Plant Circular RNA Database

Detail information of orai.002G245500_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G245500_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000209
					
						Alias
						Chr02:60956038|60958905
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 60956038-60958905  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G245500						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/2
					
						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.002G245500.2:9
Gorai.002G245500.3:9
Gorai.002G245500.8:9
Gorai.002G245500.1:9
Gorai.002G245500.7:9
Gorai.002G245500.5:9
Gorai.002G245500.6:9
Gorai.002G245500.4:9
Gorai.002G245500.9:6

General Information
CircRNA Name	orai.002G245500_circ_g.1
ID in PlantcircBase	gra_circ_000209
Alias	Chr02:60956038\|60958905
Organism	Gossypium raimondii
Position	chrChr02: 60956038-60958905 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.002G245500
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	2/2
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.002G245500.2:9 Gorai.002G245500.3:9 Gorai.002G245500.8:9 Gorai.002G245500.1:9 Gorai.002G245500.7:9 Gorai.002G245500.5:9 Gorai.002G245500.6:9 Gorai.002G245500.4:9 Gorai.002G245500.9:6

			
						 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  
						
							CAATGCTACAGAAAGAAGTTCCAACCGATCAACTCGTTAGCAGCATCGAGCGCACAGAATTATA
CAAACATATGAACCAAGGAAGATCTTATTTTCTAGAaatgtgcttctctgccaacaattcctca
tggtcgctggtactgcaaatattgccagaacatgtttatgagagaaaaatgtgcagagcataat
gctaatgc

									
								

					

