Plant Circular RNA Database

Detail information of orai.002G200500_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G200500_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000192
					
						Alias
						Chr02:54045946|54049678
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 54045946-54049678  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G200500						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						3
					
						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  
						
							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.002G200500.4:13
Gorai.002G200500.1:13
Gorai.002G200500.3:13
Gorai.002G200500.2:13

General Information
CircRNA Name	orai.002G200500_circ_g.1
ID in PlantcircBase	gra_circ_000192
Alias	Chr02:54045946\|54049678
Organism	Gossypium raimondii
Position	chrChr02: 54045946-54049678 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G200500
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	3
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	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.002G200500.4:13 Gorai.002G200500.1:13 Gorai.002G200500.3:13 Gorai.002G200500.2:13

			
						 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  
						
							TGTTTCAGCTGGGGTTCAGTATGATAAGGAGTTCATTGTATGCTCGCTAGATTTGCTTTCTGGA
CTAACAGAGGGCCTTGGTAGTGGAATAGAAAGTTTGgtctgcttattgtgatgcgcagttacca
cctgagattttgagagaatatttaccacgtttaattccagtatgctaatagtttgctgactttt
atattttt

									
								

					

						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
						
							GTCTGCTTATTGTGATGCGCAGTTACCACCTGAGATTTTGAGAGAATATTTACCACGTTTAATT
CCAGTATGCTAATAGTTTGCTGACTTTTATATTTTTGTTTCTTTTTTCTTTTTCCTGCAGAGCC
ATTTATATGATCTTTAGTTTTCACGTATCTGTTCCTGTTCTTTGTAGATTTTGTTGTCAAATAT
GGCTTATGCAGATGATGATGAATCACTTGCTGAGGCTGAGGTTATTTTTTTGTTAACTTCTGTA
TTCAGACTATGTGAATTGGCAAATATAATGGTTAATTTACTTGGAATTAATTCGTTCTTGTAGG
AAGATGAGTCTCTTCCAGACAGAGATCAGGTTGATATAATTTGTTTTTAATCATTCTGCTCTTA
GCTTTCCGTAATGTATTCACCATCAGCATTTTGCTGAATGTGGTTCTCTCTAATATTTTCCCTT
CAGGACCTAAAACCTCGATTTCATACGTCACGATTTCATGGTTCTGAGGATGCAGAAGATGATG
TAAGTATTTTTTTCCTCCTGTTGTGCCAGTCAATCAGATATCGTAGATAAGTTCTATAGCCCTT
TTTGTTTTAGAAAGATCTATTTTCCCGTGGAACTTTTTCTTAAGTGATCATTTTGGTACAGGAT
GATGACTCATTCAATGTATGGAACTTAAGGAAATGCAGTGCAGCAGCTCTTGATGTTCTATCAA
ATGTGTTCGGGGATGAAATTCTTCCAACTTTGATGCCTATTATTCAGGTAACTTACCTGTTGGG
GATATTAAAGTTAGAGCATGGAAATTGTATCTATATCTAATATTTATGTTGATTTTTTTCAGGC
CAAGTTAGCTGCTACTGGTGATGAAGCCTGGAAAGATAGGGAAGCTGCTGTTTTGGCTCTTGGC
GCAGTTGGTGAAGGTTGCATTAATGGTCTTTATCCTCATTTGTCTGAGGTAATTCTTCTTGTTC
TGTATTGATGAACAAAGTTCTGAGGCAGATTATGAGGTGAATAATAAATTGTGAATATATAATA
TGCTTTTGTTTTACTTAAATCAAGTTATGCTCCATAGTTTACCGTTGTTTCTTTTGCTTTGCTT
