Plant Circular RNA Database

Detail information of orai.011G118200_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.011G118200_circ_g.1
					
						ID in PlantcircBase
						gra_circ_001214
					
						Alias
						Chr11:15895844|15897826
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr11: 15895844-15897826  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.011G118200						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						19/59
					
						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  
						
							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.011G118200.4:3
Gorai.011G118200.5:3
Gorai.011G118200.3:3
Gorai.011G118200.9:1
Gorai.011G118200.8:3
Gorai.011G118200.6:3
Gorai.011G118200.1:3
Gorai.011G118200.2:3
Gorai.011G118200.7:3

General Information
CircRNA Name	orai.011G118200_circ_g.1
ID in PlantcircBase	gra_circ_001214
Alias	Chr11:15895844\|15897826
Organism	Gossypium raimondii
Position	chrChr11: 15895844-15897826 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.011G118200
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	19/59
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	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.011G118200.4:3 Gorai.011G118200.5:3 Gorai.011G118200.3:3 Gorai.011G118200.9:1 Gorai.011G118200.8:3 Gorai.011G118200.6:3 Gorai.011G118200.1:3 Gorai.011G118200.2:3 Gorai.011G118200.7:3

			
						 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  
						
							ACAAGCAATTTGTTTAATCCTCAGACCATGTAATGCTTTTATGGGCTGAGGAGTGAATAAGTCA
CTAAAATTTCCATGACCAAGTCTTCCAAAGTCACCCattgagagtagaaaccttctcaggaact
aagcgatcatttctgtcacctaagcccaagttcccgtatcgtccccatccccaaccatagagtg
caccctct

									
								

					

						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: 385
Transcript exons: 15895844-15895999,15896554-15896635,15897680-15897826
ATTGAGAGTAGAAACCTTCTCAGGAACTAAGCGATCATTTCTGTCACCTAAGCCCAAGTTCCCG
TATCGTCCCCATCCCCAACCATAGAGTGCACCCTCTTCTGAAACAGCTGCGGTATGCTCAGCAC
CAGCAGCAACCATTTTGATAGAAATACCCTGAAAGGCTTGAATCTTTTGAGGCACAAGAGAGTC
TTCAGTGCTTCCAAGACCAAGTTGACCATTTTGATTTCTTCCCCAACTCTGGACCTCGCCTTCC
ATTGTCACAGCTAAACAATGGCTGTCTCCACAAGCAATTTGTTTAATCCTCAGACCATGTAATG
CTTTTATGGGCTGAGGAGTGAATAAGTCACTAAAATTTCCATGACCAAGTCTTCCAAAGTCACC
C
						
					

