Plant Circular RNA Database

Detail information of orai.001G233800_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.001G233800_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000097
					
						Alias
						Chr01:47106509|47108314
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr01: 47106509-47108314  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.001G233800						
					
						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.001G233800.7:6
Gorai.001G233800.5:6
Gorai.001G233800.2:6
Gorai.001G233800.4:6
Gorai.001G233800.6:6
Gorai.001G233800.3:6
Gorai.001G233800.1:6

General Information
CircRNA Name	orai.001G233800_circ_g.1
ID in PlantcircBase	gra_circ_000097
Alias	Chr01:47106509\|47108314
Organism	Gossypium raimondii
Position	chrChr01: 47106509-47108314 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.001G233800
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.001G233800.7:6 Gorai.001G233800.5:6 Gorai.001G233800.2:6 Gorai.001G233800.4:6 Gorai.001G233800.6:6 Gorai.001G233800.3:6 Gorai.001G233800.1:6

			
						 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  
						
							TTAAAGAACCTACATTTACCTCAGTCTGTACCAAATAAAATTCAATAGATCTTCGGTAGGTTTC
CATAGCACCTGAAGGAACTGCATAGAAGAGGCTTTCcttgggtgttttggcttttctactcttg
tcagaaacatgcattaatctgatgattttgctggagttggacatgttactcatctgggacccta
ctggtgaa

									
								

					

						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: 960
Transcript exons: 47106509-47106699,47106808-47106865,47107278-47107328,47
107437-47107957,47108036-47108093,47108234-47108314
CTTGGGTGTTTTGGCTTTTCTACTCTTGTCAGAAACATGCATTAATCTGATGATTTTGCTGGAG
TTGGACATGTTACTCATCTGGGACCCTACTGGTGAAGGGATTGATCCATTTGAAGTGATGTCAA
AAGTGTTATCTAGCTGTTGCTTCATTATCTTCAGCTTCTTGGCATTATGTTGCCCAAATAAACC
GCTGGTTCCATTAGAATCAAAATGAGAACTCTCAGGTCTCTTTTTGGAATAATTCCCCAGTTCA
TTATGAGTAGATTCAAGTTGCCAACCCTCATCATATGCAGAACCAAGATTCTTGGTTTTTTTCT
TCTTTTTAGCTTTTGTTGGTGGTTCTGCACGGTCATTTTGTAGCTGACTTTCAAAGTTCCCAAC
TGATTCAACCTCTGTGCTTTTCTCGATCTGGAATCCTCCATTCAAAGTACTCTGATCATCCTGA
AAAGAATTATTATCTCCACTAGAAGCATCTGTTTTTGTTGGAGCTTGTAAACCCCCAGCAGCAG
CTGCACAGCTAAAAAGACTTAAAACCCTCTGCCTGGGACCAGTGCGAACACGTTTCGTTGGAAT
TGGACCAACATTTAGACCACTTGCAGGCCTTTTACCCATTAAGGTTGATTGTTGAGCACAGTTT
CCATAAGGCAAATCAGAACCCATTTCATATGATCTTGCAGGAGGATATGATTTCATAATTTTCA
TTGTCCGCTTCTTCTGGTTTAGTTTTGACGATTTGCTACCTTGAAAGGCTCCAGGCAAATAATA
CATACTTGTTTCTCCTTCATCCTCATCATACACAAAGTTGCCATATGGAAACTCGGCTCCAGCA
TCATAAACAGATGTTTCAACCACCTCTTGCACGTTACTCTCAATTTTCTCAGTCTGTACCAAAT
AAAATTCAATAGATCTTCGGTAGGTTTCCATAGCACCTGAAGGAACTGCATAGAAGAGGCTTTC
						
					

