Plant Circular RNA Database

Detail information of orai.002G004900_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G004900_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000106
					
						Alias
						Chr02:311345|315362
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 311345-315362  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G004900						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						leaf
					
						Exon boundary  
						
							Yes-No							"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.002G004900.3:10
Gorai.002G004900.2:11
Gorai.002G004900.1:11
Gorai.002G004900.4:9

General Information
CircRNA Name	orai.002G004900_circ_g.1
ID in PlantcircBase	gra_circ_000106
Alias	Chr02:311345\|315362
Organism	Gossypium raimondii
Position	chrChr02: 311345-315362 JBrowse»
Reference genome	Graimondii_221
Type	u-circRNA
Identification method	CIRI
Parent gene	Gorai.002G004900
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	leaf
Exon boundary	Yes-No "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.002G004900.3:10 Gorai.002G004900.2:11 Gorai.002G004900.1:11 Gorai.002G004900.4:9

			
						 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  
						
							ACTTTTTGGCTTCAGCAGACCTGTACGGCGTCGTTATAGTATGGAAGAGAGCAAAAACAAGTTA
TAAAGGCAATATATAAACATTATACAACGATATAAGgattggagatgtaatggaaaaggttatg
tggcctatcgaaattacattcgtaggcctagaaactgggaaaattcacaaataccaagctatcc
aagcactc

									
								

					