						Genomic sequence
						
							ATTGAGAGTAGAAACCTTCTCAGGAACTAAGCGATCATTTCTGTCACCTAAGCCCAAGTTCCCG
TATCGTCCCCATCCCCAACCATAGAGTGCACCCTCTTCTGAAACAGCTGCGGTATGCTCAGCAC
CAGCAGCAACCATTTTGATAGAAATACCCTTCAACAGACATGGAAATGCAAGGTGATAATCACT
TCAACAAAGTGCATATGCAACTTTTAGCTTGATTGAAGTATCAAGACAGAATTAAAAAGTTGAA
GAAAAGCAAGAAATTAGATGGAGATTTCAAAGATTTTAAACAAACTGTCAACAAACATACAACT
GCATTTAAAAATCTTAGACTGTTGAATTTGAATAGTCCTGATAACATGTTTCCTTCAAATAATT
GTATATTTTTCATCATAAACTCAAAAGTAATTTACAAATCTCTTTCTTCTCTGGCTAGTATTAC
ATGCTAAATGCAACTTCCAATTTGTTCCAATAAGAAATCCCAGATTGTTGACATTGATTAACTT
AAAATCTTGTAGAATATAGCTTTTGAGTGTGAAACAATTCATTATACGCTTATAAATACACATA
TTGTGAAGGTCAACAAAACAAGGAACCTGGATGCACAGGCAGAGGCTTGTTTATTTTAATGCTG
AAGTACAAACAATGAAGAATGGAGCATCAGATGACTATAAGATATAGGACAACCTGGAAACACG
TAATACCTGAAAGGCTTGAATCTTTTGAGGCACAAGAGAGTCTTCAGTGCTTCCAAGACCAAGT
TGACCATTTTGATTTCTTCCCCAACTTCAATTAAATTCCAAAACAAAACGTTACAGAAAAGGTC
AAAAAAAAAAAATCAGTAATAAGAGCAATCACAAACATAAATTGAAAGAAGCAACTGCAAAAGT
TGGAACAAACTATTTCAAAAGGCAATAAAACTTCTTCATAAATGGATACTAACTTAAAAAATAT
TTTAGGTTTCCGGGTACATGTTGCTCAACCAAAACATAACAATTCTGAAATTTAATCATATGAA
TCATAGTTCTACAAGAAATTGTGATCACCATCAGACAGACAGACTCATCCAAAAGGAGAAGGTA
AAGATGAAACTACCAAAAAGAAGATATGTTTTTTTTTTCTGATCTAATGATAAGGTCATAGTGT
AGCCATGGCGCATACCGATGCAGCAACAAAAGCCTTAGGTTCATCATTGTTTACATCATTGTAT
ATATGGAACAAATGTCAGTTTTCTCATTAATTTAAAAGTTTCATAAGCAAATGGGAAGACATAC
ATATAACTGAATCAAGTAAAATGTATATTGAACCCTACATTTCAAGTGTTTTCACACTAAAGCA
TTCTTGTAGAATGTCTCCTGCATGGAAATGAATGCTTTCTAAAATGAAAGAATTTTACATTTAA
TTTCATGCATTCCAGCCCTCTTATGGATCTTCCCTAATTGCATTCAGAGGTCAAATTTGCTGTG
ATTTCTTAATTACTACAAGATGACCTCTTGAACTATCTTTGCTTACATGACAGCCTACTTCAAT
GAGGACCGCTATAACTAATATTTACCAATCTTTTTGTTCACCATAATAGGTGCATTATAAACTT
GATACCCAAGCTTGGCCACTTCAAGTTCAAACTACTATTTGTAGCATCTCCATGCAATTACAAA
ACTTAAAACTCTAGGCACTAATCAACATAGTTAACCATTTTTAACTATTAAAAAAAATCATTTT
TAACCCTAAAAGAAATTGAAACAAAACATCAAACATATATATATAATCATATAGTAAAAAAAAA
ATCAAATAAAAGGAAGAGAAGGAATATCTAAAAACCAAACATACCTCTGGACCTCGCCTTCCAT
TGTCACAGCTAAACAATGGCTGTCTCCACAAGCAATTTGTTTAATCCTCAGACCATGTAATGCT
TTTATGGGCTGAGGAGTGAATAAGTCACTAAAATTTCCATGACCAAGTCTTCCAAAGTCACCC
						
					

			
		