						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
						
							AATGTGCTTCTCTGCCAACAATTCCTCATGGTCGCTGGTACTGCAAATATTGCCAGAACATGTT
TATGAGAGAAAAATGTGCAGAGCATAATGCTAATGCTGCTGCTGCTGGAAGGATTTTAGGAGTT
GATGCTATAGAACAAATAACCCGCAGATGCATTCGAATTGTGAAAAACATTGAGGCAGAACTTA
GTGGATGCGCATTATGCAGGTTATGAGTACACACAAGGATGAATCATGAAGCCTATTTGTATAC
AGTTTGCATTTGCGATATTTCCATAAATTTCTTTAGTTCTTTCCCCAATGCCTTTTGGTTTGGC
TTGAAATTGTCCTCCTTTGATTTTATTTTATATAGGGCATGTGATTTTAGCAAATCAGGATTTG
GTCCTCGGACAGTTATACTTTGTGATCAGGTATAATGTTAATCTTTTATTTCATCTTGTCTTTG
CATTGTGCTTCAACACTGATAAAAATCCCCCCCCCCCTCTCTTCATTTCATTTTCACTGATGTG
CTCATTTATATTTTAAAAATAATTTTGTATCAGTGTGAGAAAGAATATCATATTGGCTGTTTGA
GGACTCATAAAATGGCTGATCTAAGGGTATGTATGCATTATTGTCACCGTTTTTTCTTTGATTA
TTAAATATGAATTTCTTGATTCCTATCTGTTGGACACATTATCTGTTAATGGATGAAAATACTG
ATGCTGCTTGTACAACAGGAAATACCGAAAGGGAAGTGGTTTTGCTGCTCAGATTGTGGTAGGA
TCCATTCTACACTGCAGAAGTTGCTCATTCATGGAGCTGAAAGGCTCCCTGACTCCCTTTTGGA
TGTATTAAAGAAGAAATATGTGGAAAAAGGTTTAGATGCTGATATCAATATTGATGTGAGATGG
AGGCTTCTCAGCGGCAAATTCGCTTCTCCTGAAACTAGATTGTTGCTTTCTCAAGCAGTTGGTA
TCTTCCATGTAAGTATTGTTCATGTTATATTTTGCCAATATTGATAAACTGTAGTCATGTAATG
CTATTCTGTAATTATTGCAATTATTATAAATTTATTTTCGAGTTTTTATTTGCCAAGTATGCTT
GCTGGGTTGGATGTTGCATGGAAACATCAGTAGCTTGTAACTAACGTTTATGCCAGTCATCTTC
TTTCTTTATCTTTTAATTTTCTTTTTTCCCTTCTGCTAAAGTGGTTGGGGAAGCCGAAATACTG
AGCTTATAACTTTATATGGTTAATATATGTTCATCTCTTACTTTCCTAATATACTTTTTAGCAT
TATCTATTCTATTATCAGTAAAATATGGAGGCATCTTAATATTACCTTGCTTTGACATTATTAT
GGTGGAAATTTTCACCCATTAAATACTATATTCTGTAAAAGAACATAATTGTACAATTTTGACA
TTTTGAAAGCATTTAAGCCAAAAGGATTGATAAATGGATGCATTTTGCTTTGATGCCTCTGTTT
ATGGGCTTCTTTAAAGGTTTTTGGGGATATCAGATGATAAGTGTGTGTTTCCAGGTAGACTTAT
CTAACCAGGGTTTTATCCTGCCAATCTGAAACATTGCTTAGCAAAGCCGCCATGATTTGCATGT
TCCATTCAAAACTGTGATTTAGCAGTGTAGGATAATATTTGCCTTTTGGGGCTCTGATGAGGCT
ATGTTTTTTGTTTTCAAAACATAAAAGATGCATCGAGCCATGGCTTACCTTATTTCACTGAACT
TTTCTTTTTTGTTTGGGTCAAGGAATGTTTCAACCCCATAGTTGATGCAGCAACTGGGAGGGAC
CTTATCCCATGCATGGTTTATGGGTAAGCATGAGCCTTTCTTTTTTCTTCTCTTTTGGTGCTGG
ATGTTGCTGGTTGTAGATATATACACCCCCCTTTTTTTTGACAAACTTGTATTACCTTCTCTCT
TACAGAAGGAACTTAAAAGGCCAAGAATATGGAGGAATGTATTGTGCTGTATTGACAATTAAGT
AAGACGTTTTTGCATAACATTTAAAGCTTTAGATGCTTTTGCTATTTGAATGTTGACAATATTC
TCTTTTGGATAATGTTGCAGCTCATTCGTTGTATCAGCTGGAATAATTCGAGTTTTTGGGCAAG
AAATTGCTGAAATTCCTTTAGTTGCTACAAGCATGGCTAACCATGGAAAGGTGAGGCTAATGGA
CCCAAGTGTTGTTTTTATAATCTTTGCCTGCGATTCCTACCTCTTTTAAATAGTTTTACTTGGA
TTTTCAATTGCTAGCTTGGTAATTTTGATGACTGTTTGAGTTTTTCTAATTCCACGAAACAGTC
TGAAGACATTCTTCTTGCCAACACACTTGGAGTTGCTTTTTCCTTCACGTCTCGTAAATTCCTC
TGTGATTTTACGAAATTATTAGAGCTTTGATTGTATATTGATGTTATCTTTTACCTGTTCTGAT
ATCATATGTCTTCAATCTTGATTTACTGGAACTAAATTACCATACAGGGATACTTCCAGCTGTT
ATTCTCTTGTATTGAAAAGCTGTTGGCATTCTTGAATGTAAAAAATATCGTTCTCCCAGCTGCC
GAAGAAGCTGAATCAATCTGGACAGATAAATTCGGTTTCAAGAAGTTAAGACCTGACCAGGTTT
GTCAATAACATCATCAAAATCATGCTTGTATTCCCTTTTATCCAATTCAACTGCCATGTTTCTG
AAAACATTACATTTCCCTTGTGTTTCAGCTCAGTGAATATAGAAAATCATGCTGCCAGATGGTT
ATTTTCCAAGGAACTTCAATGCTACAGAAAGAAGTTCCAACCGATCAACTCGTTAGCAGCATCG
AGCGCACAGAATTATACAAACATATGAACCAAGGAAGATCTTATTTTCTAGA
						
					

			
		

