Plant Circular RNA Database

Detail information of orai.006G070000_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.006G070000_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000579
					
						Alias
						Chr06:28292746|28294840
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr06: 28292746-28294840  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.006G070000						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							orai.006G070000_circ_g.2 						
					
						Support reads
						4
					
						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.006G070000.2:6
Gorai.006G070000.6:6
Gorai.006G070000.1:6
Gorai.006G070000.4:6
Gorai.006G070000.5:6
Gorai.006G070000.3:6

General Information
CircRNA Name	orai.006G070000_circ_g.1
ID in PlantcircBase	gra_circ_000579
Alias	Chr06:28292746\|28294840
Organism	Gossypium raimondii
Position	chrChr06: 28292746-28294840 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.006G070000
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	orai.006G070000_circ_g.2
Support reads	4
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.006G070000.2:6 Gorai.006G070000.6:6 Gorai.006G070000.1:6 Gorai.006G070000.4:6 Gorai.006G070000.5:6 Gorai.006G070000.3:6

			
						 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  
						
							TATGGTGGTTTCTTTTCAGGCAGTTGTTTGTGGTCTTTATCGGAATGGTAGGATATACTTCCAC
CCTGGAGATGATGAAGTTCTTCAGGAAATGGACAAAgaggcaaagaattcttcttttggcggat
cttccaaggaagcaaatagacaagctggcggacaacattgccaaggatcttattcatattgata
tcctttca

									
								

					

						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
						
							GAGGCAAAGAATTCTTCTTTTGGCGGATCTTCCAAGGAAGCAAATAGACAAGCTGGCGGACAAC
ATTGCCAAGGATCTTATTCATATTGATATCCTTTCAAAGAGGTATAGGAATGATGTCCACTTCC
CCCCTAATTTACAAACCCCAACTAGTTTCCCTTTTATAGTCATTCCCAGTCCCAGATAAAAATT
TAGCTGTCATATCTTTTAACTTCAAGCTAATTACTCACTTCTTTGCTAAATCTGTAAACTTATG
ATCCTTTCTGGTTTTCACGAGATAAATAAAATTTCTAATTGTCTTAAGCTTCCATATTTTAAAT
ATTAGTTCTACTTGTGCAGTTGTAGCCTTAGTTTGACGAAATCATTTGAAAGAGCAGCAGCTAA
TAAGGCACGCGCCATTATCATTCTTGCGACAAAAGGAGATCAGTAATACCTCTATCAACTTAAA
TGAAATATATTCTTTTGATGATCGTCTTTTGTTAGTGTTACATTATGTCATTTCCTATTACTCC
AAGATTATTTTAACTCTTGAATGCTGCATGATGCAAAGTTTAGCCTTTTTTACCCGATAATTTG
TTTAGCCGAATTTTACTTATAGTATTAGTTGTCAGATTACTAGTAGTTTCTAAATCAAACCTAC
ACTGCAGTGATTGACCCTTAAACTCGGACTTGAGGGTTTGGAACTACGTTACACAGACTTGGAC
TTGTCAGATATGTTCAATTTTTCTAAATTTGAATGTATTTGAAGACTCTTGGGGGGGGGGGGGT
TATATTCCCATACCTATGTCTGGATATGCAACAGATACTGGTACTTAAAAAAAAAAAAACTTTG
GACTCGGAGTAACATAGGCTTTAAAAGCTATGAATGCCGGAAAAGTTGCACACTGCATTGAGGA
ATGAAGTTAAGATAATAGCTGTAGCAGAAGCTATTAAGCTCTGCCTCTGCTATGCTAGTTTCTA
GCAGATTCTTTTGCATGTTTGTTTTTAATTGGTGCATAATACAGACACCTTCTTCAGGGGAAAT
TTAGTGACTACGGTTCCTTAACTGATTAGGTATGGAGTTGATACAGATGCGTTTCTCTCCGTAC
TAGCACTTCAACCTATTCCCAAGATGGAATCCATTCCCACGATTGTCGAGGTCTGCACATTTGC
ATCACCATAGGATCAAAATATTATTCTACTAAGATAAATCGAGTTTAATTTGGCATTTTTTTCC
CCTGATGCAGGTTTCAAATTCCAATACATGTGAGCTCTTGAAGTCAATCTCCGGACTGAAAGTA
GAGCCAGTGGAAAATGTTTCTTCTAAACTATTTGCTCAATGTTCTCGGCAAAAGGGGCTCATAA
AGATCTACAGGCACTTGCTTAATTACCAAAGTATGATATGAGTTCTTGTTGAGAACTTCTATTT
TCCTGATGTCCGAAAGACAATTAAAGTGTAAATATTAAAATTCCCTGTTTATTGCTGCTTTTAA
ATAATCTGGGATGGTTGTAAATCTAGATACCTTTTAAAACTAGGTAGTTCTTATTCTTGGTCAA
TAAAACTGTATGAGTGTTGGGTTTGAGTGTTGGATAGATAATGTGACCAAGATGGGGTATGTGC
AATATTTAAGTCTTTCCATGTCTCTGGAGGGTCATATCTATGTGCCCATGTTTAAAAATGTATC
AGACAATGTGTCAAATACGGATACTTAAAAAACAATAGAGTCGGAAGAACATAGGCTTGACCTA
CAAAATGTTGTCATTTCTAATAGTTTCTTCTCTTAGGGTCTTTTCTATCGGTAAATGAAACTCT
ATGGGTCCATTTCTTGTTCTTGTCATAGATTTCTACTCGAAAACTAATTATATCATGATATTGC
AGAAAATGTATTCAGTCTTCACCATTTTCCGAGTCTAACCGGGTTGACATATAGACAAATACGA
CAAGGGTTTCAAGAGGTAATGCTTTATGCTAAAACTCAGTATTTGTTGGTATGAAGAACTTCCA
TGCTATTGTCTTATGGTGGTTTCTTTTCAGGCAGTTGTTTGTGGTCTTTATCGGAATGGTAGGA
TATACTTCCACCCTGGAGATGATGAAGTTCTTCAGGAAATGGACAAA
						
