Plant Circular RNA Database

Detail information of A02_circ_ag.4

			
						 General Information
					
						CircRNA Name
						A02_circ_ag.4
					
						ID in PlantcircBase
						ghi_circ_000220
					
						Alias
						ghi_circ_000040_byXiang
					
						Organism
						
							Gossypium hirsutum						
					
						Position
						
							chrA02: 73379742-73383510  JBrowse»						
					
						Reference genome
						
							v1.1						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							A02_circ_ag.3 A02_circ_ag.5 A02_circ_ag.6 						
					
						Support reads
						11/12
					
						Tissues
						root/stem
					
						Exon boundary  
						
							NA-NA							"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
						NA

General Information
CircRNA Name	A02_circ_ag.4
ID in PlantcircBase	ghi_circ_000220
Alias	ghi_circ_000040_byXiang
Organism	Gossypium hirsutum
Position	chrA02: 73379742-73383510 JBrowse»
Reference genome	v1.1
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	A02_circ_ag.3 A02_circ_ag.5 A02_circ_ag.6
Support reads	11/12
Tissues	root/stem
Exon boundary	NA-NA "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	NA

			
						 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  
						
							GGATCGCACACAGGTTGGTGTCTTCAAAGAGACCCACAAGGTATGCTTCTGCAGCTTCCTGAAG
AGCAAGAACGGCATGGCTCTGGAAACGCAAATCAGTcttgaagtcctgggcaatttcacgaaca
agcctctggaaaggcaatttcctgataagaagctcagtactcttttggtactttcgaatttcac
tgtaaaaa

									
								

					