						Genomic sequence
						
							CTTGGGTGTTTTGGCTTTTCTACTCTTGTCAGAAACATGCATTAATCTGATGATTTTGCTGGAG
TTGGACATGTTACTCATCTGGGACCCTACTGGTGAAGGGATTGATCCATTTGAAGTGATGTCAA
AAGTGTTATCTAGCTGTTGCTTCATTATCTTCAGCTTCTTGGCATTATGTTGCCCAAATAAACC
TAATAAAAAGATAATTGACAGGATGATGGGTGAAGAACATGACATAAAATAGATATACCCAACC
ACGTAACCCGTGATTAAATCAAATATGATAAAAAAAGCTTTACCGCTGGTTCCATTAGAATCAA
AATGAGAACTCTCAGGTCTCTTTTTGGAATAATTCCCCTGCAAAATAAATGGAATCATCATAAA
ATAAAGTTCATCACAACTATCATGGGGAGCAGGAAGTCAACTTGATCCACCTAGTCCTTGATCT
CATAAAATTTTGAAAATACTAAAATGACCTCAAAGCTTTAAAAGTTTCCTTCATCAAGAAACTG
GACAAATCTGACTGAGGATATTCAGAAATCAACTTAAGAACCTATAATACCTTTGAAAATGAAT
CTCAAGCTAGGTAAAGTTGCACAATTAAATTAACATATACAAGGACCAAAAATGGTAATTAGAC
ATCCAAGAAGAAAAAATTAAATTAAGTTTCTTAATGATAAAATGACTGTACTATTCCATTAAAG
AGGAAGAAAACGATAAAGCAAAAGATCATTTACATCAAGCAACAGAGCTGAAGATGACAAATTA
CCAGTTCATTATGAGTAGATTCAAGTTGCCAACCCTCATCATATGCAGAACCCTACCAGAAACA
CGATTCATGACCTTAGAAACTAAGGAAAATAATGGAACTATACCATTCCATTATAAAAAAACCC
AGTGTCAGTAAAACAGAAGAATCCCTACGTACAAGATTCTTGGTTTTTTTCTTCTTTTTAGCTT
TTGTTGGTGGTTCTGCACGGTCATTTTGTAGCTGACTTTCAAAGTTCCCAACTGATTCAACCTC
TGTGCTTTTCTCGATCTGGAATCCTCCATTCAAAGTACTCTGATCATCCTGAAAAGAATTATTA
TCTCCACTAGAAGCATCTGTTTTTGTTGGAGCTTGTAAACCCCCAGCAGCAGCTGCACAGCTAA
AAAGACTTAAAACCCTCTGCCTGGGACCAGTGCGAACACGTTTCGTTGGAATTGGACCAACATT
TAGACCACTTGCAGGCCTTTTACCCATTAAGGTTGATTGTTGAGCACAGTTTCCATAAGGCAAA
TCAGAACCCATTTCATATGATCTTGCAGGAGGATATGATTTCATAATTTTCATTGTCCGCTTCT
TCTGGTTTAGTTTTGACGATTTGCTACCTTGAAAGGCTCCAGGCAAATAATACATACTTGTTTC
TCCTTCATCCTCATCATACACAAAGTTGCCATATGGAAACTCTGAATTTGAAGAAGTTGTAAGG
AACATATGACTATTGAATAACAAAGATAATCAAAACAAAAAAGTGTCATGATTACCGGCTCCAG
CATCATAAACAGATGTTTCAACCACCTCTTGCACGTTACTCTCAATTTTCTGGGGGGAAAATTA
AAAAATAAGCAAGATTTCGGATGAATCATACAAGTCCAGCAATTTTTCTTCAGATTACTGTAAA
AATATAGGGGGGACAAAAGAAAAAAGACAATGTATAAACTCATTAAAGAACCTACATTTACCTC
AGTCTGTACCAAATAAAATTCAATAGATCTTCGGTAGGTTTCCATAGCACCTGAAGGAACTGCA
TAGAAGAGGCTTTC
						
					

			
		