TTTCTATATTTTCTTTTCCATGCTGTTGAACTAATAGAAAAACATATTTATGTCTGCAGATTGT
GGCATTTTTAATTCCCCTTTTAGATGATAAGTTTCCTCTCATAAGGAGTATTTCTTGTTGGACA
CTTTCTCGATTCAGCAAATACATTGTTCAGGTATGGTTGGACGATGTTGCTTTTGTTGTTTCTT
TTTAAGACCACAGCTTCCATTTTGATGTTGTTTGGCTGTAAATCTTGCTTAAACTTTGTATCCA
ACAAATAATTTATCTTTTTGCCTCTTATGGAAATCTTTTGTTCTTAGCACATCCTGTTCTTGTT
TTATCCATGGCTTTGGATTTTATTTATGATTTAAGACACCCATGTTTCATTTATTTCAGGATAG
TGGTCATCAAAAAGGCTATGAGCAATTTGATGCAGCTCTTATGGGTCTTCTGCGAAGAATATTA
GATACTAACAAGCGGGTGCAAGAGGCTGCTTGTTCAGCTTTTGCAACACTTGAAGAGGTTGTTA
TAAATGTGCTGCACAACTTGTTGCGTATGGGGATCTAAGTTCTTAAACATTTCAACATTTTTTG
AAAAATTTTGTTTGCAGGAGGCTGCCGAAGAGTTGGCACCAAGGTTGGAAGTAATTTTACAGCA
TCTTATGTGTGCTTTTGGCAAGTATCAGGTGGTTTGCTGGATAATAGGCTCTTTTTACTGTTTT
GATTATGGCTTATGAGAGATGCTGCTTCATTTTTACTATTGAATAAAATTTTGCTCATGTATAA
TTTACAGAGGCGGAACCTCAGAATTGTTTATGATGCTATTGGAACTCTAGCAGATGCTGTTGGA
GGGGAATTGAATCAGGTATATCAGTAAGCTAAAGATAATAATGTTCTTACTTTGGTGGGTTTGC
CTTTTTCTTATAGGGATATTTCTCTCTACTGGTTTTGTCTATTGCAGCCCGTCTATCTTGAAAT
TCTGATGCCTCCACTTATTGCGAAGTGGCATCAGGTTCCAAATTCTGACAAAGATCTCTTTCCA
CTGCTTGAGTGCTTCACTTCCATAGCGCAGGTCTGTTGGCTTTTCTTGTTTGACCTTTGTATTT
ATTAGTTTTTTTTCTGAGGAGGGCAGATGAGTTGTTCTCTTTTAATTTGCATGTATTGGTTTGT
ATTTAGTTTCATGTTTATTTTTTTACTCTGAGGTCAGCAAGTAATTGAATAGGGAATACATCTA
GCAGTATTTTGGAAAGAGACTTCAAGCTGTGATAGAGTTGGCTGTAACTAAATTGGACCTAAAC
TGTTTTATCCTCTGACAGGAGTTTTAATGCGTACTGCAAATAAAAGAGAACAGCTCTATAAGTG
AAAAGAATCAAAAGATATTTCAACGTGATAAGTTTAATAAAATTGCAAAAAAGCTTTCCTCCCG
GTAAACTTTTTGTTGTGTGGTCTGGAGGTGTGAATCTCAAAAAGAAATGTCTGTTCTGTTCTAC
GTACACCTGTTGCTGGTTTTACTTTTATTTACCTACTGAGATCTGAAGTCTCTTCAGAGTGTTG
TTTTTGGCTTAATGATTTTTGCCTTTTTCTTCTTCTGTGCAATGTAACTTGGAAAATGGGAGTG
TGTACAAACTACTAGTTCTTATTAGTTTTGGAGCCAGTCCAATCTGCATGATTTTTTAATCTGC
AGTCAGCTATGCACCACAGTATTCTTCAATAGACTTTTTGACAAGATGACTGTACATGGTTTTA
GTAAACATTAGGATTAATGTATTTTACTTTTTCAGGCATTAGGTACCGGGTTCACTCAATTTGC
ACAGCCTGTATTTCAGAGGTGCATAAATATCATCCAGACTCAACAATTGGCTAAGGTGTTTATC
AATTTGACTTTTATTTCTCTTCTAACCAGCAATTTAGGTTAATTTGTTCATTTTTGCTTTCCTC
TTTATGGTTGCCTGATGCTTTTATAGATTTTTTATTCACTGTAATTGATCTCAATCAAGCAGCA
TATTGGTTAGTGCCTTGATTATTAGTTTGACTTCTGCTCTGTTCTGTCATGTTATTATGTGCTT
GGGTGCTTGGCCAAGACCTATCTGAAATTTCATTGTGTGATATATGTCTAGTACTTTCTTTTCA
ACTTGTGCTGCTGCTACCTTATTTGCACTTAACAATGTATGTGCAAATCTATTTTATTTGAACA
GTCTACAGTTAATATGGGTTTTGAGAGAAATCAGTTGCATTTCTCTTCTGTTCCACGTATATAT
TTACATGTTATATTATCCAATAGTGAAAATTTTTTGCATGTTGCTTGTCAAAATCACTAGTTCC
GTTGAATTTTGAGACCGCATGATTTTTCAACCTGCTTTTCAATTTGCAAGCAATTTTACACCAG
CCATTGTCCCAACCTCGAAGCAACTGAGCCCTTTTCTTCACTGCTTGATAATTCATGCAATCTG
CTTTTCTGTTTGCATAATGTTACCCCATATATGATTATTTTTCTGATATATTAACTTATTTTAG
TTATAGGTTTTTGAAGAAATTGATGAGAATTTCTATTGCAGGTTGATCCTGTTTCAGCTGGGGT
TCAGTATGATAAGGAGTTCATTGTATGCTCGCTAGATTTGCTTTCTGGACTAACAGAGGGCCTT
GGTAGTGGAATAGAAAGTTTG
						