						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
						
							CTTGAAGTCCTGGGCAATTTCACGAACAAGCCTCTGGAAAGGCAATTTCCTGATAAGAAGCTCA
GTACTCTTTTGGTACTTTCGAATTTCACTGTAAAAATGAATTACAATATGTTAAAAAACCCATA
AAAAGAAACACCCACACTCATAAGAACAAGAACAATGTTTAGAAAATATGAAAGAATACCGAAG
AGCAACAGTTCCAGGACGGTAGCGATGAGGCTTCTTCACACCACCGGTGGTTGGGGCAGATTTA
CGGGCAGCCTGTTATACAACAGAGATATATCAGAAGTTAATTACAGAACAAGAAAGCTCAAATT
TGGTAAACCGTATAATGTTTTGAATGCAATAAAATGAATCACCTTGGTAGCAAGTTGCTTCCTT
GGAGCCTTCCCACCAGTCGACTTACGGGCTGTCTGCTTGGTACGGGCCATCTCTGCAAAGATAT
GAATAATTTCAGAAGACAATTAAAAAATATAAAACTAGTTACATTTTCTCATTAACTACCAAAC
ATAACACGGAAAAGCCAGATCTTAGATAATTACTGTATAATTCCCAAAAGCCCTAATCTTCAAA
CTAGAAAACTTCTAAGCCAAAAAAGAAAATCAGAATAGGATTTAAAACAGAAGTCGAAGGTCCT
AAATGAACTCAGAACAGAATCAGAGTGCCCTAATTATAAATAAATTCAACCTTACCTCCCCTAT
TTCCCTAATTCAACTTAAACTACATGAAATACAAAAACAAATTAAAAGAATCAGAATTTACAAA
CCCTAATTTACTATAAAAATAAACAAATAAATAAGAGCCAAGAGAGCGAGGGAAGGTTACTAAC
TCAAAAATCTGAGACAAACGCTTATTTATCTTCTGGTTCAAATGTTCGAAAAGGATAGCAATTA
AGAGGTATTTATAGAAGGTTGGGGGGTTTGTTAATGAAGTTGATCCGACGGTTCGGATATACTA
TCCGTGTGTTTCTTTTGTACGAGATCTGACGGTAAAAACTGTCACAAGTTGTGTTTTCTGAGAG
GAAAAGGACGGTTGGGATTAGATTATAGAGGGAAGACACGGATCGTGATGGTTTGATTGCTTGA
TTCTTATTGGTCGACTAAAATTGCTTTTTAGCACAAATGTTTTTAAGGTTGGATTTACCACAGA
AACTTGGATTAATTTAATGTTCAATATAGAAGAATTTGAGTTCAAGTATCCTGAAGTGTATTAT
CTTTATATTTATGGGATGGGAGGGGTTTTAGATAGTTTTAAATATTGTGTAAAAAAAACAGATA
TGATCATAATTTATAATGAGATTATTAAAAAATATACATAGCAAGTTTGATTTGGATTAACATT
TACTTATAAATAGGTGAATGCATGGGTTAAATTATGAAAGTTGTTGTAATTTGGTATTAGTCCT
TAATAGATTTAAGAAAGAATTTTGAGTAGTTTGAACTTAGATTTTATTATAATTTTGATAGTAA
AATTATAAGATTATTTAAATTTATAAAAATCATAATTTTTTTTGGCAAAAGGGATTAAAAAACT
CTTAATGAAAATTAATAAATCAATTTACATCTTAAAAAAAATATATGCACAGAATTGAAGTCCC
AAAAGCAAAATTAAAAAAAATAAAAAATAAAACTCTTTCATTACCAATAATTTTTGTTTAAAAG
AGGGGAGAAATAGACATCAAAGCTCCTTTTGATGTAACATATAAATTTGTTTCGCTTCATTCCA
AACACAATTCAAATATATATTAACAAAAATGGTAAAAAATTATAATAATTAATAGTAAAAATAA
AATTTAAAAATTATTTTTAAAAAAGAGTAAGAAGTGTTTTGAAGAAAATTTTTATTTGTCCTTA
ATAACATGTGATATTTTGGCTTATAATTGACTATTTTGACAAATCTTTTCATAGTTAACAATAT
TTATGATCTTTAATCATTTTTAACATTCTTTATAATTTTATACAAGATTTTAAATATATTACAA
TATTTTCAATTAGGTCAAATAAATATAAACAGATAAATAATCAACTTGAGCCTTGATTTTTGGG
CAAATTTTTTTTCTTAAGATATTAACTAATTAATTATATAGAAATACTCGGAAAAGAAAAACAT
CCTCTATCTTGTCTAATTTTAGAAAGGTTAGAAACGACATAGGAAGGGTATCAAAAATCTACAA
ATCCTTTTTCTAATTAAAATTAGTTTGACTAAATAGTCTGTAGCTTGATTTACTCTCTAGGAAT
ATAAAGCAAGAACCACCGTTTTTCTTGTGCCAAAATATTTTGTATATATCTAATCAAAGTTGAA
TTTGACGTGCTAGACTATAGGAACGCTTCCTTAATTAGTTTTAACAACCTCCAAACTATAAGAT
TTGATTATTCCATTATCAAAGGCCTTTACATTAGGTTAGCTTGAGACTATCCAAAATATCCTAA
AGTTCGGCATCAATGACTGAACACTTTTCTAAATAACAGTTATAGCCAAGACACCCATTCCCAT
TCTCATCACAAATTACTCCCCCGAAAACTACATTACCTAATTAATTTCCTTCCAAGGCTCATTG
GGCCAAATTTGTTTTTAGAAATAATGACCTATTCACGTTACAATTTAATAAAAAAATTTTAATT
AACCATTTAATTACTCGTTTCTTTAATTTTAGAAGTTAAGTTTTTTTATCAAAACATCTTAAAA
TGACTGAAATTTTTAACACTCTGAATCTCAACATTTGAAATTAATTAATTTTTAATATTTTTAA
TATTGTTTATTTTACAATTTTTTAAATAATTCTAAGAATTTTCAATATTTTAAAAAATAACTAA
TTGTTGATGTTATAGTTTCAACTTTAATTTTCGAATAATTTGAAAAAAGATACAAATATAAATA
TTTAAAAATAAAAAAATTAATTTGAAAGCTAAAATGATTTTTTTTCCAAAGTTGGCCTAAATAA
GTAATTATACATTTTTTCTAATATCTCAAATTATTAAATAAGAAGTATCTTAGGTAAATATAGA
ATCAACTTCAAAATCTTGGAACCAAAAATTTCACCTTAAATGCCACTTGTAAGCACAAAACATC
TTGAGCCTCTTAACAAAAGCACCAATATCATTTCTTTATTTTACGCTGACCACAGTAATAAGAT
ACGCTGAAAATCACGCATCCCACTTTTCCCAAGGACACATTTTCATTACCGACCTGGTTCAATC
GCTCTTTCCGGCAGGTTTACAAATTTAAGCCCATAAATTTAAACATGCCCCCTCCAAAATATTC
TCTTCACGGGCTGATTCCACAACACGACTAAACAAGATTTGCTTTACAATATATGAATAAATAT
TCGAAGTCACTAGTTTTGATCAGGAAGCACATTTAAACAAACTATACCAGACATGAGTGTTCTT
AACCATTAAAATATCAGACATCACACTCTCCACCATAACCCCATTTCATCATAACATTGAACCT
CAGCACTAAGATAAACCTATCTTTTAATATTGGCCTAAAAGAGGAATAAAATTAAACATAAAAA
AAAAATAGTACAATACATCTGCCTAACAACAAACAACAGTTTCTCCATTCTAAGTTAAGTGATC
AACACACTTGGAAATTAAGCACGCTCGCCCCTGATCCTACGAGCCAACTGGATGTCCTTGGGCA
TTATAGTAACACGCTTGGCGTGGATCGCACACAGGTTGGTGTCTTCAAAGAGACCCACAAGGTA
TGCTTCTGCAGCTTCCTGAAGAGCAAGAACGGCATGGCTCTGGAAACGCAAATCAGT
						