Sequences
Splice junction sequence	TTAAAGAACCTACATTTACCTCAGTCTGTACCAAATAAAATTCAATAGATCTTCGGTAGGTTTC CATAGCACCTGAAGGAACTGCATAGAAGAGGCTTTCcttgggtgttttggcttttctactcttg tcagaaacatgcattaatctgatgattttgctggagttggacatgttactcatctgggacccta ctggtgaa
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: 960 Transcript exons: 47106509-47106699,47106808-47106865,47107278-47107328,47 107437-47107957,47108036-47108093,47108234-47108314 CTTGGGTGTTTTGGCTTTTCTACTCTTGTCAGAAACATGCATTAATCTGATGATTTTGCTGGAG TTGGACATGTTACTCATCTGGGACCCTACTGGTGAAGGGATTGATCCATTTGAAGTGATGTCAA AAGTGTTATCTAGCTGTTGCTTCATTATCTTCAGCTTCTTGGCATTATGTTGCCCAAATAAACC GCTGGTTCCATTAGAATCAAAATGAGAACTCTCAGGTCTCTTTTTGGAATAATTCCCCAGTTCA TTATGAGTAGATTCAAGTTGCCAACCCTCATCATATGCAGAACCAAGATTCTTGGTTTTTTTCT TCTTTTTAGCTTTTGTTGGTGGTTCTGCACGGTCATTTTGTAGCTGACTTTCAAAGTTCCCAAC TGATTCAACCTCTGTGCTTTTCTCGATCTGGAATCCTCCATTCAAAGTACTCTGATCATCCTGA AAAGAATTATTATCTCCACTAGAAGCATCTGTTTTTGTTGGAGCTTGTAAACCCCCAGCAGCAG CTGCACAGCTAAAAAGACTTAAAACCCTCTGCCTGGGACCAGTGCGAACACGTTTCGTTGGAAT TGGACCAACATTTAGACCACTTGCAGGCCTTTTACCCATTAAGGTTGATTGTTGAGCACAGTTT CCATAAGGCAAATCAGAACCCATTTCATATGATCTTGCAGGAGGATATGATTTCATAATTTTCA TTGTCCGCTTCTTCTGGTTTAGTTTTGACGATTTGCTACCTTGAAAGGCTCCAGGCAAATAATA CATACTTGTTTCTCCTTCATCCTCATCATACACAAAGTTGCCATATGGAAACTCGGCTCCAGCA TCATAAACAGATGTTTCAACCACCTCTTGCACGTTACTCTCAATTTTCTCAGTCTGTACCAAAT AAAATTCAATAGATCTTCGGTAGGTTTCCATAGCACCTGAAGGAACTGCATAGAAGAGGCTTTC
Genomic sequence	CTTGGGTGTTTTGGCTTTTCTACTCTTGTCAGAAACATGCATTAATCTGATGATTTTGCTGGAG TTGGACATGTTACTCATCTGGGACCCTACTGGTGAAGGGATTGATCCATTTGAAGTGATGTCAA AAGTGTTATCTAGCTGTTGCTTCATTATCTTCAGCTTCTTGGCATTATGTTGCCCAAATAAACC TAATAAAAAGATAATTGACAGGATGATGGGTGAAGAACATGACATAAAATAGATATACCCAACC ACGTAACCCGTGATTAAATCAAATATGATAAAAAAAGCTTTACCGCTGGTTCCATTAGAATCAA AATGAGAACTCTCAGGTCTCTTTTTGGAATAATTCCCCTGCAAAATAAATGGAATCATCATAAA ATAAAGTTCATCACAACTATCATGGGGAGCAGGAAGTCAACTTGATCCACCTAGTCCTTGATCT CATAAAATTTTGAAAATACTAAAATGACCTCAAAGCTTTAAAAGTTTCCTTCATCAAGAAACTG GACAAATCTGACTGAGGATATTCAGAAATCAACTTAAGAACCTATAATACCTTTGAAAATGAAT CTCAAGCTAGGTAAAGTTGCACAATTAAATTAACATATACAAGGACCAAAAATGGTAATTAGAC ATCCAAGAAGAAAAAATTAAATTAAGTTTCTTAATGATAAAATGACTGTACTATTCCATTAAAG AGGAAGAAAACGATAAAGCAAAAGATCATTTACATCAAGCAACAGAGCTGAAGATGACAAATTA CCAGTTCATTATGAGTAGATTCAAGTTGCCAACCCTCATCATATGCAGAACCCTACCAGAAACA CGATTCATGACCTTAGAAACTAAGGAAAATAATGGAACTATACCATTCCATTATAAAAAAACCC AGTGTCAGTAAAACAGAAGAATCCCTACGTACAAGATTCTTGGTTTTTTTCTTCTTTTTAGCTT TTGTTGGTGGTTCTGCACGGTCATTTTGTAGCTGACTTTCAAAGTTCCCAACTGATTCAACCTC TGTGCTTTTCTCGATCTGGAATCCTCCATTCAAAGTACTCTGATCATCCTGAAAAGAATTATTA TCTCCACTAGAAGCATCTGTTTTTGTTGGAGCTTGTAAACCCCCAGCAGCAGCTGCACAGCTAA AAAGACTTAAAACCCTCTGCCTGGGACCAGTGCGAACACGTTTCGTTGGAATTGGACCAACATT TAGACCACTTGCAGGCCTTTTACCCATTAAGGTTGATTGTTGAGCACAGTTTCCATAAGGCAAA TCAGAACCCATTTCATATGATCTTGCAGGAGGATATGATTTCATAATTTTCATTGTCCGCTTCT TCTGGTTTAGTTTTGACGATTTGCTACCTTGAAAGGCTCCAGGCAAATAATACATACTTGTTTC TCCTTCATCCTCATCATACACAAAGTTGCCATATGGAAACTCTGAATTTGAAGAAGTTGTAAGG AACATATGACTATTGAATAACAAAGATAATCAAAACAAAAAAGTGTCATGATTACCGGCTCCAG CATCATAAACAGATGTTTCAACCACCTCTTGCACGTTACTCTCAATTTTCTGGGGGGAAAATTA AAAAATAAGCAAGATTTCGGATGAATCATACAAGTCCAGCAATTTTTCTTCAGATTACTGTAAA AATATAGGGGGGACAAAAGAAAAAAGACAATGTATAAACTCATTAAAGAACCTACATTTACCTC AGTCTGTACCAAATAAAATTCAATAGATCTTCGGTAGGTTTCCATAGCACCTGAAGGAACTGCA TAGAAGAGGCTTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.444489766

