016000.5:6

			
						 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  
						
							TTCGTAATTTCCCTCGTTTCTACAGGTATTATCAAGACAGGAGATCGATCTACTCACGGCTCAG
GCATGGCTCTCGGAAAATAAACAGCTCGAGCAAAAGgtgttcaaaaaggaggttgtatttgtca
ttgatataactgacagcatgcaagggagaccacttgaggctactaagaatgcaatatcttctgc
catgtcta

									
								

					

						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: 852
Transcript exons: 1499873-1500142,1500217-1500373,1500454-1500531,1500614-
1500714,1500853-1501023,1501137-1501211
GTGTTCAAAAAGGAGGTTGTATTTGTCATTGATATAACTGACAGCATGCAAGGGAGACCACTTG
AGGCTACTAAGAATGCAATATCTTCTGCCATGTCTAAACTCGGTCCTGAAGATTCATTCAACAT
TATAACATTCAGTAGTGAGACTTCTCTATTTTCAACATCCATGGAGTTGGCTTCCAAGGAAGCA
ATCGAAAGGGCCACGACATGGCTTAGCACGAAATCAACTGTTGAGGGCAGTACATGTATATCAA
TTCCACTAGAACATGCATATGAGATGCTATCAAACACAAGTGGTTCACTTCCGATGATTTTTCT
TATTACTGATGGGGCTGTTGAAGATGAGAGAAACATATGTGACCAGATGAAAAAGCGTTTGAAA
AACAGTGGATCACTCTGTCCACGCATACATACTTTCGGGATAGGTTCATTTTGTAATCATTATT
TCCTCCGCATGCTTGCCATGATCGGTAGGGGAGAATTCGATGCCGTTTGTGATCTAGATCTAAT
CGACAATCGGATACAAAAATTATTTAGCAATGCTTTCTCTACCGTTCTTGCCGATATAACCGTT
GATGCATTCAATGATCATGAACAAATTGAGGTGTACTCTTCATGCATTCCCGATCTTTCATTTG
AAAGTCCGTTGACAATATGCGGGAGGTACGAAGGCAGTTTTCCCGACACCCTTAAAGCTAAAGG
TATCTTAGGAGATTTGAGTAGCTTTGTGATGGACTTGAAGATAGTAAGGGCTAAAGACATACCT
CTCGACAGAGTATTATCAAGACAGGAGATCGATCTACTCACGGCTCAGGCATGGCTCTCGGAAA
ATAAACAGCTCGAGCAAAAG
						
					

						Genomic sequence
						
							GTGTTCAAAAAGGAGGTTGTATTTGTCATTGATATAACTGACAGCATGCAAGGGAGACCACTTG
AGGCTACTAAGAATGCAATATCTTCTGCCATGTCTAAACTCGGTCCTGAAGATTCATTCAACAT
TATAACATTCAGTAGTGAGACTTCTCTATTTTCAACATCCATGGAGTTGGCTTCCAAGGAAGCA
ATCGAAAGGGCCACGACATGGCTTAGCACGAAATCAACTGTTGAGGGCAGTACATGTATATCAA
TTCCACTAGAACATGTGTGTGTCTGAAACTTCTTGTATTATTTTCCAACGATCTATTCCGTGTT
ATTAACTTTTTACTTATCTGCCAGGCATATGAGATGCTATCAAACACAAGTGGTTCACTTCCGA
TGATTTTTCTTATTACTGATGGGGCTGTTGAAGATGAGAGAAACATATGTGACCAGATGAAAAA
GCGTTTGAAAAACAGTGGATCACTCTGTCCACGCATACATACTTTCGGGATAGGTAATCTTTTC
GGTATTTGGACCTCCTATATGCTGAAAACGGATAAGTTTTAATTACCTTTTTTTGCGGAAATAT
TGCAGGTTCATTTTGTAATCATTATTTCCTCCGCATGCTTGCCATGATCGGTAGGGGAGAATTC
GATGCCGTTTGTGATCTAGGTCTGTATGTGCTTTTACTTCATATCCATCTTTACAAGTCCTATA
TCATTACTTACCATCTTGTTCCCTCGTTTTTTGTCAGATCTAATCGACAATCGGATACAAAAAT
TATTTAGCAATGCTTTCTCTACCGTTCTTGCCGATATAACCGTTGATGCATTCAATGATCATGA
ACAAATTGAGGTATCTTTGTAAAGTTCTTGTCGATTTCATTTGTCTATATCACAACAAACACCT
TACCGTGATGCTTATTTTGAGTGTTCTTACATATATCCCATCCGTGCTTACCTTGTATGTTCTT
CGGATTCCTTCTACCGATAGGTGTACTCTTCATGCATTCCCGATCTTTCATTTGAAAGTCCGTT
GACAATATGCGGGAGGTACGAAGGCAGTTTTCCCGACACCCTTAAAGCTAAAGGTATCTTAGGA
GATTTGAGTAGCTTTGTGATGGACTTGAAGATAGTAAGGGCTAAAGACATACCTCTCGACAGAG
TAGGGCACCTACTACTCGGCTATTTTTTCTTTTTCCCCTCCAAGAAGGGCGCCGGAGAGATGTT
ATTTGTATACGGTCTCTTAAAAGTTCGTAATTTCCCTCGTTTCTACAGGTATTATCAAGACAGG
AGATCGATCTACTCACGGCTCAGGCATGGCTCTCGGAAAATAAACAGCTCGAGCAAAAG
						
