Plant Circular RNA Database

Detail information of orai.002G146100_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G146100_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000162
					
						Alias
						Chr02:26793522|26798774
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 26793522-26798774  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G146100						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.002G146100_circ_g.2 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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  
						
							CT-AC							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.002G146100.2:4
Gorai.002G146100.4:4
Gorai.002G146100.1:4
Gorai.002G146100.3:4
Gorai.002G146100.5:4
Gorai.002G146100.6:3

General Information
CircRNA Name	orai.002G146100_circ_g.1
ID in PlantcircBase	gra_circ_000162
Alias	Chr02:26793522\|26798774
Organism	Gossypium raimondii
Position	chrChr02: 26793522-26798774 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G146100
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.002G146100_circ_g.2
Support reads	2
Tissues	leaf
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	CT-AC 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.002G146100.2:4 Gorai.002G146100.4:4 Gorai.002G146100.1:4 Gorai.002G146100.3:4 Gorai.002G146100.5:4 Gorai.002G146100.6:3

			
						 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  
						
							CCTTTGCAATGAAACATGAATCTGATGAGTTCAATTTTTGGTTCTTATACAGGGCAGCAGACTG
CTCTAGAGAACTAGACCTTGAATCTGGGACAACATCcttatctgctttctgaatatttccttca
tgttcaggattcaaacatgaatttgaaaaattactagtatcttgtccttgcacttcgcatccat
taattctc

						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: 834
Transcript exons: 26793522-26793725,26794343-26794558,26797041-26797256,26
798577-26798774
CTTATCTGCTTTCTGAATATTTCCTTCATGTTCAGGATTCAAACATGAATTTGAAAAATTACTA
GTATCTTGTCCTTGCACTTCGCATCCATTAATTCTCACGTCATGCTTGCCAAGCGTTTTCATCT
CATTGGAGTCGCCAGTCATCTGTTTATGAGCAATCAAGCCCAAATCGTTGGCAATAATATCTGC
AGTCTGCTCTTCCTTCACTTTCTTTGTAAGATCCCCTGTCATCCCCATTGAATTTGATGATGAA
TCTAGGATTAACATATCTGCAGCAGATATAGAAGTGTGCTTTGTTGCTTGCTCACTCAAAATTT
TCAAACTAGAAGAACTTGTTTTTTTCTTCTTTTTGAGGCGGCCAGCTGAATGTTTTGAAGCATC
CAGATCTGAGTCATTCACACACTGGGCAGCTGCATCCTTAACCTTAGTCCTGTATGGATTATTC
TTTCTCTTCTGAGCAGACTTGAGAGAAAAATGCCGGACCACATTTTTATCCTTAAGAGCACAAC
CACTTTCTTTGAGCTTCTTGGTAGTTTCTAAATCAAGTAAAGTTATAATGCTCTTCTCATCAAA
TTGACCAGCTGCTGGCAGCAGGAAATGTGGCATCAGATCTTTAACATCGGCATTGGCTAGTGTT
TCTGAACTATTTGCCTTCTTCACTTCAAGCTCCATAGATCGATTTGATGAAGTAAAATTTTCTT
TGGGAGTAACATTGGGTCCATTGTTTTCCTCCTTTGCAATGAAACATGAATCTGATGAGTTCAA
TTTTTGGTTCTTATACAGGGCAGCAGACTGCTCTAGAGAACTAGACCTTGAATCTGGGACAACA
TC
						
						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	CCTTTGCAATGAAACATGAATCTGATGAGTTCAATTTTTGGTTCTTATACAGGGCAGCAGACTG CTCTAGAGAACTAGACCTTGAATCTGGGACAACATCcttatctgctttctgaatatttccttca tgttcaggattcaaacatgaatttgaaaaattactagtatcttgtccttgcacttcgcatccat taattctc
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: 834 Transcript exons: 26793522-26793725,26794343-26794558,26797041-26797256,26 798577-26798774 CTTATCTGCTTTCTGAATATTTCCTTCATGTTCAGGATTCAAACATGAATTTGAAAAATTACTA GTATCTTGTCCTTGCACTTCGCATCCATTAATTCTCACGTCATGCTTGCCAAGCGTTTTCATCT CATTGGAGTCGCCAGTCATCTGTTTATGAGCAATCAAGCCCAAATCGTTGGCAATAATATCTGC AGTCTGCTCTTCCTTCACTTTCTTTGTAAGATCCCCTGTCATCCCCATTGAATTTGATGATGAA TCTAGGATTAACATATCTGCAGCAGATATAGAAGTGTGCTTTGTTGCTTGCTCACTCAAAATTT TCAAACTAGAAGAACTTGTTTTTTTCTTCTTTTTGAGGCGGCCAGCTGAATGTTTTGAAGCATC CAGATCTGAGTCATTCACACACTGGGCAGCTGCATCCTTAACCTTAGTCCTGTATGGATTATTC TTTCTCTTCTGAGCAGACTTGAGAGAAAAATGCCGGACCACATTTTTATCCTTAAGAGCACAAC CACTTTCTTTGAGCTTCTTGGTAGTTTCTAAATCAAGTAAAGTTATAATGCTCTTCTCATCAAA TTGACCAGCTGCTGGCAGCAGGAAATGTGGCATCAGATCTTTAACATCGGCATTGGCTAGTGTT TCTGAACTATTTGCCTTCTTCACTTCAAGCTCCATAGATCGATTTGATGAAGTAAAATTTTCTT TGGGAGTAACATTGGGTCCATTGTTTTCCTCCTTTGCAATGAAACATGAATCTGATGAGTTCAA TTTTTGGTTCTTATACAGGGCAGCAGACTGCTCTAGAGAACTAGACCTTGAATCTGGGACAACA TC
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
						0.42230638