					

			
		

Sequences
Splice junction sequence	GGATCGCACACAGGTTGGTGTCTTCAAAGAGACCCACAAGGTATGCTTCTGCAGCTTCCTGAAG AGCAAGAACGGCATGGCTCTGGAAACGCAAATCAGTcttgaagtcctgggcaatttcacgaaca agcctctggaaaggcaatttcctgataagaagctcagtactcttttggtactttcgaatttcac tgtaaaaa
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	CTTGAAGTCCTGGGCAATTTCACGAACAAGCCTCTGGAAAGGCAATTTCCTGATAAGAAGCTCA GTACTCTTTTGGTACTTTCGAATTTCACTGTAAAAATGAATTACAATATGTTAAAAAACCCATA AAAAGAAACACCCACACTCATAAGAACAAGAACAATGTTTAGAAAATATGAAAGAATACCGAAG AGCAACAGTTCCAGGACGGTAGCGATGAGGCTTCTTCACACCACCGGTGGTTGGGGCAGATTTA CGGGCAGCCTGTTATACAACAGAGATATATCAGAAGTTAATTACAGAACAAGAAAGCTCAAATT TGGTAAACCGTATAATGTTTTGAATGCAATAAAATGAATCACCTTGGTAGCAAGTTGCTTCCTT GGAGCCTTCCCACCAGTCGACTTACGGGCTGTCTGCTTGGTACGGGCCATCTCTGCAAAGATAT GAATAATTTCAGAAGACAATTAAAAAATATAAAACTAGTTACATTTTCTCATTAACTACCAAAC ATAACACGGAAAAGCCAGATCTTAGATAATTACTGTATAATTCCCAAAAGCCCTAATCTTCAAA CTAGAAAACTTCTAAGCCAAAAAAGAAAATCAGAATAGGATTTAAAACAGAAGTCGAAGGTCCT AAATGAACTCAGAACAGAATCAGAGTGCCCTAATTATAAATAAATTCAACCTTACCTCCCCTAT TTCCCTAATTCAACTTAAACTACATGAAATACAAAAACAAATTAAAAGAATCAGAATTTACAAA CCCTAATTTACTATAAAAATAAACAAATAAATAAGAGCCAAGAGAGCGAGGGAAGGTTACTAAC TCAAAAATCTGAGACAAACGCTTATTTATCTTCTGGTTCAAATGTTCGAAAAGGATAGCAATTA AGAGGTATTTATAGAAGGTTGGGGGGTTTGTTAATGAAGTTGATCCGACGGTTCGGATATACTA TCCGTGTGTTTCTTTTGTACGAGATCTGACGGTAAAAACTGTCACAAGTTGTGTTTTCTGAGAG GAAAAGGACGGTTGGGATTAGATTATAGAGGGAAGACACGGATCGTGATGGTTTGATTGCTTGA TTCTTATTGGTCGACTAAAATTGCTTTTTAGCACAAATGTTTTTAAGGTTGGATTTACCACAGA AACTTGGATTAATTTAATGTTCAATATAGAAGAATTTGAGTTCAAGTATCCTGAAGTGTATTAT CTTTATATTTATGGGATGGGAGGGGTTTTAGATAGTTTTAAATATTGTGTAAAAAAAACAGATA TGATCATAATTTATAATGAGATTATTAAAAAATATACATAGCAAGTTTGATTTGGATTAACATT TACTTATAAATAGGTGAATGCATGGGTTAAATTATGAAAGTTGTTGTAATTTGGTATTAGTCCT TAATAGATTTAAGAAAGAATTTTGAGTAGTTTGAACTTAGATTTTATTATAATTTTGATAGTAA AATTATAAGATTATTTAAATTTATAAAAATCATAATTTTTTTTGGCAAAAGGGATTAAAAAACT CTTAATGAAAATTAATAAATCAATTTACATCTTAAAAAAAATATATGCACAGAATTGAAGTCCC AAAAGCAAAATTAAAAAAAATAAAAAATAAAACTCTTTCATTACCAATAATTTTTGTTTAAAAG AGGGGAGAAATAGACATCAAAGCTCCTTTTGATGTAACATATAAATTTGTTTCGCTTCATTCCA AACACAATTCAAATATATATTAACAAAAATGGTAAAAAATTATAATAATTAATAGTAAAAATAA AATTTAAAAATTATTTTTAAAAAAGAGTAAGAAGTGTTTTGAAGAAAATTTTTATTTGTCCTTA ATAACATGTGATATTTTGGCTTATAATTGACTATTTTGACAAATCTTTTCATAGTTAACAATAT