					

			
		

Sequences
Splice junction sequence	TTCGTAATTTCCCTCGTTTCTACAGGTATTATCAAGACAGGAGATCGATCTACTCACGGCTCAG GCATGGCTCTCGGAAAATAAACAGCTCGAGCAAAAGgtgttcaaaaaggaggttgtatttgtca ttgatataactgacagcatgcaagggagaccacttgaggctactaagaatgcaatatcttctgc catgtcta
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: 852 Transcript exons: 1499873-1500142,1500217-1500373,1500454-1500531,1500614- 1500714,1500853-1501023,1501137-1501211 GTGTTCAAAAAGGAGGTTGTATTTGTCATTGATATAACTGACAGCATGCAAGGGAGACCACTTG AGGCTACTAAGAATGCAATATCTTCTGCCATGTCTAAACTCGGTCCTGAAGATTCATTCAACAT TATAACATTCAGTAGTGAGACTTCTCTATTTTCAACATCCATGGAGTTGGCTTCCAAGGAAGCA ATCGAAAGGGCCACGACATGGCTTAGCACGAAATCAACTGTTGAGGGCAGTACATGTATATCAA TTCCACTAGAACATGCATATGAGATGCTATCAAACACAAGTGGTTCACTTCCGATGATTTTTCT TATTACTGATGGGGCTGTTGAAGATGAGAGAAACATATGTGACCAGATGAAAAAGCGTTTGAAA AACAGTGGATCACTCTGTCCACGCATACATACTTTCGGGATAGGTTCATTTTGTAATCATTATT TCCTCCGCATGCTTGCCATGATCGGTAGGGGAGAATTCGATGCCGTTTGTGATCTAGATCTAAT CGACAATCGGATACAAAAATTATTTAGCAATGCTTTCTCTACCGTTCTTGCCGATATAACCGTT GATGCATTCAATGATCATGAACAAATTGAGGTGTACTCTTCATGCATTCCCGATCTTTCATTTG AAAGTCCGTTGACAATATGCGGGAGGTACGAAGGCAGTTTTCCCGACACCCTTAAAGCTAAAGG TATCTTAGGAGATTTGAGTAGCTTTGTGATGGACTTGAAGATAGTAAGGGCTAAAGACATACCT CTCGACAGAGTATTATCAAGACAGGAGATCGATCTACTCACGGCTCAGGCATGGCTCTCGGAAA ATAAACAGCTCGAGCAAAAG
Genomic sequence	GTGTTCAAAAAGGAGGTTGTATTTGTCATTGATATAACTGACAGCATGCAAGGGAGACCACTTG AGGCTACTAAGAATGCAATATCTTCTGCCATGTCTAAACTCGGTCCTGAAGATTCATTCAACAT TATAACATTCAGTAGTGAGACTTCTCTATTTTCAACATCCATGGAGTTGGCTTCCAAGGAAGCA ATCGAAAGGGCCACGACATGGCTTAGCACGAAATCAACTGTTGAGGGCAGTACATGTATATCAA TTCCACTAGAACATGTGTGTGTCTGAAACTTCTTGTATTATTTTCCAACGATCTATTCCGTGTT ATTAACTTTTTACTTATCTGCCAGGCATATGAGATGCTATCAAACACAAGTGGTTCACTTCCGA TGATTTTTCTTATTACTGATGGGGCTGTTGAAGATGAGAGAAACATATGTGACCAGATGAAAAA GCGTTTGAAAAACAGTGGATCACTCTGTCCACGCATACATACTTTCGGGATAGGTAATCTTTTC GGTATTTGGACCTCCTATATGCTGAAAACGGATAAGTTTTAATTACCTTTTTTTGCGGAAATAT TGCAGGTTCATTTTGTAATCATTATTTCCTCCGCATGCTTGCCATGATCGGTAGGGGAGAATTC GATGCCGTTTGTGATCTAGGTCTGTATGTGCTTTTACTTCATATCCATCTTTACAAGTCCTATA TCATTACTTACCATCTTGTTCCCTCGTTTTTTGTCAGATCTAATCGACAATCGGATACAAAAAT TATTTAGCAATGCTTTCTCTACCGTTCTTGCCGATATAACCGTTGATGCATTCAATGATCATGA ACAAATTGAGGTATCTTTGTAAAGTTCTTGTCGATTTCATTTGTCTATATCACAACAAACACCT TACCGTGATGCTTATTTTGAGTGTTCTTACATATATCCCATCCGTGCTTACCTTGTATGTTCTT CGGATTCCTTCTACCGATAGGTGTACTCTTCATGCATTCCCGATCTTTCATTTGAAAGTCCGTT GACAATATGCGGGAGGTACGAAGGCAGTTTTCCCGACACCCTTAAAGCTAAAGGTATCTTAGGA GATTTGAGTAGCTTTGTGATGGACTTGAAGATAGTAAGGGCTAAAGACATACCTCTCGACAGAG TAGGGCACCTACTACTCGGCTATTTTTTCTTTTTCCCCTCCAAGAAGGGCGCCGGAGAGATGTT ATTTGTATACGGTCTCTTAAAAGTTCGTAATTTCCCTCGTTTCTACAGGTATTATCAAGACAGG AGATCGATCTACTCACGGCTCAGGCATGGCTCTCGGAAAATAAACAGCTCGAGCAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.846527172

