Plant Circular RNA Database

Detail information of orai.009G302500_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G302500_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000994
					
						Alias
						Chr09:27110510|27111604
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 27110510-27111604  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G302500						
					
						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  
						
							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.009G302500.4:4
Gorai.009G302500.1:4
Gorai.009G302500.2:4
Gorai.009G302500.5:4
Gorai.009G302500.3:4

General Information
CircRNA Name	orai.009G302500_circ_g.1
ID in PlantcircBase	gra_circ_000994
Alias	Chr09:27110510\|27111604
Organism	Gossypium raimondii
Position	chrChr09: 27110510-27111604 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.009G302500
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	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.009G302500.4:4 Gorai.009G302500.1:4 Gorai.009G302500.2:4 Gorai.009G302500.5:4 Gorai.009G302500.3:4

			
						 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  
						
							CACCCATTCCTTCTTTAAGGGCGTCCTCACCATACTGATCATATATCTCACGCTTCTCTGGGTC
ACTCAGCACCTCATAAGCTTGAGCCAACTCTTTAAAcaggcttaaccacttcaccaggatgggt
cttaatgagaagttgcctgccatctaggtgggtcagtataaactggaagccacaaagtgcctca
gtaagtgt

									
								

					

						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: 784
Transcript exons: 27110510-27110708,27110836-27111112,27111197-27111338,27
111439-27111604
CAGGCTTAACCACTTCACCAGGATGGGTCTTAATGAGAAGTTGCCTGCCATCTAGGTGGGTCAG
TATAAACTGGAAGCCACAAAGTGCCTCAGTAAGTGTCAATGTATGTTCTACAAATAAGTCATCA
CTCTTCCGTTTAAATTTTGGATGATCTTTCTGTTGGAGGACAAATACAATATCCCCAGTAACTG
TGTCGGGTGCTTCATCTGCTTCTCCAGGGAAAGTAATCTTCTGTCCGTTCTGCATACCCTTTTC
AACATTAACCTCCAAGACTTTCTTCTCCTGAACAACCTTCTCGCCTTTGCATTGGGGGCAACGG
TCCTTATCGTTGATGGTCTCACCAGTACCCTTACAATCATTGCAAGGGTGCTGCATCTGTTGGA
TCATGGAAGGACCAAGGTGTCTGATGGAGACTTTCATTCCTGAACCTTGACAACCAGAACATTT
CATTGATGCACCTGATTTAGACCCTTTACCCTTGCACTTGGAGCAAATTATGTTGCGTGAAAGA
GAAAGCTTTTTGGAAGTTCCATTATAGAGATCTTCCAAAGAAACCTTTAGGGGGTGAATTACAT
CCTCTCCCCTTCTTTGCCTTCGGCCTCGGCTGCTACCACCACCACCAAAAGGATTGCCACCAAA
GAAGGATTGGAAGATATCAAATGGATCATGGGCACCACCACCTCCACCCATTCCTTCTTTAAGG
GCGTCCTCACCATACTGATCATATATCTCACGCTTCTCTGGGTCACTCAGCACCTCATAAGCTT
GAGCCAACTCTTTAAA
						
					

						Genomic sequence
						
							CAGGCTTAACCACTTCACCAGGATGGGTCTTAATGAGAAGTTGCCTGCCATCTAGGTGGGTCAG
TATAAACTGGAAGCCACAAAGTGCCTCAGTAAGTGTCAATGTATGTTCTACAAATAAGTCATCA
CTCTTCCGTTTAAATTTTGGATGATCTTTCTGTTGGAGGACAAATACAATATCCCCAGTAACTG
TGTCGGGCTGCAAACAATTAGCAAACAATCAAGTTAGCAACAGCACGAAAGCTGGATTCAACAA
TGTGCAACAAAATGCAAGCCTATTAAAATTGCAAAAAACAAAAAACAAGAGAGAAAATTTTCAT
CCTTACTGCTTCATCTGCTTCTCCAGGGAAAGTAATCTTCTGTCCGTTCTGCATACCCTTTTCA
ACATTAACCTCCAAGACTTTCTTCTCCTGAACAACCTTCTCGCCTTTGCATTGGGGGCAACGGT
CCTTATCGTTGATGGTCTCACCAGTACCCTTACAATCATTGCAAGGGTGCTGCATCTGTTGGAT
CATGGAAGGACCAAGGTGTCTGATGGAGACTTTCATTCCTGAACCTTGACAACCAGAACATTTC
ATTGATGCACCTGATTTAGACCCTTTACTGCAAATTTTAAAACATTTTCTGTTAAAAACACGGT
CGAACCGCTATGCCGCTCCACAGATGTTACTCAACAGAAGTACTCACCCCTTGCACTTGGAGCA
AATTATGTTGCGTGAAAGAGAAAGCTTTTTGGAAGTTCCATTATAGAGATCTTCCAAAGAAACC
TTTAGGGGGTGAATTACATCCTCTCCCCTTCTTTGCCTTCGGCCTCGGCTGCTACCACCACCTG
AACAAGCAACCAGGATTTTAGCTCAAATCTTAACAAATTTAATTTTAAAAAAAACTAATCAACA
AGATAGAAACAGAGTATTAATTTGAAGCCTCACCACCAAAAGGATTGCCACCAAAGAAGGATTG
GAAGATATCAAATGGATCATGGGCACCACCACCTCCACCCATTCCTTCTTTAAGGGCGTCCTCA
CCATACTGATCATATATCTCACGCTTCTCTGGGTCACTCAGCACCTCATAAGCTTGAGCCAACT
CTTTAAA
						
