Plant Circular RNA Database

Detail information of orai.006G054600_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.006G054600_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000574
					
						Alias
						Chr06:19997731|20003927
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr06: 19997731-20003927  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.006G054600						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							orai.006G054600_circ_g.2 						
					
						Support reads
						4/18
					
						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.006G054600.1:12

General Information
CircRNA Name	orai.006G054600_circ_g.1
ID in PlantcircBase	gra_circ_000574
Alias	Chr06:19997731\|20003927
Organism	Gossypium raimondii
Position	chrChr06: 19997731-20003927 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.006G054600
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	orai.006G054600_circ_g.2
Support reads	4/18
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.006G054600.1:12

			
						 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  
						
							CAATCAGATTCTGAAAGTTGTCATTGAGGTGTTGGACGATCCTGATTCTTCAACCCGGGAATTG
ACCTTGCAGTTAGTAGCTGACATGGTGAACAAACAGgagagattgactttacagacaaacccat
agttccagttactttaaactctgaaaaggagctaataagagaaatggagaagattgcgtgtatg
cttgtagc

									
								

					

						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: 2918
Transcript exons: 19997731-19997892,19998511-19998608,19999513-19999587,19
999745-19999813,19999906-19999991,20000066-20000183,2000
0766-20000864,20000960-20001320,20001450-20001557,200016
47-20003187,20003357-20003452,20003823-20003927
GAGAGATTGACTTTACAGACAAACCCATAGTTCCAGTTACTTTAAACTCTGAAAAGGAGCTAAT
AAGAGAAATGGAGAAGATTGCGTGTATGCTTGTAGCGGAAAATGATTGGTCTGTTCGAATAGCT
GCTATGCAGCAAGTTGAAGCTTTTGTCATCGGAGGTGCCACCAGTTATCCATGCTTTCATGCTC
TCTTGAAGCAACTTGTTGCACCTCTTTGCACACAGTTGTCCGACCGAAGGTCTAGCATTGTAAA
GCAGGCTTGTCATCTCTTATGTTTCTTGTCAAAAGAGCTGTTGGGGGATTTTGAAGCTTGTTCG
GAAATGTTCATACCGGTCCTTTTCAAGCTGGTTGTGATTACGGTTCTTATAATAGCTGAATCCG
CAGACACCTGCGTCAAAACAATGCTGCGTAACTGCAAAGTTTCCCGTGTACTTCCTCAAATAGT
TAATCATGCAAAACATGACCGTAATGCAGTACTCCGTGCTAGATGCTGTGAGTACTCTCTTCTG
ATGCTGGAGTACTGGGCCGATGCGCCAGAAATACAGAAATCTGCTGATCTTTATGAGGATCTTA
TAAAATGCTGTATAGCTGATGCAATGAGTGAGGTACGGTCAAATGCTCGTCGTTGCTACAGACT