Conservation Information
Conserved circRNAs	NA
PMCS	0.846527172

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1499918-1501208(+)
1500357-1501174(-)
						
						Potential amino acid sequence
						
							MQGRPLEATKNAISSAMSKLGPEDSFNIITFSSETSLFSTSMELASKEAIERATTWLSTKSTVE
GSTCISIPLEHAYEMLSNTSGSLPMIFLITDGAVEDERNICDQMKKRLKNSGSLCPRIHTFGIG
SFCNHYFLRMLAMIGRGEFDAVCDLDLIDNRIQKLFSNAFSTVLADITVDAFNDHEQIEVYSSC
IPDLSFESPLTICGRYEGSFPDTLKAKGILGDLSSFVMDLKIVRAKDIPLDRVLSRQEIDLLTA
QAWLSENKQLEQKVFKKEVVFVIDITDSMQGRPLEATKNAISSAMSKLGPEDSFNIITFSSETS
LFSTSMELASKEAIERATTWLSTKSTVEGSTCISIPLEHAYEMLSNTSGSLPMIFLITDGAVED
ERNICDQMKKRLKNSGSLCPRIHTFGIGSFCNHYFLRMLAMIGRGEFDAVCDLDLIDNRIQKLF
SNAFSTVLADITVDAFNDHEQIEVYSSCIPDLSFESPLTICGRYEGSFPDTLKAKGILGDLSSF
VMDLKIVRAKDIPLDRVLSRQEIDLLTAQAWLSENKQLEQKVFKKEVVFVIDITDSMQGRPLEA
TKNAISSAMSKLGPEDSFNIITFSSETSLFSTSMELASKEAIERATTWLSTKSTVEGSTCISIP
LEHAYEMLSNTSGSLPMIFLITDGAVEDERNICDQMKKRLKNSGSLCPRIHTFGIGSFCNHYFL
RMLAMIGRGEFDAVCDLDLIDNRIQKLFSNAFSTVLADITVDAFNDHEQIEVYSSCIPDLSFES
PLTICGRYEGSFPDTLKAKGILGDLSSFVMDLKIVRAKDIPLDRVLSRQEIDLLTAQAWLSENK
QLEQKVFKKEVVFVIDITDSMQGRPLEATKNAISSAMSKLGPEDSFNIITFSSETSLFSTSMEL
ASKEAIERATTWLSTKSTVEGSTCISIPLEHAYEMLSNTSGSLPMIFLITDGAVEDERNICDQM
KKRLKNSGSLCPRIHTFGIGSFCNHYFLRMLAMIGRGEFDAVCDLDLIDNRIQKLFSNAFSTVL
ADITVDAFNDHEQIEVYSSCIPDLSFESPLTICGRYEGSFPDTLKAKGILGDLSSFVMDLKIVR
AKDIPLDRVLSRQEIDLLTAQAWLSENKQLEQK(+)
MRGQSDPLFFKRFFIWSHMFLSSSTAPSVIRKIIGSEPLVFDSISYACSSGIDIHVLPSTVDFV
LSHVVALSIASLEANSMDVENREVSLLNVIMLNESSGPSLDMAEDIAFLVASSGLPCMLSVISM