						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
						
							GATTGGAGATGTAATGGAAAAGGTTATGTGGCCTATCGAAATTACATTCGTAGGCCTAGAAACT
GGGAAAATTCACAAATACCAAGCTATCCAAGCACTCCTGGAAACAGGTACCTTAATTATCCAGA
ACTTGCATTATTTTTAACATTTGTTTATGGAGTTATATTTGATGCACTAACTGCATGTAATATA
TGCAGATCATAAAAAAATTTAAAATTAAATTCACTTATTTTTATTTCTAATTATGTGGAATCTT
CTGGTTTACTGATAGTATATAGAATTATACACAATCAGTTCATCAAATATTACCCCCATGATCA
TTTGCTTCACGAAATGAGGCTATGAAAGTACCAATCGCAGTTGCATTTGTTAGATTGGATGAAT
GGTTAGGGTTAAAGATGTTTTATGAACAATCAACTGCTAATTTTGTGAGTTCTATTTTAAAGTT
TTATGTTTTTATACAATTCTGACATCAGGGTAATTTACTGGTTGATGCATCAGTGGGCGATGGA
TGTTAACTTCAAGTCCACTCTCGCGTTTGTCCGAGGTGGAAAGCTGGAGCTCAAGCAAGGTAGG
TACAACATTTGTTACGCAATTGGTACTTTCAATCAATTAGGGTATGTGATTATATTCTTAGTTT
GCATTGCGCATTGCTGTCTGAATTCATTGAATAGTTCCTGTTCATTTTCTAATTGTTTTGATCA
CTTTCCAAGACAACTTATTCATCATGTTCTTGATGATGAAATGAAAGAACAGAATATTTTCTTT
CCCATTATAAAGGGATTTCCTGCATGCCAAGAGCTTGAAACTTGTATGTTCTAATCTTGCAGTT
AATATAAGACTTCAACCTTGATATATACAGGCTTTTAAAAGACATAGAAGAGTTTAATACTTTT
CCTTGCAGGATTTACGGAGTGGTGCTCTGGCTTCAAACCATAGAACAAGTTTCAGCTCTAGCAT
TAGTGATAGTGATCACCCACGTGGACAAGGAGTTGAACCTGCATATTCTTTTGTAGGAATGCAC
TGCATCTTTGATCAGTGCAAATCAGCTGGTACCTTTATTGTAAATCTTGAATGCAATCTACAGT
AGTTTCTTCTCTGTCATGCTATTTTGAGCAGTGAATTTCAATCTTTTAAAACTGAAGCGATCAC
TGGTCTTATATGTAGTTACGGTTTTGAAGTTCGGGCACATGAGTTCTGATCTACTTGCATATGG
GGCTTCAGATGGGACTTTAACAGTTTGCAATGTCTCTGACCCCCCTACAGTTATCAATCAATTA
AAAGGGCATTCAAAAGATGTCACAGGTTGGATTTACTGGTATTGTATCTGTAGTCTTTCTTATA
ACTTAGACTAAAGTATATGTATCTGTGCTGCCTGCTAATGTCTTTCATTTACTGAGATCATGGT
CAACTTCATGTGTGGGTTACTTGCTCCATTTGACTTCCTTTATTTTATTTTTGGAGTTTCTTTG
GAAATTGAACTAGATCGGCATGATTTTAGGTATAGATATTCACTTGATAGAAAATGAATGCTAG
TTTACACTCATTAATACTTGTTTGATTACTCGTGTAATAACATAAGGAAAAAACTTTACATACA
TAACTTTTTTTATTTAAAATGGATGCTAATTTGCATACTACATTATTGTTATTCGTATTAAATT
TCTAGATATCAGTAACTAGGATTGAATTTTATTTTGATAACGATGATTTGTATCTAGTTTTTAT
TAATTATGTTTCTGATTATTCTCAGATTTTGACTTCTCTTCAAACAATCAATATATTGCATCAT
CATCAGCAGATAAGACTGTGCGAGTATGGGAATTATCAAAAGGCCTTTGCATACGAGTAATATA
TGGAGTCTCTCCACAATTGTGTATTCGCTTTCATCCTGTGAGTACATATCATCAGCATTAATAA
GTCGTCTCATTCAGGCCAAGGAAATTTTATATGGTTATTTATTCTGCATTTTCTTTTTATCTGC