Sequences
Splice junction sequence	ACAAGCAATTTGTTTAATCCTCAGACCATGTAATGCTTTTATGGGCTGAGGAGTGAATAAGTCA CTAAAATTTCCATGACCAAGTCTTCCAAAGTCACCCattgagagtagaaaccttctcaggaact aagcgatcatttctgtcacctaagcccaagttcccgtatcgtccccatccccaaccatagagtg caccctct
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: 385 Transcript exons: 15895844-15895999,15896554-15896635,15897680-15897826 ATTGAGAGTAGAAACCTTCTCAGGAACTAAGCGATCATTTCTGTCACCTAAGCCCAAGTTCCCG TATCGTCCCCATCCCCAACCATAGAGTGCACCCTCTTCTGAAACAGCTGCGGTATGCTCAGCAC CAGCAGCAACCATTTTGATAGAAATACCCTGAAAGGCTTGAATCTTTTGAGGCACAAGAGAGTC TTCAGTGCTTCCAAGACCAAGTTGACCATTTTGATTTCTTCCCCAACTCTGGACCTCGCCTTCC ATTGTCACAGCTAAACAATGGCTGTCTCCACAAGCAATTTGTTTAATCCTCAGACCATGTAATG CTTTTATGGGCTGAGGAGTGAATAAGTCACTAAAATTTCCATGACCAAGTCTTCCAAAGTCACC C
Genomic sequence	ATTGAGAGTAGAAACCTTCTCAGGAACTAAGCGATCATTTCTGTCACCTAAGCCCAAGTTCCCG TATCGTCCCCATCCCCAACCATAGAGTGCACCCTCTTCTGAAACAGCTGCGGTATGCTCAGCAC CAGCAGCAACCATTTTGATAGAAATACCCTTCAACAGACATGGAAATGCAAGGTGATAATCACT TCAACAAAGTGCATATGCAACTTTTAGCTTGATTGAAGTATCAAGACAGAATTAAAAAGTTGAA GAAAAGCAAGAAATTAGATGGAGATTTCAAAGATTTTAAACAAACTGTCAACAAACATACAACT GCATTTAAAAATCTTAGACTGTTGAATTTGAATAGTCCTGATAACATGTTTCCTTCAAATAATT GTATATTTTTCATCATAAACTCAAAAGTAATTTACAAATCTCTTTCTTCTCTGGCTAGTATTAC ATGCTAAATGCAACTTCCAATTTGTTCCAATAAGAAATCCCAGATTGTTGACATTGATTAACTT AAAATCTTGTAGAATATAGCTTTTGAGTGTGAAACAATTCATTATACGCTTATAAATACACATA TTGTGAAGGTCAACAAAACAAGGAACCTGGATGCACAGGCAGAGGCTTGTTTATTTTAATGCTG AAGTACAAACAATGAAGAATGGAGCATCAGATGACTATAAGATATAGGACAACCTGGAAACACG TAATACCTGAAAGGCTTGAATCTTTTGAGGCACAAGAGAGTCTTCAGTGCTTCCAAGACCAAGT TGACCATTTTGATTTCTTCCCCAACTTCAATTAAATTCCAAAACAAAACGTTACAGAAAAGGTC AAAAAAAAAAAATCAGTAATAAGAGCAATCACAAACATAAATTGAAAGAAGCAACTGCAAAAGT TGGAACAAACTATTTCAAAAGGCAATAAAACTTCTTCATAAATGGATACTAACTTAAAAAATAT TTTAGGTTTCCGGGTACATGTTGCTCAACCAAAACATAACAATTCTGAAATTTAATCATATGAA TCATAGTTCTACAAGAAATTGTGATCACCATCAGACAGACAGACTCATCCAAAAGGAGAAGGTA AAGATGAAACTACCAAAAAGAAGATATGTTTTTTTTTTCTGATCTAATGATAAGGTCATAGTGT AGCCATGGCGCATACCGATGCAGCAACAAAAGCCTTAGGTTCATCATTGTTTACATCATTGTAT ATATGGAACAAATGTCAGTTTTCTCATTAATTTAAAAGTTTCATAAGCAAATGGGAAGACATAC ATATAACTGAATCAAGTAAAATGTATATTGAACCCTACATTTCAAGTGTTTTCACACTAAAGCA TTCTTGTAGAATGTCTCCTGCATGGAAATGAATGCTTTCTAAAATGAAAGAATTTTACATTTAA TTTCATGCATTCCAGCCCTCTTATGGATCTTCCCTAATTGCATTCAGAGGTCAAATTTGCTGTG ATTTCTTAATTACTACAAGATGACCTCTTGAACTATCTTTGCTTACATGACAGCCTACTTCAAT GAGGACCGCTATAACTAATATTTACCAATCTTTTTGTTCACCATAATAGGTGCATTATAAACTT GATACCCAAGCTTGGCCACTTCAAGTTCAAACTACTATTTGTAGCATCTCCATGCAATTACAAA ACTTAAAACTCTAGGCACTAATCAACATAGTTAACCATTTTTAACTATTAAAAAAAATCATTTT TAACCCTAAAAGAAATTGAAACAAAACATCAAACATATATATATAATCATATAGTAAAAAAAAA ATCAAATAAAAGGAAGAGAAGGAATATCTAAAAACCAAACATACCTCTGGACCTCGCCTTCCAT TGTCACAGCTAAACAATGGCTGTCTCCACAAGCAATTTGTTTAATCCTCAGACCATGTAATGCT TTTATGGGCTGAGGAGTGAATAAGTCACTAAAATTTCCATGACCAAGTCTTCCAAAGTCACCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							ghi_circ_000367* gar_circ_000970 ghi_circ_000150* 						
					
						PMCS
						1.029396915

Conservation Information
Conserved circRNAs	ghi_circ_000367* gar_circ_000970 ghi_circ_000150*
PMCS	1.029396915

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15897700-15897823(-)
15895846-15897823(-)
						
						Potential amino acid sequence
						
							MEGEVQSWGRNQNGQLGLGSTEDSLVPQKIQAFQGISIKMVAAGAEHTAAVSEEGALYGWGWGR
YGNLGLGDRNDRLVPEKVSTLNG*(-)
MGDFGRLGHGNFSDLFTPQPIKALHGLRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGST
EDSLVPQKIQAFQGISIKMVAAGAEHTAAVSEEGALYGWGWGRYGNLGLGDRNDRLVPEKVSTL
NG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15897700-15897823(-) 15895846-15897823(-)
Potential amino acid sequence	MEGEVQSWGRNQNGQLGLGSTEDSLVPQKIQAFQGISIKMVAAGAEHTAAVSEEGALYGWGWGR YGNLGLGDRNDRLVPEKVSTLNG(-) MGDFGRLGHGNFSDLFTPQPIKALHGLRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGST EDSLVPQKIQAFQGISIKMVAAGAEHTAAVSEEGALYGWGWGRYGNLGLGDRNDRLVPEKVSTL NG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.011G118200_circ_g.1

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