Conservation Information
Conserved circRNAs	NA
PMCS	0.42230638

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26798616-26793524(-)
26793551-26798743(-)
26798683-26793534(+)
						
						Potential amino acid sequence
						
							MELEVKKANSSETLANADVKDLMPHFLLPAAGQFDEKSIITLLDLETTKKLKESGCALKDKNVV
RHFSLKSAQKRKNNPYRTKVKDAAAQCVNDSDLDASKHSAGRLKKKKKTSSSSLKILSEQATKH
TSISAADMLILDSSSNSMGMTGDLTKKVKTADIIANDLGLIAHKQMTGDSNEMKTLGKHDVRIN
GCEVQGQDTSNFSNSCLNPEHEGNIQKADKDVVPDSRSSSLEQSAALYKNQKLNSSDSCFIAKE
ENNGPNVTPKENFTSSNRSMELEVKKANSSETLANADVKDLMPHFLLPAAGQFDEKSIITLLDL
ETTKKLKESGCALKDKNVVRHFSLKSAQKRKNNPYRTKVKDAAAQCVNDSDLDASKHSAGRLKK
KKKTSSSSLKILSEQATKHTSISAADMLILDSSSNSMGMTGDLTKKVKTADIIANDLGLIAHKQ
MTGDSNEMKTLGKHDVRINGCEVQGQDTSNFSNSCLNPEHEGNIQKADKDVVPDSRSSSLEQSA
ALYKNQKLNSSDSCFIAKEENNGPNVTPKENFTSSNRSMELEVKKANSSETLANADVKDLMPHF
LLPAAGQFDEKSIITLLDLETTKKLKESGCALKDKNVVRHFSLKSAQKRKNNPYRTKVKDAAAQ
CVNDSDLDASKHSAGRLKKKKKTSSSSLKILSEQATKHTSISAADMLILDSSSNSMGMTGDLTK
KVKTADIIANDLGLIAHKQMTGDSNEMKTLGKHDVRINGCEVQGQDTSNFSNSCLNPEHEGNIQ
KADKDVVPDSRSSSLEQSAALYKNQKLNSSDSCFIAKEENNGPNVTPKENFTSSNRSMELEVKK
ANSSETLANADVKDLMPHFLLPAAGQFDEKSIITLLDLETTKKLKESGCALKDKNVVRHFSLKS
AQKRKNNPYRTKVKDAAAQCVNDSDLDASKHSAGRLKKKKKTSSSSLKILSEQATKHTSISAAD
MLILDSSSNSMGMTGDLTKKVKTADIIANDLGLIAHKQMTGDSNEMKTLGKHDVRINGCEVQGQ
DTSNFSNSCLNPEHEGNIQKADK(-)
MKEIFRKQIRMLSQIQGLVL*(-)
MKHESDEFNFWFLYRAADCSRELDLESGTTSLSAF*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26798616-26793524(-) 26793551-26798743(-) 26798683-26793534(+)
Potential amino acid sequence	MELEVKKANSSETLANADVKDLMPHFLLPAAGQFDEKSIITLLDLETTKKLKESGCALKDKNVV RHFSLKSAQKRKNNPYRTKVKDAAAQCVNDSDLDASKHSAGRLKKKKKTSSSSLKILSEQATKH TSISAADMLILDSSSNSMGMTGDLTKKVKTADIIANDLGLIAHKQMTGDSNEMKTLGKHDVRIN GCEVQGQDTSNFSNSCLNPEHEGNIQKADKDVVPDSRSSSLEQSAALYKNQKLNSSDSCFIAKE ENNGPNVTPKENFTSSNRSMELEVKKANSSETLANADVKDLMPHFLLPAAGQFDEKSIITLLDL ETTKKLKESGCALKDKNVVRHFSLKSAQKRKNNPYRTKVKDAAAQCVNDSDLDASKHSAGRLKK KKKTSSSSLKILSEQATKHTSISAADMLILDSSSNSMGMTGDLTKKVKTADIIANDLGLIAHKQ MTGDSNEMKTLGKHDVRINGCEVQGQDTSNFSNSCLNPEHEGNIQKADKDVVPDSRSSSLEQSA ALYKNQKLNSSDSCFIAKEENNGPNVTPKENFTSSNRSMELEVKKANSSETLANADVKDLMPHF LLPAAGQFDEKSIITLLDLETTKKLKESGCALKDKNVVRHFSLKSAQKRKNNPYRTKVKDAAAQ CVNDSDLDASKHSAGRLKKKKKTSSSSLKILSEQATKHTSISAADMLILDSSSNSMGMTGDLTK KVKTADIIANDLGLIAHKQMTGDSNEMKTLGKHDVRINGCEVQGQDTSNFSNSCLNPEHEGNIQ KADKDVVPDSRSSSLEQSAALYKNQKLNSSDSCFIAKEENNGPNVTPKENFTSSNRSMELEVKK ANSSETLANADVKDLMPHFLLPAAGQFDEKSIITLLDLETTKKLKESGCALKDKNVVRHFSLKS AQKRKNNPYRTKVKDAAAQCVNDSDLDASKHSAGRLKKKKKTSSSSLKILSEQATKHTSISAAD MLILDSSSNSMGMTGDLTKKVKTADIIANDLGLIAHKQMTGDSNEMKTLGKHDVRINGCEVQGQ DTSNFSNSCLNPEHEGNIQKADK(-) MKEIFRKQIRMLSQIQGLVL(-) MKHESDEFNFWFLYRAADCSRELDLESGTTSLSAF(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G146100_circ_g.1

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