CATAATCTTGAAACAAATTCTGTTCCAACCTAATTTTAATTGAGGCCGCAACGAAATCGTTCTG
TCTAATGTAACTATAATGTGTATCTTTAAGTTTAGTTCGGGTTTAACTGTCTACTAAATTGTTT
TTATATTTTCATTTCTTGGCCACAGGTAAATAACAACTTCCTTTCAGTTGGCAATGCAAATAAA
GAGATTACTGTAAGTACTGCAAGTCTTTGCTTTCTCAATTTATAGCTCTTGACAACAAAGTGGA
AAATAACCCGTTGATAATCTCAAGTCAACTTAATGAGCAATTACTGCAGTTGATTTAATATGTT
AAATTGTGAAGATTATAATCATCACATTCAGAGTCTAGATATGTTAGCAAAATGCATTGCTTCT
TTCTCACTGATTTGTTTTGTGAATTTTGATGTTTAGCTTGTGGTACGAGACAGGCCTCTGCCTG
TTTAAAAATCCATGATGAAATAGCCAGTTGGCTGCTTCCATATATTTTAATCTTCATTCACTTT
GTACTTAGTTGTACATCTGTATGTGTTTGAATTTTCTAAGCTCTCGTATTTACGCTTTCAAAAA
TTAGGAATCTAAACTTCTGTCAGTTGTCCACAGCAACTAAAACTGCATATACTTATCTACTTCA
ATCGGTTCCATCATTTAATTGATAGCTTCCTTTTTTTTCTGTACACCAGGTGTTCAATTTCAGC
ACGGGGAGAGTTATTGCCAAATCCATCTTCGATAGTGAGGTTACCTCAATGGACCATGATCATA
CGGGTCATCTCATTTTCTGTGGTGATGCACAGGTATCTTTCCATGTGTCGATATCGTAATCGGA
GAATCAAAGAAATTTGTTAATAGTCTTTACAGGAAGTTTCTAACGAGATAACATTTGTAGGGAT
GTATATACTCTGTAACTATGGACTCCCACACAGGTGCGTTATCCCGTTCTCATCGTTATAGAAG
TAGCAGTAAACAGAAATTTCCGATCACAACCGTGCAGTACCGAAGTTTCTCGTTACTGGCTGGT
GGCCCAGTGTTGCTGACATGCACTAAAGATGGAAGTCTTTCTTTCTTTAGGTTCGTTAAGAACA
CTATGCCTTCTACTTCCAGTCTTTATGTCATGTAACTGAAATAGTATGCTCGCATTGCAGTGTT
GCTTTGGAAGTAGAAGGTTATTTGACCCTGCGTTGCTCACTTAAATTAACTCCGAGAATACACA
GTATTCGAGCATCCTTCTGCCCTCTGCTTTCCCTCAATAAGGGAGAATATATAGGTTTGTATCT
CCCAACTTAATTGCCACTTACAAGTACGGATGTAAATGAAATACTGGTGCTCGCAAATTATTCG
AGTTTGACTCGAAATTTTTTTTAACTCTATTCGGTACTTATCAAGTGAGCTCAAGCTATCAGTC
AAGCCGAATTCGAGCTTAATAATACTTGACTTGAACGGCTCGCAAGCCTTATCGAGCTTGTTAT
ATTACCCTTAATGCATATCATTAACTTTAAGCTTAGTTATCGAGCCGAGCTCAAGCTTGAGTAC
AAAAATTGGTAAACGTGCTTAATTGAGCTTGAGCTTAAAAGTAGATGTTCAATTGAGCTCGGCC
CGAGTATCGAGCTTGAGCTGGACAATATTCGGGCTCGGCTCAATTACACCCCTACTTACAATAC
GACTTCATTCTCAAATCATGTATATCATTTCTGACATTATGTTGTTTCGTGCTGTGAAGTTGCT
GGGAGCGAGGATTCAAATGTCTATTTCTATGATTTAACTCGACCGAAACATACATGTGTAAATA
AGCTGCAGGTTATACTCTCTCGAGTACTAGTGGATAACTTGTTCGAAACTTCTTTGCTAATGTA
CTGTTAACAATTTGAGTAATTGATGTCCGCAGGGTCATCGTTTTCCGGTTTTAGTAGTAGCTTG
GAATCACGGGGAGAACTTTTTGGCTTCAGCAGACCTGTACGGCGTCGTTATAGTATGGAAGAGA
GCAAAAACAAGTTATAAAGGCAATATATAAACATTATACAACGATATAAG
						