					

			
		

Sequences
Splice junction sequence	TATGGTGGTTTCTTTTCAGGCAGTTGTTTGTGGTCTTTATCGGAATGGTAGGATATACTTCCAC CCTGGAGATGATGAAGTTCTTCAGGAAATGGACAAAgaggcaaagaattcttcttttggcggat cttccaaggaagcaaatagacaagctggcggacaacattgccaaggatcttattcatattgata tcctttca
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	GAGGCAAAGAATTCTTCTTTTGGCGGATCTTCCAAGGAAGCAAATAGACAAGCTGGCGGACAAC ATTGCCAAGGATCTTATTCATATTGATATCCTTTCAAAGAGGTATAGGAATGATGTCCACTTCC CCCCTAATTTACAAACCCCAACTAGTTTCCCTTTTATAGTCATTCCCAGTCCCAGATAAAAATT TAGCTGTCATATCTTTTAACTTCAAGCTAATTACTCACTTCTTTGCTAAATCTGTAAACTTATG ATCCTTTCTGGTTTTCACGAGATAAATAAAATTTCTAATTGTCTTAAGCTTCCATATTTTAAAT ATTAGTTCTACTTGTGCAGTTGTAGCCTTAGTTTGACGAAATCATTTGAAAGAGCAGCAGCTAA TAAGGCACGCGCCATTATCATTCTTGCGACAAAAGGAGATCAGTAATACCTCTATCAACTTAAA TGAAATATATTCTTTTGATGATCGTCTTTTGTTAGTGTTACATTATGTCATTTCCTATTACTCC AAGATTATTTTAACTCTTGAATGCTGCATGATGCAAAGTTTAGCCTTTTTTACCCGATAATTTG TTTAGCCGAATTTTACTTATAGTATTAGTTGTCAGATTACTAGTAGTTTCTAAATCAAACCTAC ACTGCAGTGATTGACCCTTAAACTCGGACTTGAGGGTTTGGAACTACGTTACACAGACTTGGAC TTGTCAGATATGTTCAATTTTTCTAAATTTGAATGTATTTGAAGACTCTTGGGGGGGGGGGGGT TATATTCCCATACCTATGTCTGGATATGCAACAGATACTGGTACTTAAAAAAAAAAAAACTTTG GACTCGGAGTAACATAGGCTTTAAAAGCTATGAATGCCGGAAAAGTTGCACACTGCATTGAGGA ATGAAGTTAAGATAATAGCTGTAGCAGAAGCTATTAAGCTCTGCCTCTGCTATGCTAGTTTCTA GCAGATTCTTTTGCATGTTTGTTTTTAATTGGTGCATAATACAGACACCTTCTTCAGGGGAAAT TTAGTGACTACGGTTCCTTAACTGATTAGGTATGGAGTTGATACAGATGCGTTTCTCTCCGTAC TAGCACTTCAACCTATTCCCAAGATGGAATCCATTCCCACGATTGTCGAGGTCTGCACATTTGC ATCACCATAGGATCAAAATATTATTCTACTAAGATAAATCGAGTTTAATTTGGCATTTTTTTCC CCTGATGCAGGTTTCAAATTCCAATACATGTGAGCTCTTGAAGTCAATCTCCGGACTGAAAGTA GAGCCAGTGGAAAATGTTTCTTCTAAACTATTTGCTCAATGTTCTCGGCAAAAGGGGCTCATAA AGATCTACAGGCACTTGCTTAATTACCAAAGTATGATATGAGTTCTTGTTGAGAACTTCTATTT TCCTGATGTCCGAAAGACAATTAAAGTGTAAATATTAAAATTCCCTGTTTATTGCTGCTTTTAA ATAATCTGGGATGGTTGTAAATCTAGATACCTTTTAAAACTAGGTAGTTCTTATTCTTGGTCAA TAAAACTGTATGAGTGTTGGGTTTGAGTGTTGGATAGATAATGTGACCAAGATGGGGTATGTGC AATATTTAAGTCTTTCCATGTCTCTGGAGGGTCATATCTATGTGCCCATGTTTAAAAATGTATC AGACAATGTGTCAAATACGGATACTTAAAAAACAATAGAGTCGGAAGAACATAGGCTTGACCTA CAAAATGTTGTCATTTCTAATAGTTTCTTCTCTTAGGGTCTTTTCTATCGGTAAATGAAACTCT ATGGGTCCATTTCTTGTTCTTGTCATAGATTTCTACTCGAAAACTAATTATATCATGATATTGC AGAAAATGTATTCAGTCTTCACCATTTTCCGAGTCTAACCGGGTTGACATATAGACAAATACGA CAAGGGTTTCAAGAGGTAATGCTTTATGCTAAAACTCAGTATTTGTTGGTATGAAGAACTTCCA TGCTATTGTCTTATGGTGGTTTCTTTTCAGGCAGTTGTTTGTGGTCTTTATCGGAATGGTAGGA TATACTTCCACCCTGGAGATGATGAAGTTCTTCAGGAAATGGACAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000192* ghi_circ_000131* 						
					