					

			
		

Sequences
Splice junction sequence	CACCCATTCCTTCTTTAAGGGCGTCCTCACCATACTGATCATATATCTCACGCTTCTCTGGGTC ACTCAGCACCTCATAAGCTTGAGCCAACTCTTTAAAcaggcttaaccacttcaccaggatgggt cttaatgagaagttgcctgccatctaggtgggtcagtataaactggaagccacaaagtgcctca gtaagtgt
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: 784 Transcript exons: 27110510-27110708,27110836-27111112,27111197-27111338,27 111439-27111604 CAGGCTTAACCACTTCACCAGGATGGGTCTTAATGAGAAGTTGCCTGCCATCTAGGTGGGTCAG TATAAACTGGAAGCCACAAAGTGCCTCAGTAAGTGTCAATGTATGTTCTACAAATAAGTCATCA CTCTTCCGTTTAAATTTTGGATGATCTTTCTGTTGGAGGACAAATACAATATCCCCAGTAACTG TGTCGGGTGCTTCATCTGCTTCTCCAGGGAAAGTAATCTTCTGTCCGTTCTGCATACCCTTTTC AACATTAACCTCCAAGACTTTCTTCTCCTGAACAACCTTCTCGCCTTTGCATTGGGGGCAACGG TCCTTATCGTTGATGGTCTCACCAGTACCCTTACAATCATTGCAAGGGTGCTGCATCTGTTGGA TCATGGAAGGACCAAGGTGTCTGATGGAGACTTTCATTCCTGAACCTTGACAACCAGAACATTT CATTGATGCACCTGATTTAGACCCTTTACCCTTGCACTTGGAGCAAATTATGTTGCGTGAAAGA GAAAGCTTTTTGGAAGTTCCATTATAGAGATCTTCCAAAGAAACCTTTAGGGGGTGAATTACAT CCTCTCCCCTTCTTTGCCTTCGGCCTCGGCTGCTACCACCACCACCAAAAGGATTGCCACCAAA GAAGGATTGGAAGATATCAAATGGATCATGGGCACCACCACCTCCACCCATTCCTTCTTTAAGG GCGTCCTCACCATACTGATCATATATCTCACGCTTCTCTGGGTCACTCAGCACCTCATAAGCTT GAGCCAACTCTTTAAA
Genomic sequence	CAGGCTTAACCACTTCACCAGGATGGGTCTTAATGAGAAGTTGCCTGCCATCTAGGTGGGTCAG TATAAACTGGAAGCCACAAAGTGCCTCAGTAAGTGTCAATGTATGTTCTACAAATAAGTCATCA CTCTTCCGTTTAAATTTTGGATGATCTTTCTGTTGGAGGACAAATACAATATCCCCAGTAACTG TGTCGGGCTGCAAACAATTAGCAAACAATCAAGTTAGCAACAGCACGAAAGCTGGATTCAACAA TGTGCAACAAAATGCAAGCCTATTAAAATTGCAAAAAACAAAAAACAAGAGAGAAAATTTTCAT CCTTACTGCTTCATCTGCTTCTCCAGGGAAAGTAATCTTCTGTCCGTTCTGCATACCCTTTTCA ACATTAACCTCCAAGACTTTCTTCTCCTGAACAACCTTCTCGCCTTTGCATTGGGGGCAACGGT CCTTATCGTTGATGGTCTCACCAGTACCCTTACAATCATTGCAAGGGTGCTGCATCTGTTGGAT CATGGAAGGACCAAGGTGTCTGATGGAGACTTTCATTCCTGAACCTTGACAACCAGAACATTTC ATTGATGCACCTGATTTAGACCCTTTACTGCAAATTTTAAAACATTTTCTGTTAAAAACACGGT CGAACCGCTATGCCGCTCCACAGATGTTACTCAACAGAAGTACTCACCCCTTGCACTTGGAGCA AATTATGTTGCGTGAAAGAGAAAGCTTTTTGGAAGTTCCATTATAGAGATCTTCCAAAGAAACC TTTAGGGGGTGAATTACATCCTCTCCCCTTCTTTGCCTTCGGCCTCGGCTGCTACCACCACCTG AACAAGCAACCAGGATTTTAGCTCAAATCTTAACAAATTTAATTTTAAAAAAAACTAATCAACA AGATAGAAACAGAGTATTAATTTGAAGCCTCACCACCAAAAGGATTGCCACCAAAGAAGGATTG GAAGATATCAAATGGATCATGGGCACCACCACCTCCACCCATTCCTTCTTTAAGGGCGTCCTCA CCATACTGATCATATATCTCACGCTTCTCTGGGTCACTCAGCACCTCATAAGCTTGAGCCAACT CTTTAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.615051027

