Plant Circular RNA Database

Detail information of orai.009G288500_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G288500_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000989
					
						Alias
						Chr09:24726115|24728717
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 24726115-24728717  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G288500						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						3/17
					
						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.009G288500.2:2
Gorai.009G288500.1:3
Gorai.009G288500.3:3

General Information
CircRNA Name	orai.009G288500_circ_g.1
ID in PlantcircBase	gra_circ_000989
Alias	Chr09:24726115\|24728717
Organism	Gossypium raimondii
Position	chrChr09: 24726115-24728717 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.009G288500
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	3/17
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.009G288500.2:2 Gorai.009G288500.1:3 Gorai.009G288500.3:3

			
						 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  
						
							GGATTGGTCATCCCAATTCGTAGCATTGTGCTTCCATCAGGAGGAAGTTCCGCAACAATGGCAT
TCAACAAAACTGGTAGGTTAACCCCAATGTCACGACcaggtctaggatagaactgtgatatatg
aacttgagagaacttgtattctttaataaggtttactgtttgagaaaaatcttcatcagtttca
cctgaaat

									
								

					

						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: 411
Transcript exons: 24726115-24726207,24728234-24728342,24728509-24728717
CAGGTCTAGGATAGAACTGTGATATATGAACTTGAGAGAACTTGTATTCTTTAATAAGGTTTAC
TGTTTGAGAAAAATCTTCATCAGTTTCACCAGGAAATCCACATATTATATCAGTTGCAATCTGC
ATCCCCGGCACAAGTTCAGTCAAGGTATCTACCACAGTCCTAAACTCGCTCACAGTATATTCCC
GATTCATAGCAGTCAAGACAGCATCACTCCCAGATTGAACCGGAACGTGAAGGAAGGAATATAC
ACAAGGATGACATAAAACTGCTGCTATCTCTTTCAGATGCTCCAAGATAAAAGGAGGATTGGTC
ATCCCAATTCGTAGCATTGTGCTTCCATCAGGAGGAAGTTCCGCAACAATGGCATTCAACAAAA
CTGGTAGGTTAACCCCAATGTCACGAC
						
					