TTATGATCTTTAATCATTTTTAACATTCTTTATAATTTTATACAAGATTTTAAATATATTACAA TATTTTCAATTAGGTCAAATAAATATAAACAGATAAATAATCAACTTGAGCCTTGATTTTTGGG CAAATTTTTTTTCTTAAGATATTAACTAATTAATTATATAGAAATACTCGGAAAAGAAAAACAT CCTCTATCTTGTCTAATTTTAGAAAGGTTAGAAACGACATAGGAAGGGTATCAAAAATCTACAA ATCCTTTTTCTAATTAAAATTAGTTTGACTAAATAGTCTGTAGCTTGATTTACTCTCTAGGAAT ATAAAGCAAGAACCACCGTTTTTCTTGTGCCAAAATATTTTGTATATATCTAATCAAAGTTGAA TTTGACGTGCTAGACTATAGGAACGCTTCCTTAATTAGTTTTAACAACCTCCAAACTATAAGAT TTGATTATTCCATTATCAAAGGCCTTTACATTAGGTTAGCTTGAGACTATCCAAAATATCCTAA AGTTCGGCATCAATGACTGAACACTTTTCTAAATAACAGTTATAGCCAAGACACCCATTCCCAT TCTCATCACAAATTACTCCCCCGAAAACTACATTACCTAATTAATTTCCTTCCAAGGCTCATTG GGCCAAATTTGTTTTTAGAAATAATGACCTATTCACGTTACAATTTAATAAAAAAATTTTAATT AACCATTTAATTACTCGTTTCTTTAATTTTAGAAGTTAAGTTTTTTTATCAAAACATCTTAAAA TGACTGAAATTTTTAACACTCTGAATCTCAACATTTGAAATTAATTAATTTTTAATATTTTTAA TATTGTTTATTTTACAATTTTTTAAATAATTCTAAGAATTTTCAATATTTTAAAAAATAACTAA TTGTTGATGTTATAGTTTCAACTTTAATTTTCGAATAATTTGAAAAAAGATACAAATATAAATA TTTAAAAATAAAAAAATTAATTTGAAAGCTAAAATGATTTTTTTTCCAAAGTTGGCCTAAATAA GTAATTATACATTTTTTCTAATATCTCAAATTATTAAATAAGAAGTATCTTAGGTAAATATAGA ATCAACTTCAAAATCTTGGAACCAAAAATTTCACCTTAAATGCCACTTGTAAGCACAAAACATC TTGAGCCTCTTAACAAAAGCACCAATATCATTTCTTTATTTTACGCTGACCACAGTAATAAGAT ACGCTGAAAATCACGCATCCCACTTTTCCCAAGGACACATTTTCATTACCGACCTGGTTCAATC GCTCTTTCCGGCAGGTTTACAAATTTAAGCCCATAAATTTAAACATGCCCCCTCCAAAATATTC TCTTCACGGGCTGATTCCACAACACGACTAAACAAGATTTGCTTTACAATATATGAATAAATAT TCGAAGTCACTAGTTTTGATCAGGAAGCACATTTAAACAAACTATACCAGACATGAGTGTTCTT AACCATTAAAATATCAGACATCACACTCTCCACCATAACCCCATTTCATCATAACATTGAACCT CAGCACTAAGATAAACCTATCTTTTAATATTGGCCTAAAAGAGGAATAAAATTAAACATAAAAA AAAAATAGTACAATACATCTGCCTAACAACAAACAACAGTTTCTCCATTCTAAGTTAAGTGATC AACACACTTGGAAATTAAGCACGCTCGCCCCTGATCCTACGAGCCAACTGGATGTCCTTGGGCA TTATAGTAACACGCTTGGCGTGGATCGCACACAGGTTGGTGTCTTCAAAGAGACCCACAAGGTA TGCTTCTGCAGCTTCCTGAAGAGCAAGAACGGCATGGCTCTGGAAACGCAAATCAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							gra_circ_000236* ath_circ_038865 						
					
						PMCS

Conservation Information
Conserved circRNAs	gra_circ_000236* ath_circ_038865
PMCS

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Xiang et al., 2018

circRNA

Detail information of A02_circ_ag.4

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