Conservation Information
Conserved circRNAs	NA
PMCS	0.615051027

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27111512-27111602(-)
27110561-27111602(-)
27111488-27110515(+)
						
						Potential amino acid sequence
						
							MGGGGGAHDPFDIFQSFFGGNPFGGGGSSRGRRQRRGEDVIHPLKVSLEDLYNGTSKKLSLSRN
IICSKCKGKGSKSGASMKCSGCQGSGMKVSIRHLGPSMIQQMQHPCNDCKGTGETINDKDRCPQ
CKGEKVVQEKKVLEVNVEKGMQNGQKITFPGEADEAPDTVTGDIVFVLQQKDHPKFKRKSDDLF
VEHTLTLTEALCGFQFILTHLDGRQLLIKTHPGEVVKPV*(-)
MAGNFSLRPILVKWLSLFKELAQAYEVLSDPEKREIYDQYGEDALKEGMGGGGGAHDPFDIFQS
FFGGNPFGGGGSSRGRRQRRGEDVIHPLKVSLEDLYNGTSKKLSLSRNIICSKCKGKGSKSGAS
MKCSGCQGSGMKVSIRHLGPSMIQQMQHPCNDCKGTGETINDKDRCPQCKGEKVVQEKKVLEVN
VEKGMQNGQKITFPGEADEAPDTVTGDIVFVLQQKDHPKFKRKSDDLFVEHTLTLTEALCGFQF
ILTHLDGRQLLIKTHPGEVVKPV*(-)
MGTTTSTHSFFKGVLTILIIYLTLLWVTQHLISLSQLFKQA*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27111512-27111602(-) 27110561-27111602(-) 27111488-27110515(+)
Potential amino acid sequence	MGGGGGAHDPFDIFQSFFGGNPFGGGGSSRGRRQRRGEDVIHPLKVSLEDLYNGTSKKLSLSRN IICSKCKGKGSKSGASMKCSGCQGSGMKVSIRHLGPSMIQQMQHPCNDCKGTGETINDKDRCPQ CKGEKVVQEKKVLEVNVEKGMQNGQKITFPGEADEAPDTVTGDIVFVLQQKDHPKFKRKSDDLF VEHTLTLTEALCGFQFILTHLDGRQLLIKTHPGEVVKPV(-) MAGNFSLRPILVKWLSLFKELAQAYEVLSDPEKREIYDQYGEDALKEGMGGGGGAHDPFDIFQS FFGGNPFGGGGSSRGRRQRRGEDVIHPLKVSLEDLYNGTSKKLSLSRNIICSKCKGKGSKSGAS MKCSGCQGSGMKVSIRHLGPSMIQQMQHPCNDCKGTGETINDKDRCPQCKGEKVVQEKKVLEVN VEKGMQNGQKITFPGEADEAPDTVTGDIVFVLQQKDHPKFKRKSDDLFVEHTLTLTEALCGFQF ILTHLDGRQLLIKTHPGEVVKPV(-) MGTTTSTHSFFKGVLTILIIYLTLLWVTQHLISLSQLFKQA*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G302500_circ_g.1

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