GTTCAAGAAAACTTGGCCAGAGCGTTCTCAGCAACTATTTCTGTCCTTTGATTCAGTCGTCCAA
AGGATGATAAACGATGAAGATGGGACCACGCATAGACGCCATCCTTCTCCTTCAGTTCGAGTAA
GGGATGTCCGTAAATCCCATAAGGCTTTTCAAGCACCTACTTCTACAACTTTACCTGGACCTGC
AACTTCAGCAGTTACCACAGTGGATCGGAATAGGGCTGTAGCAGGAGGCATTCCTCTATCTGCT
GGTCCATTTCTCTCTGAAGTAAAGTCGCATCGAAATGGTACTGAAAGAAGTTTTGAAAACATGC
CGCATGCAAACAAACAGCGGGCTCCAGCTATCGAAAATGCGCTTGCTGGTTTAAATCTATCTGA
GAAACTCAGTTATCAAAAGAAGCGGTCAGCTAGCTTTGATTTAGGAGTTGACCCTCCTCCAGCT
TGTGGCCTCTCATTTCCCCCTATTGTCGCTGCTTCAGCTGTTACTGCAAATGCTATTTTTACTG
ACTCAACTGCGTCAACCGTTAAAGCTTGTTTGTCATCGAAATCAGGGAAGCAAGCTTGTGGTTT
TATGGAAGAGCATTCTGATGATAGGTTTGCCCGGAAATCCGTAGATAAGCATATTGACAAACAG
TATGTAGAGACTTCTTCAAAAGATGCCAATTTTAGGGACTTCCAAGGTAATATTATTCCAAACT
TCCAGAGGCCGCTTTTAAGAAAGAACATTTCAACTCGAGTTTCTGGAAGCAGTAGAAGCTTTCT
AGATGACAATCAGATACTACTTAGTGAAACGTCAAACTATGTGGATGGCCCAGCATCACTCCAG
GAGGCTCTGACAGAGGGTCTCAGTCCAAATTCCAATTGGTCCGCTAGAGTTGCGGCTTTTAATT
ATGTCCGAAGTCTGCTGCAGCAGGACCAAAAAGGCGTGCAAGAAGTTGCACAGAATTTTGAGAA
AGTCATGAAGTTGTTTTTCCAACACTTGGATGATCCACACCATAAAGTTGCACACGCCGCTCTC
TCGGCCCTTGCAGATATAATTTCAGCATGTAGAAAGCCTTTTGAAAGTTACTTGGATCGAATCT
TACACCATGTGTTTTCAAGGTTAATTGATCCGAAGGAATCAGTTCGGCAGCTTTCTGTAATGAA
TCTGGAAGTTGTAAGCAAAGCCTATGGCATAGATTCTCTTTTACCAGCTTTGCTCCGCGCATTA
GATGAACAGAGATCACCGAAGGCAAAACTGGCTGTTATAGAATATGCTATCAGTTCCTTCAAGA
AGAATGCTATGAATTCAGACGGTGCTGCTAATAGCGGCATTCTAAAGCTGTGGATTGCTAAATT
AATACCTTTGATCTATGATAAAAACACAAAACTAAAAGAAGCAGCCATCTCCTGCATTGTATCC
GTACATACTCACTATGACTCCACTGGTGTTATAAACTACATCATGTGTATGTCAGCTGAAGAGC
AAAATTCTCTAAGGCGAATTCTTAGGCAGCAAACTCCTCGAATTGAAATGGATCTTATGAACTT
CTTGCAGAACAAGAGAGAAAGACCCCGTCCTAGAAACAGTCACGAGCCATCTGATGTCGGACTT
TCTCCTGATGGTGAATATACTGGTGCATTGAAGAAGGCTTACTATTTTGGAAGATATTCTTCGG
GTTCGAATGATATCGATAACAGCAAGAAGTTGTTCTCCATGCAAGAACCGATGCAAGTTTTAGA
ACCTATTGCTCAAAAAGTATCAAGTGAAGCTCAGAAAAATTTACCTCAGAATCTCGAAGGTGGC
TCTAATAATGCTTTTACTTGCACTACTACTGGTGCTGATGAAAATATGGAATCCCCAATGAGCC
ATCCTGATGGTGTTGATTGTGAGAATTCAATGAACAACGACTGGCCTTCGTCATGTTCTGACAT
GAATACAATGACAATCTCTAATCATTTTGGAGTAAGCAATTCCAATGTTGGTATTGACACTTTT
GTTGATGTCAATAATAGTCATGAGAATTCCAGCAATACCAAGACTTTCTCTTCTCTAAAATCGC
GTATCATCATTCCTCAAATTCTTCACCAGATTTCTAACAATAAGGAGAGTGCAACCATTAGACA
GCAAGCACTTCAGCAGCTCATAGAAGCTTCCATGGATACAAACCTTTTGATATGGACAAAGCAT
TTCAATCAGATTCTGAAAGTTGTCATTGAGGTGTTGGACGATCCTGATTCTTCAACCCGGGAAT
TGACCTTGCAGTTAGTAGCTGACATGGTGAACAAACAG
						
					