						Genomic sequence
						
							CAGGTCTAGGATAGAACTGTGATATATGAACTTGAGAGAACTTGTATTCTTTAATAAGGTTTAC
TGTTTGAGAAAAATCTTCATCAGTTTCACCTGAAATGACCCAAAAATTATTATAATTAAATAAA
AAACCATTGAACTAAGTCCTTAAGCAGCTTATTTAAGAGTAAATGTTCTGATAAGATACTCAAA
ATATTTGTGATGGGATAGAAGTTTTTCCATAGGCCCGGTTCGAGAGGCTTTGTAGCCAATTTGG
GCTTGGGTGTTGAAAAGCTTCCCTAAGCCCATAGGAATGGAGTGGATCAGTTCTTGGGCTACCA
GGTCTAAGATGTTAAAGCGCAAGCCAGAGCTCAAGCGACTATTTTATTAAATACATAATTTAAT
TTAACCTTAGTTTAAATATATATTTAAAATTAACTATTAATATAATATGATTTTGTACTATTTT
AACAATAAAACTTCAGGTACATGTGTTGGCCAAGAATAGCTCTACAAGGTTTGTGCCACATTGA
AGTCTAGGCCATGGGCACCACTAGCTTGGAGTTCTCATAAAATAAATTATTTTATATTAACATA
AAATCATTTTGATTTTTGAAAATTGAAACCAATCAAATAGCATTTGTTGTCCAATAAACTAATA
GCTTATGTTCGCCTGGTTCTGAGCTTGTGCTAAAATCCTGGCTCAGCCGAACCCAAAGCAGGCC
AGGGTATGTGAGCAGTCATACAACCCCATGGACAAGAGTGTAACCAGAAGAATTCCCATCAGTA
GAAAACTGTAATTCTTTCCGAACTGAAGAGAGATGTTTTGAGCCGGCTTATGTTCAAAAACAAT
TATATATTTACCTTCCACCTTTATTCTAGGTATGGGCATATCAATAGTTGCAAAACTTTTTTCC
TAATTTTCTAGAAAAACAGGGATACCTAATTTTAATTTATTTAGGCTTGGTTTTTCATTGCTTT
TCAAAGTGCTTTTAGGGTGGAGCTATAAGCAATGCTAAATAGATAGCTTTTGAAAAGTACTATT
GAATCTAAACGCAAAAGCTGTAATTTCTAGCTTTTGCATTTGGAAAAAGCACTTTTGGAGTCAA
ATGACTATTTTAACCCTTATTTATAATCCAATAAATTTTATGTAATATTTATATTGGGTATAAA
GTTATTTCCTTATTGAAATTTATTTCAAATATATAATTCTATATTTGAATTGAATTTGAAATGA
TTATATTTTAATATTTAAAAATAATTTATATATTCAAATTAAATTTTACAAATAATTAAATGTT
AATTGCTTAAAAATATTTAAAATTTATATTCATATATTAAAATATTAATAATGAGTTTTAATAA
ATTATTTTTTATATTTTTTACTGAGATATAATAACATTAATGAATTTAAACATCTTTTAAATGC
ATACTCTTTTACTTTATAACATTAGGTCTAAAATTGAGATTTTCTTTCTCAAAAGCACTTTTTG
ACAGCAACATCAACATTTAAATCTTAAATCAAAATTTTGAAAAGCACTTTCTAAAAGCAATACT
AAACTAGCCCTCAACGTTCCATAAAACTAGAAAATGTTTTCACTCATTGGTTAAAAAATCAGAT
CTAGCTGACCGGTTGAACCAGAAACCAGTAGACTATCCCAGTCAATATAATATATAGATCAATG
AACCGGTTTAGTATATATTTTTTGTTCTTTTTTTTTTCTCAGTAATTAATTAGATTTAAACCTA
TAACCTCCCAAATAGTATATTCAAGATCATATCATTAAGCCAAATACATAATTTTATTAATATT
TACTGCATCTAATATTTATTTAGCATTAAAATAATTTTTAAATATTTAACATTTTAAAAGTGAA
CAAAGTCCAACCAGTTGACTGAGGTAATAAACATATGATCTCCAATCCTAATTTTTTAACCTTG
GTTTCCATAATCAGTTCTTTACCTTATTTGATCGAGATCATATTTAGAATTAAGCTACATATAT
AAAATGGAAAATATTTTCCAAAAATAGAAGTGCCCTATGGTTCAAACTAAGAGAATTAAGCACC
ACAAAGGCCCCTACATATGCTTTTCAATATATATAAATCAATGATGGCAGAGAAAAGAGACAAC
TACTAACCAGGAAATCCACATATTATATCAGTTGCAATCTGCATCCCCGGCACAAGTTCAGTCA
AGGTATCTACCACAGTCCTAAACTCGCTCACAGTATATTCCCGATTCATAGCCTAAAACAATAA
AAATTACTTAGTAAGACAATTATCATTTAGCATAAAGTTAAGGACACTTATCTGCATTAATTAC
AATTTTTTATTTTTTTTGTTTTAGTTACTAAATAACTTGAAGCCATTAGCCAAGATAAAGAGAC
ATTATATGACCAAATTTTGGACTTACAGTCAAGACAGCATCACTCCCAGATTGAACCGGAACGT
GAAGGAAGGAATATACACAAGGATGACATAAAACTGCTGCTATCTCTTTCAGATGCTCCAAGAT
AAAAGGAGGATTGGTCATCCCAATTCGTAGCATTGTGCTTCCATCAGGAGGAAGTTCCGCAACA
ATGGCATTCAACAAAACTGGTAGGTTAACCCCAATGTCACGAC
						
					

			
		