						PMCS
						0.103858309

Conservation Information
Conserved circRNAs	gar_circ_000192* ghi_circ_000131*
PMCS	0.103858309

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28293857-28292832(+)
28294785-28292832(+)
28292831-28294615(-)
28292812-28294638(-)
						
						Potential amino acid sequence
						
							MESIPTIVEVSNSNTCELLKSISGLKVEPVENVSSKLFAQCSRQKGLIKIYRHLLNYQKNVFSL
HHFPSLTGLTYRQIRQGFQEAVVCGLYRNGRIYFHPGDDEVLQEMDKEAKNSSFGGSSKEANRQ
AGGQHCQGSYSY*(+)
MVGYTSTLEMMKFFRKWTKRQRILLLADLPRKQIDKLADNIAKDLIHIDILSKSCSLSLTKSFE
RAAANKARAIIILATKGDQYGVDTDAFLSVLALQPIPKMESIPTIVEVSNSNTCELLKSISGLK
VEPVENVSSKLFAQCSRQKGLIKIYRHLLNYQKNVFSLHHFPSLTGLTYRQIRQGFQEAVVCGL
YRNGRIYFHPGDDEVLQEMDKEAKNSSFGGSSKEANRQAGGQHCQGSYSY*(+)
MNKILGNVVRQLVYLLPWKIRQKKNSLPLCPFPEELHHLQGGSISYHSDKDHKQLPLETLVVFV
YMSTRLDSENGED*(-)
MLSASLSICFLGRSAKRRILCLFVHFLKNFIISRVEVYPTIPIKTTNNCLLKPLSYLSICQPG*
(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28293857-28292832(+) 28294785-28292832(+) 28292831-28294615(-) 28292812-28294638(-)
Potential amino acid sequence	MESIPTIVEVSNSNTCELLKSISGLKVEPVENVSSKLFAQCSRQKGLIKIYRHLLNYQKNVFSL HHFPSLTGLTYRQIRQGFQEAVVCGLYRNGRIYFHPGDDEVLQEMDKEAKNSSFGGSSKEANRQ AGGQHCQGSYSY(+) MVGYTSTLEMMKFFRKWTKRQRILLLADLPRKQIDKLADNIAKDLIHIDILSKSCSLSLTKSFE RAAANKARAIIILATKGDQYGVDTDAFLSVLALQPIPKMESIPTIVEVSNSNTCELLKSISGLK VEPVENVSSKLFAQCSRQKGLIKIYRHLLNYQKNVFSLHHFPSLTGLTYRQIRQGFQEAVVCGL YRNGRIYFHPGDDEVLQEMDKEAKNSSFGGSSKEANRQAGGQHCQGSYSY(+) MNKILGNVVRQLVYLLPWKIRQKKNSLPLCPFPEELHHLQGGSISYHSDKDHKQLPLETLVVFV YMSTRLDSENGED(-) MLSASLSICFLGRSAKRRILCLFVHFLKNFIISRVEVYPTIPIKTTNNCLLKPLSYLSICQPG (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.006G070000_circ_g.1

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