						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	CAATCAGATTCTGAAAGTTGTCATTGAGGTGTTGGACGATCCTGATTCTTCAACCCGGGAATTG ACCTTGCAGTTAGTAGCTGACATGGTGAACAAACAGgagagattgactttacagacaaacccat agttccagttactttaaactctgaaaaggagctaataagagaaatggagaagattgcgtgtatg cttgtagc
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: 2918 Transcript exons: 19997731-19997892,19998511-19998608,19999513-19999587,19 999745-19999813,19999906-19999991,20000066-20000183,2000 0766-20000864,20000960-20001320,20001450-20001557,200016 47-20003187,20003357-20003452,20003823-20003927 GAGAGATTGACTTTACAGACAAACCCATAGTTCCAGTTACTTTAAACTCTGAAAAGGAGCTAAT AAGAGAAATGGAGAAGATTGCGTGTATGCTTGTAGCGGAAAATGATTGGTCTGTTCGAATAGCT GCTATGCAGCAAGTTGAAGCTTTTGTCATCGGAGGTGCCACCAGTTATCCATGCTTTCATGCTC TCTTGAAGCAACTTGTTGCACCTCTTTGCACACAGTTGTCCGACCGAAGGTCTAGCATTGTAAA GCAGGCTTGTCATCTCTTATGTTTCTTGTCAAAAGAGCTGTTGGGGGATTTTGAAGCTTGTTCG GAAATGTTCATACCGGTCCTTTTCAAGCTGGTTGTGATTACGGTTCTTATAATAGCTGAATCCG CAGACACCTGCGTCAAAACAATGCTGCGTAACTGCAAAGTTTCCCGTGTACTTCCTCAAATAGT TAATCATGCAAAACATGACCGTAATGCAGTACTCCGTGCTAGATGCTGTGAGTACTCTCTTCTG ATGCTGGAGTACTGGGCCGATGCGCCAGAAATACAGAAATCTGCTGATCTTTATGAGGATCTTA TAAAATGCTGTATAGCTGATGCAATGAGTGAGGTACGGTCAAATGCTCGTCGTTGCTACAGACT GTTCAAGAAAACTTGGCCAGAGCGTTCTCAGCAACTATTTCTGTCCTTTGATTCAGTCGTCCAA AGGATGATAAACGATGAAGATGGGACCACGCATAGACGCCATCCTTCTCCTTCAGTTCGAGTAA GGGATGTCCGTAAATCCCATAAGGCTTTTCAAGCACCTACTTCTACAACTTTACCTGGACCTGC AACTTCAGCAGTTACCACAGTGGATCGGAATAGGGCTGTAGCAGGAGGCATTCCTCTATCTGCT GGTCCATTTCTCTCTGAAGTAAAGTCGCATCGAAATGGTACTGAAAGAAGTTTTGAAAACATGC CGCATGCAAACAAACAGCGGGCTCCAGCTATCGAAAATGCGCTTGCTGGTTTAAATCTATCTGA GAAACTCAGTTATCAAAAGAAGCGGTCAGCTAGCTTTGATTTAGGAGTTGACCCTCCTCCAGCT TGTGGCCTCTCATTTCCCCCTATTGTCGCTGCTTCAGCTGTTACTGCAAATGCTATTTTTACTG ACTCAACTGCGTCAACCGTTAAAGCTTGTTTGTCATCGAAATCAGGGAAGCAAGCTTGTGGTTT