Conservation Information
Conserved circRNAs	NA
PMCS	0.444489766

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							47108282-47106511(-)
47106547-47107861(-)
						
					

						Potential amino acid sequence
						
							METYRRSIEFYLVQTEKIESNVQEVVETSVYDAGAEFPYGNFVYDEDEGETSMYYLPGAFQGSK
SSKLNQKKRTMKIMKSYPPARSYEMGSDLPYGNCAQQSTLMGKRPASGLNVGPIPTKRVRTGPR
QRVLSLFSCAAAAGGLQAPTKTDASSGDNNSFQDDQSTLNGGFQIEKSTEVESVGNFESQLQND
RAEPPTKAKKKKKTKNLGSAYDEGWQLESTHNELGNYSKKRPESSHFDSNGTSGLFGQHNAKKL
KIMKQQLDNTFDITSNGSIPSPVGSQMSNMSNSSKIIRLMHVSDKSRKAKTPKESLFYAVPSGA
METYRRSIEFYLVQTEKIESNVQEVVETSVYDAGAEFPYGNFVYDEDEGETSMYYLPGAFQGSK
SSKLNQKKRTMKIMKSYPPARSYEMGSDLPYGNCAQQSTLMGKRPASGLNVGPIPTKRVRTGPR
QRVLSLFSCAAAAGGLQAPTKTDASSGDNNSFQDDQSTLNGGFQIEKSTEVESVGNFESQLQND
RAEPPTKAKKKKKTKNLGSAYDEGWQLESTHNELGNYSKKRPESSHFDSNGTSGLFGQHNAKKL
KIMKQQLDNTFDITSNGSIPSPVGSQMSNMSNSSKIIRLMHVSDKSRKAKTPKESLFYAVPSGA
METYRRSIEFYLVQTEKIESNVQEVVETSVYDAGAEFPYGNFVYDEDEGETSMYYLPGAFQGSK
SSKLNQKKRTMKIMKSYPPARSYEMGSDLPYGNCAQQSTLMGKRPASGLNVGPIPTKRVRTGPR
QRVLSLFSCAAAAGGLQAPTKTDASSGDNNSFQDDQSTLNGGFQIEKSTEVESVGNFESQLQND
RAEPPTKAKKKKKTKNLGSAYDEGWQLESTHNELGNYSKKRPESSHFDSNGTSGLFGQHNAKKL
KIMKQQLDNTFDITSNGSIPSPVGSQMSNMSNSSKIIRLMHVSDKSRKAKTPKESLFYAVPSGA
METYRRSIEFYLVQTEKIESNVQEVVETSVYDAGAEFPYGNFVYDEDEGETSMYYLPGAFQGSK
SSKLNQKKRTMKIMKSYPPARSYEMGSDLPYGNCAQQSTLMGKRPASGLNVGPIPTKRVRTGPR
QRVLSLFSCAAAAGGLQAPTKTDASSGDNNSFQDDQSTLNGGFQIEKSTEVESVGNFESQLQND
RAEPPTKAKKKKKTKNLGSAYDEGWQLESTHNELGNYSKKRPESSHFDSNGTSGLFGQHNAKKL
KIMKQQLDNTFDITSNGSIPSPVGSQMSNMSNSSKIIRLMHVSDKSRKAKTPK(-)
MFLTRVEKPKHPRKASSMQFLQVLWKPTEDLLNFIWYRLRKLRVTCKRWLKHLFMMLEPSFHMA