Sequences
Splice junction sequence	CAATGCTACAGAAAGAAGTTCCAACCGATCAACTCGTTAGCAGCATCGAGCGCACAGAATTATA CAAACATATGAACCAAGGAAGATCTTATTTTCTAGAaatgtgcttctctgccaacaattcctca tggtcgctggtactgcaaatattgccagaacatgtttatgagagaaaaatgtgcagagcataat gctaatgc
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	AATGTGCTTCTCTGCCAACAATTCCTCATGGTCGCTGGTACTGCAAATATTGCCAGAACATGTT TATGAGAGAAAAATGTGCAGAGCATAATGCTAATGCTGCTGCTGCTGGAAGGATTTTAGGAGTT GATGCTATAGAACAAATAACCCGCAGATGCATTCGAATTGTGAAAAACATTGAGGCAGAACTTA GTGGATGCGCATTATGCAGGTTATGAGTACACACAAGGATGAATCATGAAGCCTATTTGTATAC AGTTTGCATTTGCGATATTTCCATAAATTTCTTTAGTTCTTTCCCCAATGCCTTTTGGTTTGGC TTGAAATTGTCCTCCTTTGATTTTATTTTATATAGGGCATGTGATTTTAGCAAATCAGGATTTG GTCCTCGGACAGTTATACTTTGTGATCAGGTATAATGTTAATCTTTTATTTCATCTTGTCTTTG CATTGTGCTTCAACACTGATAAAAATCCCCCCCCCCCTCTCTTCATTTCATTTTCACTGATGTG CTCATTTATATTTTAAAAATAATTTTGTATCAGTGTGAGAAAGAATATCATATTGGCTGTTTGA GGACTCATAAAATGGCTGATCTAAGGGTATGTATGCATTATTGTCACCGTTTTTTCTTTGATTA TTAAATATGAATTTCTTGATTCCTATCTGTTGGACACATTATCTGTTAATGGATGAAAATACTG ATGCTGCTTGTACAACAGGAAATACCGAAAGGGAAGTGGTTTTGCTGCTCAGATTGTGGTAGGA TCCATTCTACACTGCAGAAGTTGCTCATTCATGGAGCTGAAAGGCTCCCTGACTCCCTTTTGGA TGTATTAAAGAAGAAATATGTGGAAAAAGGTTTAGATGCTGATATCAATATTGATGTGAGATGG AGGCTTCTCAGCGGCAAATTCGCTTCTCCTGAAACTAGATTGTTGCTTTCTCAAGCAGTTGGTA TCTTCCATGTAAGTATTGTTCATGTTATATTTTGCCAATATTGATAAACTGTAGTCATGTAATG CTATTCTGTAATTATTGCAATTATTATAAATTTATTTTCGAGTTTTTATTTGCCAAGTATGCTT GCTGGGTTGGATGTTGCATGGAAACATCAGTAGCTTGTAACTAACGTTTATGCCAGTCATCTTC TTTCTTTATCTTTTAATTTTCTTTTTTCCCTTCTGCTAAAGTGGTTGGGGAAGCCGAAATACTG AGCTTATAACTTTATATGGTTAATATATGTTCATCTCTTACTTTCCTAATATACTTTTTAGCAT TATCTATTCTATTATCAGTAAAATATGGAGGCATCTTAATATTACCTTGCTTTGACATTATTAT GGTGGAAATTTTCACCCATTAAATACTATATTCTGTAAAAGAACATAATTGTACAATTTTGACA TTTTGAAAGCATTTAAGCCAAAAGGATTGATAAATGGATGCATTTTGCTTTGATGCCTCTGTTT ATGGGCTTCTTTAAAGGTTTTTGGGGATATCAGATGATAAGTGTGTGTTTCCAGGTAGACTTAT CTAACCAGGGTTTTATCCTGCCAATCTGAAACATTGCTTAGCAAAGCCGCCATGATTTGCATGT TCCATTCAAAACTGTGATTTAGCAGTGTAGGATAATATTTGCCTTTTGGGGCTCTGATGAGGCT ATGTTTTTTGTTTTCAAAACATAAAAGATGCATCGAGCCATGGCTTACCTTATTTCACTGAACT TTTCTTTTTTGTTTGGGTCAAGGAATGTTTCAACCCCATAGTTGATGCAGCAACTGGGAGGGAC CTTATCCCATGCATGGTTTATGGGTAAGCATGAGCCTTTCTTTTTTCTTCTCTTTTGGTGCTGG ATGTTGCTGGTTGTAGATATATACACCCCCCTTTTTTTTGACAAACTTGTATTACCTTCTCTCT TACAGAAGGAACTTAAAAGGCCAAGAATATGGAGGAATGTATTGTGCTGTATTGACAATTAAGT AAGACGTTTTTGCATAACATTTAAAGCTTTAGATGCTTTTGCTATTTGAATGTTGACAATATTC TCTTTTGGATAATGTTGCAGCTCATTCGTTGTATCAGCTGGAATAATTCGAGTTTTTGGGCAAG AAATTGCTGAAATTCCTTTAGTTGCTACAAGCATGGCTAACCATGGAAAGGTGAGGCTAATGGA CCCAAGTGTTGTTTTTATAATCTTTGCCTGCGATTCCTACCTCTTTTAAATAGTTTTACTTGGA TTTTCAATTGCTAGCTTGGTAATTTTGATGACTGTTTGAGTTTTTCTAATTCCACGAAACAGTC TGAAGACATTCTTCTTGCCAACACACTTGGAGTTGCTTTTTCCTTCACGTCTCGTAAATTCCTC TGTGATTTTACGAAATTATTAGAGCTTTGATTGTATATTGATGTTATCTTTTACCTGTTCTGAT ATCATATGTCTTCAATCTTGATTTACTGGAACTAAATTACCATACAGGGATACTTCCAGCTGTT ATTCTCTTGTATTGAAAAGCTGTTGGCATTCTTGAATGTAAAAAATATCGTTCTCCCAGCTGCC GAAGAAGCTGAATCAATCTGGACAGATAAATTCGGTTTCAAGAAGTTAAGACCTGACCAGGTTT GTCAATAACATCATCAAAATCATGCTTGTATTCCCTTTTATCCAATTCAACTGCCATGTTTCTG AAAACATTACATTTCCCTTGTGTTTCAGCTCAGTGAATATAGAAAATCATGCTGCCAGATGGTT ATTTTCCAAGGAACTTCAATGCTACAGAAAGAAGTTCCAACCGATCAACTCGTTAGCAGCATCG AGCGCACAGAATTATACAAACATATGAACCAAGGAAGATCTTATTTTCTAGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.933084501