					

			
		

Sequences
Splice junction sequence	ACTTTTTGGCTTCAGCAGACCTGTACGGCGTCGTTATAGTATGGAAGAGAGCAAAAACAAGTTA TAAAGGCAATATATAAACATTATACAACGATATAAGgattggagatgtaatggaaaaggttatg tggcctatcgaaattacattcgtaggcctagaaactgggaaaattcacaaataccaagctatcc aagcactc
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	GATTGGAGATGTAATGGAAAAGGTTATGTGGCCTATCGAAATTACATTCGTAGGCCTAGAAACT GGGAAAATTCACAAATACCAAGCTATCCAAGCACTCCTGGAAACAGGTACCTTAATTATCCAGA ACTTGCATTATTTTTAACATTTGTTTATGGAGTTATATTTGATGCACTAACTGCATGTAATATA TGCAGATCATAAAAAAATTTAAAATTAAATTCACTTATTTTTATTTCTAATTATGTGGAATCTT CTGGTTTACTGATAGTATATAGAATTATACACAATCAGTTCATCAAATATTACCCCCATGATCA TTTGCTTCACGAAATGAGGCTATGAAAGTACCAATCGCAGTTGCATTTGTTAGATTGGATGAAT GGTTAGGGTTAAAGATGTTTTATGAACAATCAACTGCTAATTTTGTGAGTTCTATTTTAAAGTT TTATGTTTTTATACAATTCTGACATCAGGGTAATTTACTGGTTGATGCATCAGTGGGCGATGGA TGTTAACTTCAAGTCCACTCTCGCGTTTGTCCGAGGTGGAAAGCTGGAGCTCAAGCAAGGTAGG TACAACATTTGTTACGCAATTGGTACTTTCAATCAATTAGGGTATGTGATTATATTCTTAGTTT GCATTGCGCATTGCTGTCTGAATTCATTGAATAGTTCCTGTTCATTTTCTAATTGTTTTGATCA CTTTCCAAGACAACTTATTCATCATGTTCTTGATGATGAAATGAAAGAACAGAATATTTTCTTT CCCATTATAAAGGGATTTCCTGCATGCCAAGAGCTTGAAACTTGTATGTTCTAATCTTGCAGTT AATATAAGACTTCAACCTTGATATATACAGGCTTTTAAAAGACATAGAAGAGTTTAATACTTTT CCTTGCAGGATTTACGGAGTGGTGCTCTGGCTTCAAACCATAGAACAAGTTTCAGCTCTAGCAT TAGTGATAGTGATCACCCACGTGGACAAGGAGTTGAACCTGCATATTCTTTTGTAGGAATGCAC TGCATCTTTGATCAGTGCAAATCAGCTGGTACCTTTATTGTAAATCTTGAATGCAATCTACAGT AGTTTCTTCTCTGTCATGCTATTTTGAGCAGTGAATTTCAATCTTTTAAAACTGAAGCGATCAC TGGTCTTATATGTAGTTACGGTTTTGAAGTTCGGGCACATGAGTTCTGATCTACTTGCATATGG GGCTTCAGATGGGACTTTAACAGTTTGCAATGTCTCTGACCCCCCTACAGTTATCAATCAATTA AAAGGGCATTCAAAAGATGTCACAGGTTGGATTTACTGGTATTGTATCTGTAGTCTTTCTTATA ACTTAGACTAAAGTATATGTATCTGTGCTGCCTGCTAATGTCTTTCATTTACTGAGATCATGGT CAACTTCATGTGTGGGTTACTTGCTCCATTTGACTTCCTTTATTTTATTTTTGGAGTTTCTTTG GAAATTGAACTAGATCGGCATGATTTTAGGTATAGATATTCACTTGATAGAAAATGAATGCTAG TTTACACTCATTAATACTTGTTTGATTACTCGTGTAATAACATAAGGAAAAAACTTTACATACA TAACTTTTTTTATTTAAAATGGATGCTAATTTGCATACTACATTATTGTTATTCGTATTAAATT TCTAGATATCAGTAACTAGGATTGAATTTTATTTTGATAACGATGATTTGTATCTAGTTTTTAT TAATTATGTTTCTGATTATTCTCAGATTTTGACTTCTCTTCAAACAATCAATATATTGCATCAT CATCAGCAGATAAGACTGTGCGAGTATGGGAATTATCAAAAGGCCTTTGCATACGAGTAATATA TGGAGTCTCTCCACAATTGTGTATTCGCTTTCATCCTGTGAGTACATATCATCAGCATTAATAA GTCGTCTCATTCAGGCCAAGGAAATTTTATATGGTTATTTATTCTGCATTTTCTTTTTATCTGC