TNTTSFLNTFCSSCLFSESHA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1499918-1501208(+) 1500357-1501174(-)
Potential amino acid sequence	MQGRPLEATKNAISSAMSKLGPEDSFNIITFSSETSLFSTSMELASKEAIERATTWLSTKSTVE GSTCISIPLEHAYEMLSNTSGSLPMIFLITDGAVEDERNICDQMKKRLKNSGSLCPRIHTFGIG SFCNHYFLRMLAMIGRGEFDAVCDLDLIDNRIQKLFSNAFSTVLADITVDAFNDHEQIEVYSSC IPDLSFESPLTICGRYEGSFPDTLKAKGILGDLSSFVMDLKIVRAKDIPLDRVLSRQEIDLLTA QAWLSENKQLEQKVFKKEVVFVIDITDSMQGRPLEATKNAISSAMSKLGPEDSFNIITFSSETS LFSTSMELASKEAIERATTWLSTKSTVEGSTCISIPLEHAYEMLSNTSGSLPMIFLITDGAVED ERNICDQMKKRLKNSGSLCPRIHTFGIGSFCNHYFLRMLAMIGRGEFDAVCDLDLIDNRIQKLF SNAFSTVLADITVDAFNDHEQIEVYSSCIPDLSFESPLTICGRYEGSFPDTLKAKGILGDLSSF VMDLKIVRAKDIPLDRVLSRQEIDLLTAQAWLSENKQLEQKVFKKEVVFVIDITDSMQGRPLEA TKNAISSAMSKLGPEDSFNIITFSSETSLFSTSMELASKEAIERATTWLSTKSTVEGSTCISIP LEHAYEMLSNTSGSLPMIFLITDGAVEDERNICDQMKKRLKNSGSLCPRIHTFGIGSFCNHYFL RMLAMIGRGEFDAVCDLDLIDNRIQKLFSNAFSTVLADITVDAFNDHEQIEVYSSCIPDLSFES PLTICGRYEGSFPDTLKAKGILGDLSSFVMDLKIVRAKDIPLDRVLSRQEIDLLTAQAWLSENK QLEQKVFKKEVVFVIDITDSMQGRPLEATKNAISSAMSKLGPEDSFNIITFSSETSLFSTSMEL ASKEAIERATTWLSTKSTVEGSTCISIPLEHAYEMLSNTSGSLPMIFLITDGAVEDERNICDQM KKRLKNSGSLCPRIHTFGIGSFCNHYFLRMLAMIGRGEFDAVCDLDLIDNRIQKLFSNAFSTVL ADITVDAFNDHEQIEVYSSCIPDLSFESPLTICGRYEGSFPDTLKAKGILGDLSSFVMDLKIVR AKDIPLDRVLSRQEIDLLTAQAWLSENKQLEQK(+) MRGQSDPLFFKRFFIWSHMFLSSSTAPSVIRKIIGSEPLVFDSISYACSSGIDIHVLPSTVDFV LSHVVALSIASLEANSMDVENREVSLLNVIMLNESSGPSLDMAEDIAFLVASSGLPCMLSVISM TNTTSFLNTFCSSCLFSESHA*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.001G016000_circ_g.2

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