Sequences
Splice junction sequence	GGATTGGTCATCCCAATTCGTAGCATTGTGCTTCCATCAGGAGGAAGTTCCGCAACAATGGCAT TCAACAAAACTGGTAGGTTAACCCCAATGTCACGACcaggtctaggatagaactgtgatatatg aacttgagagaacttgtattctttaataaggtttactgtttgagaaaaatcttcatcagtttca cctgaaat
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: 411 Transcript exons: 24726115-24726207,24728234-24728342,24728509-24728717 CAGGTCTAGGATAGAACTGTGATATATGAACTTGAGAGAACTTGTATTCTTTAATAAGGTTTAC TGTTTGAGAAAAATCTTCATCAGTTTCACCAGGAAATCCACATATTATATCAGTTGCAATCTGC ATCCCCGGCACAAGTTCAGTCAAGGTATCTACCACAGTCCTAAACTCGCTCACAGTATATTCCC GATTCATAGCAGTCAAGACAGCATCACTCCCAGATTGAACCGGAACGTGAAGGAAGGAATATAC ACAAGGATGACATAAAACTGCTGCTATCTCTTTCAGATGCTCCAAGATAAAAGGAGGATTGGTC ATCCCAATTCGTAGCATTGTGCTTCCATCAGGAGGAAGTTCCGCAACAATGGCATTCAACAAAA CTGGTAGGTTAACCCCAATGTCACGAC
Genomic sequence	CAGGTCTAGGATAGAACTGTGATATATGAACTTGAGAGAACTTGTATTCTTTAATAAGGTTTAC TGTTTGAGAAAAATCTTCATCAGTTTCACCTGAAATGACCCAAAAATTATTATAATTAAATAAA AAACCATTGAACTAAGTCCTTAAGCAGCTTATTTAAGAGTAAATGTTCTGATAAGATACTCAAA ATATTTGTGATGGGATAGAAGTTTTTCCATAGGCCCGGTTCGAGAGGCTTTGTAGCCAATTTGG GCTTGGGTGTTGAAAAGCTTCCCTAAGCCCATAGGAATGGAGTGGATCAGTTCTTGGGCTACCA GGTCTAAGATGTTAAAGCGCAAGCCAGAGCTCAAGCGACTATTTTATTAAATACATAATTTAAT TTAACCTTAGTTTAAATATATATTTAAAATTAACTATTAATATAATATGATTTTGTACTATTTT AACAATAAAACTTCAGGTACATGTGTTGGCCAAGAATAGCTCTACAAGGTTTGTGCCACATTGA AGTCTAGGCCATGGGCACCACTAGCTTGGAGTTCTCATAAAATAAATTATTTTATATTAACATA AAATCATTTTGATTTTTGAAAATTGAAACCAATCAAATAGCATTTGTTGTCCAATAAACTAATA GCTTATGTTCGCCTGGTTCTGAGCTTGTGCTAAAATCCTGGCTCAGCCGAACCCAAAGCAGGCC AGGGTATGTGAGCAGTCATACAACCCCATGGACAAGAGTGTAACCAGAAGAATTCCCATCAGTA GAAAACTGTAATTCTTTCCGAACTGAAGAGAGATGTTTTGAGCCGGCTTATGTTCAAAAACAAT TATATATTTACCTTCCACCTTTATTCTAGGTATGGGCATATCAATAGTTGCAAAACTTTTTTCC TAATTTTCTAGAAAAACAGGGATACCTAATTTTAATTTATTTAGGCTTGGTTTTTCATTGCTTT TCAAAGTGCTTTTAGGGTGGAGCTATAAGCAATGCTAAATAGATAGCTTTTGAAAAGTACTATT GAATCTAAACGCAAAAGCTGTAATTTCTAGCTTTTGCATTTGGAAAAAGCACTTTTGGAGTCAA ATGACTATTTTAACCCTTATTTATAATCCAATAAATTTTATGTAATATTTATATTGGGTATAAA GTTATTTCCTTATTGAAATTTATTTCAAATATATAATTCTATATTTGAATTGAATTTGAAATGA TTATATTTTAATATTTAAAAATAATTTATATATTCAAATTAAATTTTACAAATAATTAAATGTT AATTGCTTAAAAATATTTAAAATTTATATTCATATATTAAAATATTAATAATGAGTTTTAATAA ATTATTTTTTATATTTTTTACTGAGATATAATAACATTAATGAATTTAAACATCTTTTAAATGC ATACTCTTTTACTTTATAACATTAGGTCTAAAATTGAGATTTTCTTTCTCAAAAGCACTTTTTG ACAGCAACATCAACATTTAAATCTTAAATCAAAATTTTGAAAAGCACTTTCTAAAAGCAATACT AAACTAGCCCTCAACGTTCCATAAAACTAGAAAATGTTTTCACTCATTGGTTAAAAAATCAGAT CTAGCTGACCGGTTGAACCAGAAACCAGTAGACTATCCCAGTCAATATAATATATAGATCAATG AACCGGTTTAGTATATATTTTTTGTTCTTTTTTTTTTCTCAGTAATTAATTAGATTTAAACCTA TAACCTCCCAAATAGTATATTCAAGATCATATCATTAAGCCAAATACATAATTTTATTAATATT TACTGCATCTAATATTTATTTAGCATTAAAATAATTTTTAAATATTTAACATTTTAAAAGTGAA CAAAGTCCAACCAGTTGACTGAGGTAATAAACATATGATCTCCAATCCTAATTTTTTAACCTTG GTTTCCATAATCAGTTCTTTACCTTATTTGATCGAGATCATATTTAGAATTAAGCTACATATAT AAAATGGAAAATATTTTCCAAAAATAGAAGTGCCCTATGGTTCAAACTAAGAGAATTAAGCACC ACAAAGGCCCCTACATATGCTTTTCAATATATATAAATCAATGATGGCAGAGAAAAGAGACAAC TACTAACCAGGAAATCCACATATTATATCAGTTGCAATCTGCATCCCCGGCACAAGTTCAGTCA AGGTATCTACCACAGTCCTAAACTCGCTCACAGTATATTCCCGATTCATAGCCTAAAACAATAA AAATTACTTAGTAAGACAATTATCATTTAGCATAAAGTTAAGGACACTTATCTGCATTAATTAC AATTTTTTATTTTTTTTGTTTTAGTTACTAAATAACTTGAAGCCATTAGCCAAGATAAAGAGAC ATTATATGACCAAATTTTGGACTTACAGTCAAGACAGCATCACTCCCAGATTGAACCGGAACGT GAAGGAAGGAATATACACAAGGATGACATAAAACTGCTGCTATCTCTTTCAGATGCTCCAAGAT AAAAGGAGGATTGGTCATCCCAATTCGTAGCATTGTGCTTCCATCAGGAGGAAGTTCCGCAACA ATGGCATTCAACAAAACTGGTAGGTTAACCCCAATGTCACGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000154* 						
					