					

			
		

Sequences
Splice junction sequence	TGTTTCAGCTGGGGTTCAGTATGATAAGGAGTTCATTGTATGCTCGCTAGATTTGCTTTCTGGA CTAACAGAGGGCCTTGGTAGTGGAATAGAAAGTTTGgtctgcttattgtgatgcgcagttacca cctgagattttgagagaatatttaccacgtttaattccagtatgctaatagtttgctgactttt atattttt
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	GTCTGCTTATTGTGATGCGCAGTTACCACCTGAGATTTTGAGAGAATATTTACCACGTTTAATT CCAGTATGCTAATAGTTTGCTGACTTTTATATTTTTGTTTCTTTTTTCTTTTTCCTGCAGAGCC ATTTATATGATCTTTAGTTTTCACGTATCTGTTCCTGTTCTTTGTAGATTTTGTTGTCAAATAT GGCTTATGCAGATGATGATGAATCACTTGCTGAGGCTGAGGTTATTTTTTTGTTAACTTCTGTA TTCAGACTATGTGAATTGGCAAATATAATGGTTAATTTACTTGGAATTAATTCGTTCTTGTAGG AAGATGAGTCTCTTCCAGACAGAGATCAGGTTGATATAATTTGTTTTTAATCATTCTGCTCTTA GCTTTCCGTAATGTATTCACCATCAGCATTTTGCTGAATGTGGTTCTCTCTAATATTTTCCCTT CAGGACCTAAAACCTCGATTTCATACGTCACGATTTCATGGTTCTGAGGATGCAGAAGATGATG TAAGTATTTTTTTCCTCCTGTTGTGCCAGTCAATCAGATATCGTAGATAAGTTCTATAGCCCTT TTTGTTTTAGAAAGATCTATTTTCCCGTGGAACTTTTTCTTAAGTGATCATTTTGGTACAGGAT GATGACTCATTCAATGTATGGAACTTAAGGAAATGCAGTGCAGCAGCTCTTGATGTTCTATCAA ATGTGTTCGGGGATGAAATTCTTCCAACTTTGATGCCTATTATTCAGGTAACTTACCTGTTGGG GATATTAAAGTTAGAGCATGGAAATTGTATCTATATCTAATATTTATGTTGATTTTTTTCAGGC CAAGTTAGCTGCTACTGGTGATGAAGCCTGGAAAGATAGGGAAGCTGCTGTTTTGGCTCTTGGC GCAGTTGGTGAAGGTTGCATTAATGGTCTTTATCCTCATTTGTCTGAGGTAATTCTTCTTGTTC TGTATTGATGAACAAAGTTCTGAGGCAGATTATGAGGTGAATAATAAATTGTGAATATATAATA TGCTTTTGTTTTACTTAAATCAAGTTATGCTCCATAGTTTACCGTTGTTTCTTTTGCTTTGCTT TTTCTATATTTTCTTTTCCATGCTGTTGAACTAATAGAAAAACATATTTATGTCTGCAGATTGT GGCATTTTTAATTCCCCTTTTAGATGATAAGTTTCCTCTCATAAGGAGTATTTCTTGTTGGACA CTTTCTCGATTCAGCAAATACATTGTTCAGGTATGGTTGGACGATGTTGCTTTTGTTGTTTCTT TTTAAGACCACAGCTTCCATTTTGATGTTGTTTGGCTGTAAATCTTGCTTAAACTTTGTATCCA ACAAATAATTTATCTTTTTGCCTCTTATGGAAATCTTTTGTTCTTAGCACATCCTGTTCTTGTT TTATCCATGGCTTTGGATTTTATTTATGATTTAAGACACCCATGTTTCATTTATTTCAGGATAG TGGTCATCAAAAAGGCTATGAGCAATTTGATGCAGCTCTTATGGGTCTTCTGCGAAGAATATTA GATACTAACAAGCGGGTGCAAGAGGCTGCTTGTTCAGCTTTTGCAACACTTGAAGAGGTTGTTA TAAATGTGCTGCACAACTTGTTGCGTATGGGGATCTAAGTTCTTAAACATTTCAACATTTTTTG AAAAATTTTGTTTGCAGGAGGCTGCCGAAGAGTTGGCACCAAGGTTGGAAGTAATTTTACAGCA