TLCMMRMKEKQVCIICLEPFKVANRQN*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	47108282-47106511(-) 47106547-47107861(-)
Potential amino acid sequence	METYRRSIEFYLVQTEKIESNVQEVVETSVYDAGAEFPYGNFVYDEDEGETSMYYLPGAFQGSK SSKLNQKKRTMKIMKSYPPARSYEMGSDLPYGNCAQQSTLMGKRPASGLNVGPIPTKRVRTGPR QRVLSLFSCAAAAGGLQAPTKTDASSGDNNSFQDDQSTLNGGFQIEKSTEVESVGNFESQLQND RAEPPTKAKKKKKTKNLGSAYDEGWQLESTHNELGNYSKKRPESSHFDSNGTSGLFGQHNAKKL KIMKQQLDNTFDITSNGSIPSPVGSQMSNMSNSSKIIRLMHVSDKSRKAKTPKESLFYAVPSGA METYRRSIEFYLVQTEKIESNVQEVVETSVYDAGAEFPYGNFVYDEDEGETSMYYLPGAFQGSK SSKLNQKKRTMKIMKSYPPARSYEMGSDLPYGNCAQQSTLMGKRPASGLNVGPIPTKRVRTGPR QRVLSLFSCAAAAGGLQAPTKTDASSGDNNSFQDDQSTLNGGFQIEKSTEVESVGNFESQLQND RAEPPTKAKKKKKTKNLGSAYDEGWQLESTHNELGNYSKKRPESSHFDSNGTSGLFGQHNAKKL KIMKQQLDNTFDITSNGSIPSPVGSQMSNMSNSSKIIRLMHVSDKSRKAKTPKESLFYAVPSGA METYRRSIEFYLVQTEKIESNVQEVVETSVYDAGAEFPYGNFVYDEDEGETSMYYLPGAFQGSK SSKLNQKKRTMKIMKSYPPARSYEMGSDLPYGNCAQQSTLMGKRPASGLNVGPIPTKRVRTGPR QRVLSLFSCAAAAGGLQAPTKTDASSGDNNSFQDDQSTLNGGFQIEKSTEVESVGNFESQLQND RAEPPTKAKKKKKTKNLGSAYDEGWQLESTHNELGNYSKKRPESSHFDSNGTSGLFGQHNAKKL KIMKQQLDNTFDITSNGSIPSPVGSQMSNMSNSSKIIRLMHVSDKSRKAKTPKESLFYAVPSGA METYRRSIEFYLVQTEKIESNVQEVVETSVYDAGAEFPYGNFVYDEDEGETSMYYLPGAFQGSK SSKLNQKKRTMKIMKSYPPARSYEMGSDLPYGNCAQQSTLMGKRPASGLNVGPIPTKRVRTGPR QRVLSLFSCAAAAGGLQAPTKTDASSGDNNSFQDDQSTLNGGFQIEKSTEVESVGNFESQLQND RAEPPTKAKKKKKTKNLGSAYDEGWQLESTHNELGNYSKKRPESSHFDSNGTSGLFGQHNAKKL KIMKQQLDNTFDITSNGSIPSPVGSQMSNMSNSSKIIRLMHVSDKSRKAKTPK(-) MFLTRVEKPKHPRKASSMQFLQVLWKPTEDLLNFIWYRLRKLRVTCKRWLKHLFMMLEPSFHMA TLCMMRMKEKQVCIICLEPFKVANRQN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.001G233800_circ_g.1

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