Conservation Information
Conserved circRNAs	NA
PMCS	0.933084501

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							60956097-60956125(+)
60956127-60958844(-)
						
						Potential amino acid sequence
						
							MFMREKCAEHNANAAAAGRILGVDAIEQITRRCIRIVKNIEAELSGCALCRACDFSKSGFGPRT
VILCDQCEKEYHIGCLRTHKMADLREIPKGKWFCCSDCGRIHSTLQKLLIHGAERLPDSLLDVL
KKKYVEKGLDADINIDVRWRLLSGKFASPETRLLLSQAVGIFHECFNPIVDAATGRDLIPCMVY
GRNLKGQEYGGMYCAVLTINSFVVSAGIIRVFGQEIAEIPLVATSMANHGKGYFQLLFSCIEKL
LAFLNVKNIVLPAAEEAESIWTDKFGFKKLRPDQLSEYRKSCCQMVIFQGTSMLQKEVPTDQLV
SSIERTELYKHMNQGRSYFLEMCFSANNSSWSLVLQILPEHVYERKMCRA*(+)
MLCTFFSHKHVLAIFAVPATMRNCWQRSTFLENKIFLGSYVCIILCARCC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	60956097-60956125(+) 60956127-60958844(-)
Potential amino acid sequence	MFMREKCAEHNANAAAAGRILGVDAIEQITRRCIRIVKNIEAELSGCALCRACDFSKSGFGPRT VILCDQCEKEYHIGCLRTHKMADLREIPKGKWFCCSDCGRIHSTLQKLLIHGAERLPDSLLDVL KKKYVEKGLDADINIDVRWRLLSGKFASPETRLLLSQAVGIFHECFNPIVDAATGRDLIPCMVY GRNLKGQEYGGMYCAVLTINSFVVSAGIIRVFGQEIAEIPLVATSMANHGKGYFQLLFSCIEKL LAFLNVKNIVLPAAEEAESIWTDKFGFKKLRPDQLSEYRKSCCQMVIFQGTSMLQKEVPTDQLV SSIERTELYKHMNQGRSYFLEMCFSANNSSWSLVLQILPEHVYERKMCRA(+) MLCTFFSHKHVLAIFAVPATMRNCWQRSTFLENKIFLGSYVCIILCARCC(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G245500_circ_g.1

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