CATAATCTTGAAACAAATTCTGTTCCAACCTAATTTTAATTGAGGCCGCAACGAAATCGTTCTG TCTAATGTAACTATAATGTGTATCTTTAAGTTTAGTTCGGGTTTAACTGTCTACTAAATTGTTT TTATATTTTCATTTCTTGGCCACAGGTAAATAACAACTTCCTTTCAGTTGGCAATGCAAATAAA GAGATTACTGTAAGTACTGCAAGTCTTTGCTTTCTCAATTTATAGCTCTTGACAACAAAGTGGA AAATAACCCGTTGATAATCTCAAGTCAACTTAATGAGCAATTACTGCAGTTGATTTAATATGTT AAATTGTGAAGATTATAATCATCACATTCAGAGTCTAGATATGTTAGCAAAATGCATTGCTTCT TTCTCACTGATTTGTTTTGTGAATTTTGATGTTTAGCTTGTGGTACGAGACAGGCCTCTGCCTG TTTAAAAATCCATGATGAAATAGCCAGTTGGCTGCTTCCATATATTTTAATCTTCATTCACTTT GTACTTAGTTGTACATCTGTATGTGTTTGAATTTTCTAAGCTCTCGTATTTACGCTTTCAAAAA TTAGGAATCTAAACTTCTGTCAGTTGTCCACAGCAACTAAAACTGCATATACTTATCTACTTCA ATCGGTTCCATCATTTAATTGATAGCTTCCTTTTTTTTCTGTACACCAGGTGTTCAATTTCAGC ACGGGGAGAGTTATTGCCAAATCCATCTTCGATAGTGAGGTTACCTCAATGGACCATGATCATA CGGGTCATCTCATTTTCTGTGGTGATGCACAGGTATCTTTCCATGTGTCGATATCGTAATCGGA GAATCAAAGAAATTTGTTAATAGTCTTTACAGGAAGTTTCTAACGAGATAACATTTGTAGGGAT GTATATACTCTGTAACTATGGACTCCCACACAGGTGCGTTATCCCGTTCTCATCGTTATAGAAG TAGCAGTAAACAGAAATTTCCGATCACAACCGTGCAGTACCGAAGTTTCTCGTTACTGGCTGGT GGCCCAGTGTTGCTGACATGCACTAAAGATGGAAGTCTTTCTTTCTTTAGGTTCGTTAAGAACA CTATGCCTTCTACTTCCAGTCTTTATGTCATGTAACTGAAATAGTATGCTCGCATTGCAGTGTT GCTTTGGAAGTAGAAGGTTATTTGACCCTGCGTTGCTCACTTAAATTAACTCCGAGAATACACA GTATTCGAGCATCCTTCTGCCCTCTGCTTTCCCTCAATAAGGGAGAATATATAGGTTTGTATCT CCCAACTTAATTGCCACTTACAAGTACGGATGTAAATGAAATACTGGTGCTCGCAAATTATTCG AGTTTGACTCGAAATTTTTTTTAACTCTATTCGGTACTTATCAAGTGAGCTCAAGCTATCAGTC AAGCCGAATTCGAGCTTAATAATACTTGACTTGAACGGCTCGCAAGCCTTATCGAGCTTGTTAT ATTACCCTTAATGCATATCATTAACTTTAAGCTTAGTTATCGAGCCGAGCTCAAGCTTGAGTAC AAAAATTGGTAAACGTGCTTAATTGAGCTTGAGCTTAAAAGTAGATGTTCAATTGAGCTCGGCC CGAGTATCGAGCTTGAGCTGGACAATATTCGGGCTCGGCTCAATTACACCCCTACTTACAATAC GACTTCATTCTCAAATCATGTATATCATTTCTGACATTATGTTGTTTCGTGCTGTGAAGTTGCT GGGAGCGAGGATTCAAATGTCTATTTCTATGATTTAACTCGACCGAAACATACATGTGTAAATA AGCTGCAGGTTATACTCTCTCGAGTACTAGTGGATAACTTGTTCGAAACTTCTTTGCTAATGTA CTGTTAACAATTTGAGTAATTGATGTCCGCAGGGTCATCGTTTTCCGGTTTTAGTAGTAGCTTG GAATCACGGGGAGAACTTTTTGGCTTCAGCAGACCTGTACGGCGTCGTTATAGTATGGAAGAGA GCAAAAACAAGTTATAAAGGCAATATATAAACATTATACAACGATATAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.771728304

Conservation Information
Conserved circRNAs	NA
PMCS	0.771728304

			
						 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
						Zhao et al., 2017b

circRNA

Detail information of orai.002G004900_circ_g.1

Address

Any questions?

Supported by