TCTTATGTGTGCTTTTGGCAAGTATCAGGTGGTTTGCTGGATAATAGGCTCTTTTTACTGTTTT GATTATGGCTTATGAGAGATGCTGCTTCATTTTTACTATTGAATAAAATTTTGCTCATGTATAA TTTACAGAGGCGGAACCTCAGAATTGTTTATGATGCTATTGGAACTCTAGCAGATGCTGTTGGA GGGGAATTGAATCAGGTATATCAGTAAGCTAAAGATAATAATGTTCTTACTTTGGTGGGTTTGC CTTTTTCTTATAGGGATATTTCTCTCTACTGGTTTTGTCTATTGCAGCCCGTCTATCTTGAAAT TCTGATGCCTCCACTTATTGCGAAGTGGCATCAGGTTCCAAATTCTGACAAAGATCTCTTTCCA CTGCTTGAGTGCTTCACTTCCATAGCGCAGGTCTGTTGGCTTTTCTTGTTTGACCTTTGTATTT ATTAGTTTTTTTTCTGAGGAGGGCAGATGAGTTGTTCTCTTTTAATTTGCATGTATTGGTTTGT ATTTAGTTTCATGTTTATTTTTTTACTCTGAGGTCAGCAAGTAATTGAATAGGGAATACATCTA GCAGTATTTTGGAAAGAGACTTCAAGCTGTGATAGAGTTGGCTGTAACTAAATTGGACCTAAAC TGTTTTATCCTCTGACAGGAGTTTTAATGCGTACTGCAAATAAAAGAGAACAGCTCTATAAGTG AAAAGAATCAAAAGATATTTCAACGTGATAAGTTTAATAAAATTGCAAAAAAGCTTTCCTCCCG GTAAACTTTTTGTTGTGTGGTCTGGAGGTGTGAATCTCAAAAAGAAATGTCTGTTCTGTTCTAC GTACACCTGTTGCTGGTTTTACTTTTATTTACCTACTGAGATCTGAAGTCTCTTCAGAGTGTTG TTTTTGGCTTAATGATTTTTGCCTTTTTCTTCTTCTGTGCAATGTAACTTGGAAAATGGGAGTG TGTACAAACTACTAGTTCTTATTAGTTTTGGAGCCAGTCCAATCTGCATGATTTTTTAATCTGC AGTCAGCTATGCACCACAGTATTCTTCAATAGACTTTTTGACAAGATGACTGTACATGGTTTTA GTAAACATTAGGATTAATGTATTTTACTTTTTCAGGCATTAGGTACCGGGTTCACTCAATTTGC ACAGCCTGTATTTCAGAGGTGCATAAATATCATCCAGACTCAACAATTGGCTAAGGTGTTTATC AATTTGACTTTTATTTCTCTTCTAACCAGCAATTTAGGTTAATTTGTTCATTTTTGCTTTCCTC TTTATGGTTGCCTGATGCTTTTATAGATTTTTTATTCACTGTAATTGATCTCAATCAAGCAGCA TATTGGTTAGTGCCTTGATTATTAGTTTGACTTCTGCTCTGTTCTGTCATGTTATTATGTGCTT GGGTGCTTGGCCAAGACCTATCTGAAATTTCATTGTGTGATATATGTCTAGTACTTTCTTTTCA ACTTGTGCTGCTGCTACCTTATTTGCACTTAACAATGTATGTGCAAATCTATTTTATTTGAACA GTCTACAGTTAATATGGGTTTTGAGAGAAATCAGTTGCATTTCTCTTCTGTTCCACGTATATAT TTACATGTTATATTATCCAATAGTGAAAATTTTTTGCATGTTGCTTGTCAAAATCACTAGTTCC GTTGAATTTTGAGACCGCATGATTTTTCAACCTGCTTTTCAATTTGCAAGCAATTTTACACCAG CCATTGTCCCAACCTCGAAGCAACTGAGCCCTTTTCTTCACTGCTTGATAATTCATGCAATCTG CTTTTCTGTTTGCATAATGTTACCCCATATATGATTATTTTTCTGATATATTAACTTATTTTAG TTATAGGTTTTTGAAGAAATTGATGAGAATTTCTATTGCAGGTTGATCCTGTTTCAGCTGGGGT TCAGTATGATAAGGAGTTCATTGTATGCTCGCTAGATTTGCTTTCTGGACTAACAGAGGGCCTT GGTAGTGGAATAGAAAGTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.10354218