						PMCS
						0.858572897

Conservation Information
Conserved circRNAs	gar_circ_000154*
PMCS	0.858572897

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24728644-24726117(-)
						
						Potential amino acid sequence
						
							MLRIGMTNPPFILEHLKEIAAVLCHPCVYSFLHVPVQSGSDAVLTAMNREYTVSEFRTVVDTLT
ELVPGMQIATDIICGFPGETDEDFSQTVNLIKEYKFSQVHISQFYPRPGRDIGVNLPVLLNAIV
AELPPDGSTMLRIGMTNPPFILEHLKEIAAVLCHPCVYSFLHVPVQSGSDAVLTAMNREYTVSE
FRTVVDTLTELVPGMQIATDIICGFPGETDEDFSQTVNLIKEYKFSQVHISQFYPRPGRDIGVN
LPVLLNAIVAELPPDGSTMLRIGMTNPPFILEHLKEIAAVLCHPCVYSFLHVPVQSGSDAVLTA
MNREYTVSEFRTVVDTLTELVPGMQIATDIICGFPGETDEDFSQTVNLIKEYKFSQVHISQFYP
RPGRDIGVNLPVLLNAIVAELPPDGSTMLRIGMTNPPFILEHLKEIAAVLCHPCVYSFLHVPVQ
SGSDAVLTAMNREYTVSEFRTVVDTLTELVPGMQIATDIICGFPGETDEDFSQTVNLIKEYKFS
QVHISQFYPRP(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24728644-24726117(-)
Potential amino acid sequence	MLRIGMTNPPFILEHLKEIAAVLCHPCVYSFLHVPVQSGSDAVLTAMNREYTVSEFRTVVDTLT ELVPGMQIATDIICGFPGETDEDFSQTVNLIKEYKFSQVHISQFYPRPGRDIGVNLPVLLNAIV AELPPDGSTMLRIGMTNPPFILEHLKEIAAVLCHPCVYSFLHVPVQSGSDAVLTAMNREYTVSE FRTVVDTLTELVPGMQIATDIICGFPGETDEDFSQTVNLIKEYKFSQVHISQFYPRPGRDIGVN LPVLLNAIVAELPPDGSTMLRIGMTNPPFILEHLKEIAAVLCHPCVYSFLHVPVQSGSDAVLTA MNREYTVSEFRTVVDTLTELVPGMQIATDIICGFPGETDEDFSQTVNLIKEYKFSQVHISQFYP RPGRDIGVNLPVLLNAIVAELPPDGSTMLRIGMTNPPFILEHLKEIAAVLCHPCVYSFLHVPVQ SGSDAVLTAMNREYTVSEFRTVVDTLTELVPGMQIATDIICGFPGETDEDFSQTVNLIKEYKFS QVHISQFYPRP(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G288500_circ_g.1

Address

Any questions?

Supported by