TATGGAAGAGCATTCTGATGATAGGTTTGCCCGGAAATCCGTAGATAAGCATATTGACAAACAG TATGTAGAGACTTCTTCAAAAGATGCCAATTTTAGGGACTTCCAAGGTAATATTATTCCAAACT TCCAGAGGCCGCTTTTAAGAAAGAACATTTCAACTCGAGTTTCTGGAAGCAGTAGAAGCTTTCT AGATGACAATCAGATACTACTTAGTGAAACGTCAAACTATGTGGATGGCCCAGCATCACTCCAG GAGGCTCTGACAGAGGGTCTCAGTCCAAATTCCAATTGGTCCGCTAGAGTTGCGGCTTTTAATT ATGTCCGAAGTCTGCTGCAGCAGGACCAAAAAGGCGTGCAAGAAGTTGCACAGAATTTTGAGAA AGTCATGAAGTTGTTTTTCCAACACTTGGATGATCCACACCATAAAGTTGCACACGCCGCTCTC TCGGCCCTTGCAGATATAATTTCAGCATGTAGAAAGCCTTTTGAAAGTTACTTGGATCGAATCT TACACCATGTGTTTTCAAGGTTAATTGATCCGAAGGAATCAGTTCGGCAGCTTTCTGTAATGAA TCTGGAAGTTGTAAGCAAAGCCTATGGCATAGATTCTCTTTTACCAGCTTTGCTCCGCGCATTA GATGAACAGAGATCACCGAAGGCAAAACTGGCTGTTATAGAATATGCTATCAGTTCCTTCAAGA AGAATGCTATGAATTCAGACGGTGCTGCTAATAGCGGCATTCTAAAGCTGTGGATTGCTAAATT AATACCTTTGATCTATGATAAAAACACAAAACTAAAAGAAGCAGCCATCTCCTGCATTGTATCC GTACATACTCACTATGACTCCACTGGTGTTATAAACTACATCATGTGTATGTCAGCTGAAGAGC AAAATTCTCTAAGGCGAATTCTTAGGCAGCAAACTCCTCGAATTGAAATGGATCTTATGAACTT CTTGCAGAACAAGAGAGAAAGACCCCGTCCTAGAAACAGTCACGAGCCATCTGATGTCGGACTT TCTCCTGATGGTGAATATACTGGTGCATTGAAGAAGGCTTACTATTTTGGAAGATATTCTTCGG GTTCGAATGATATCGATAACAGCAAGAAGTTGTTCTCCATGCAAGAACCGATGCAAGTTTTAGA ACCTATTGCTCAAAAAGTATCAAGTGAAGCTCAGAAAAATTTACCTCAGAATCTCGAAGGTGGC TCTAATAATGCTTTTACTTGCACTACTACTGGTGCTGATGAAAATATGGAATCCCCAATGAGCC ATCCTGATGGTGTTGATTGTGAGAATTCAATGAACAACGACTGGCCTTCGTCATGTTCTGACAT GAATACAATGACAATCTCTAATCATTTTGGAGTAAGCAATTCCAATGTTGGTATTGACACTTTT GTTGATGTCAATAATAGTCATGAGAATTCCAGCAATACCAAGACTTTCTCTTCTCTAAAATCGC GTATCATCATTCCTCAAATTCTTCACCAGATTTCTAACAATAAGGAGAGTGCAACCATTAGACA GCAAGCACTTCAGCAGCTCATAGAAGCTTCCATGGATACAAACCTTTTGATATGGACAAAGCAT TTCAATCAGATTCTGAAAGTTGTCATTGAGGTGTTGGACGATCCTGATTCTTCAACCCGGGAAT TGACCTTGCAGTTAGTAGCTGACATGGTGAACAAACAG
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
						