Conservation Information
Conserved circRNAs	NA
PMCS	0.10354218

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							54046136-54045957(+)
54046596-54049596(-)
						
						Potential amino acid sequence
						
							MAYADDDESLAEAEEDESLPDRDQDLKPRFHTSRFHGSEDAEDDDDDSFNVWNLRKCSAAALDV
LSNVFGDEILPTLMPIIQAKLAATGDEAWKDREAAVLALGAVGEGCINGLYPHLSEIVAFLIPL
LDDKFPLIRSISCWTLSRFSKYIVQDSGHQKGYEQFDAALMGLLRRILDTNKRVQEAACSAFAT
LEEEAAEELAPRLEVILQHLMCAFGKYQRRNLRIVYDAIGTLADAVGGELNQPVYLEILMPPLI
AKWHQVPNSDKDLFPLLECFTSIAQALGTGFTQFAQPVFQRCINIIQTQQLAKVDPVSAGVQYD
KEFIVCSLDLLSGLTEGLGSGIESLVCLL*(+)
MSHHHHLLHPQNHEIVTYEIEVLGPDLCLEETHLPQPQQVIHHHLHKPYLTTKLELNVVNILSK
SQVVTAHHNKQTKLSIPLPRPSVSPESKSSEHTMNSLSY*(-)
						
						Sponge-miRNAs
						
							gra-miR8718 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	54046136-54045957(+) 54046596-54049596(-)
Potential amino acid sequence	MAYADDDESLAEAEEDESLPDRDQDLKPRFHTSRFHGSEDAEDDDDDSFNVWNLRKCSAAALDV LSNVFGDEILPTLMPIIQAKLAATGDEAWKDREAAVLALGAVGEGCINGLYPHLSEIVAFLIPL LDDKFPLIRSISCWTLSRFSKYIVQDSGHQKGYEQFDAALMGLLRRILDTNKRVQEAACSAFAT LEEEAAEELAPRLEVILQHLMCAFGKYQRRNLRIVYDAIGTLADAVGGELNQPVYLEILMPPLI AKWHQVPNSDKDLFPLLECFTSIAQALGTGFTQFAQPVFQRCINIIQTQQLAKVDPVSAGVQYD KEFIVCSLDLLSGLTEGLGSGIESLVCLL(+) MSHHHHLLHPQNHEIVTYEIEVLGPDLCLEETHLPQPQQVIHHHLHKPYLTTKLELNVVNILSK SQVVTAHHNKQTKLSIPLPRPSVSPESKSSEHTMNSLSY(-)
Sponge-miRNAs	gra-miR8718
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G200500_circ_g.1

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