							ghi_circ_000130 						
					
						PMCS
						0.930168009

Conservation Information
Conserved circRNAs	ghi_circ_000130
PMCS	0.930168009

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19997802-19997757(+)
19997888-20003850(-)
						
						Potential amino acid sequence
						
							MEKIACMLVAENDWSVRIAAMQQVEAFVIGGATSYPCFHALLKQLVAPLCTQLSDRRSSIVKQA
CHLLCFLSKELLGDFEACSEMFIPVLFKLVVITVLIIAESADTCVKTMLRNCKVSRVLPQIVNH
AKHDRNAVLRARCCEYSLLMLEYWADAPEIQKSADLYEDLIKCCIADAMSEVRSNARRCYRLFK
KTWPERSQQLFLSFDSVVQRMINDEDGTTHRRHPSPSVRVRDVRKSHKAFQAPTSTTLPGPATS
AVTTVDRNRAVAGGIPLSAGPFLSEVKSHRNGTERSFENMPHANKQRAPAIENALAGLNLSEKL
SYQKKRSASFDLGVDPPPACGLSFPPIVAASAVTANAIFTDSTASTVKACLSSKSGKQACGFME
EHSDDRFARKSVDKHIDKQYVETSSKDANFRDFQGNIIPNFQRPLLRKNISTRVSGSSRSFLDD
NQILLSETSNYVDGPASLQEALTEGLSPNSNWSARVAAFNYVRSLLQQDQKGVQEVAQNFEKVM
KLFFQHLDDPHHKVAHAALSALADIISACRKPFESYLDRILHHVFSRLIDPKESVRQLSVMNLE
VVSKAYGIDSLLPALLRALDEQRSPKAKLAVIEYAISSFKKNAMNSDGAANSGILKLWIAKLIP
LIYDKNTKLKEAAISCIVSVHTHYDSTGVINYIMCMSAEEQNSLRRILRQQTPRIEMDLMNFLQ
NKRERPRPRNSHEPSDVGLSPDGEYTGALKKAYYFGRYSSGSNDIDNSKKLFSMQEPMQVLEPI
AQKVSSEAQKNLPQNLEGGSNNAFTCTTTGADENMESPMSHPDGVDCENSMNNDWPSSCSDMNT
MTISNHFGVSNSNVGIDTFVDVNNSHENSSNTKTFSSLKSRIIIPQILHQISNNKESATIRQQA
LQQLIEASMDTNLLIWTKHFNQILKVVIEVLDDPDSSTRELTLQLVADMVNKQERLTLQTNP*(
+)
MTKASTCCIAAIRTDQSFSATSIHAIFSISLISSFSEFKVTGTMGLSVKSISPVCSPCQLLTAR
SIPGLKNQDRPTPQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19997802-19997757(+) 19997888-20003850(-)
Potential amino acid sequence	MEKIACMLVAENDWSVRIAAMQQVEAFVIGGATSYPCFHALLKQLVAPLCTQLSDRRSSIVKQA CHLLCFLSKELLGDFEACSEMFIPVLFKLVVITVLIIAESADTCVKTMLRNCKVSRVLPQIVNH AKHDRNAVLRARCCEYSLLMLEYWADAPEIQKSADLYEDLIKCCIADAMSEVRSNARRCYRLFK KTWPERSQQLFLSFDSVVQRMINDEDGTTHRRHPSPSVRVRDVRKSHKAFQAPTSTTLPGPATS AVTTVDRNRAVAGGIPLSAGPFLSEVKSHRNGTERSFENMPHANKQRAPAIENALAGLNLSEKL SYQKKRSASFDLGVDPPPACGLSFPPIVAASAVTANAIFTDSTASTVKACLSSKSGKQACGFME EHSDDRFARKSVDKHIDKQYVETSSKDANFRDFQGNIIPNFQRPLLRKNISTRVSGSSRSFLDD NQILLSETSNYVDGPASLQEALTEGLSPNSNWSARVAAFNYVRSLLQQDQKGVQEVAQNFEKVM KLFFQHLDDPHHKVAHAALSALADIISACRKPFESYLDRILHHVFSRLIDPKESVRQLSVMNLE VVSKAYGIDSLLPALLRALDEQRSPKAKLAVIEYAISSFKKNAMNSDGAANSGILKLWIAKLIP LIYDKNTKLKEAAISCIVSVHTHYDSTGVINYIMCMSAEEQNSLRRILRQQTPRIEMDLMNFLQ NKRERPRPRNSHEPSDVGLSPDGEYTGALKKAYYFGRYSSGSNDIDNSKKLFSMQEPMQVLEPI AQKVSSEAQKNLPQNLEGGSNNAFTCTTTGADENMESPMSHPDGVDCENSMNNDWPSSCSDMNT MTISNHFGVSNSNVGIDTFVDVNNSHENSSNTKTFSSLKSRIIIPQILHQISNNKESATIRQQA LQQLIEASMDTNLLIWTKHFNQILKVVIEVLDDPDSSTRELTLQLVADMVNKQERLTLQTNP( +) MTKASTCCIAAIRTDQSFSATSIHAIFSISLISSFSEFKVTGTMGLSVKSISPVCSPCQLLTAR SIPGLKNQDRPTPQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.006G054600_circ_g.1

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