Plant Circular RNA Database

Detail information of orai.004G283100_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.004G283100_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000416
					
						Alias
						Chr04:61459309|61462523
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr04: 61459309-61462523  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.004G283100						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						7
					
						Tissues
						ovule
					
						Exon boundary  
						
							No-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  
						
							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.004G283100.2:6
Gorai.004G283100.1:6
Gorai.004G283100.3:6

General Information
CircRNA Name	orai.004G283100_circ_g.1
ID in PlantcircBase	gra_circ_000416
Alias	Chr04:61459309\|61462523
Organism	Gossypium raimondii
Position	chrChr04: 61459309-61462523 JBrowse»
Reference genome	Graimondii_221
Type	u-circRNA
Identification method	CIRI
Parent gene	Gorai.004G283100
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	7
Tissues	ovule
Exon boundary	No-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	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.004G283100.2:6 Gorai.004G283100.1:6 Gorai.004G283100.3:6

			
						 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  
						
							TAATTTGTCTAACGTGGTTAGAGCATTTGTTTCCGGCTTGGTTTTTCCAAAAATCCCTTTAAAC
ATAGCTACCTCTCCGCGAATTAAAACACCTGATATTcttaaagtgccatctcagcctgcaatgc
agcgagttcatcttcttcggctgtgtgtttttgaggaacgggtcgagctggttgactgctagca
ggcacctg

									
								

					

						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
						
							CTTAAAGTGCCATCTCAGCCTGCAATGCAGCGAGTTCATCTTCTTCGGCTGTGTGTTTTTGAGG
AACGGGTCGAGCTGGTTGACTGCTAGCAGGCACCTGTACTGGTGCTGCCGGGGCAGTTGTTGCA
GGCTGGAGAAGCTGTTCTTCTAATTCAGCACCTTCAAGTTCTTCGAGTTCAGCTTCCAATTCAT
CCTACGATATCAAAAGTTTCGGACTCAATTGTTAAGATGCATATAAGTGCCGGACATGGTATTT
ATGAACACCGATGATAGGATGGAGGAAAAAATGAGAGTGCATCAGAAAGTTATAACCTCATCAA
AATCAGCCGCAGCTCCGATAGGAGTTGATAGTGCTTCCTGAATCTGTTTCATGTTCTCGGTTTG
TTCGTTGATCTCATCCATTGTTTTGTCCACATCATCTATGCTACTGTACGAAAGCCATTTTGAG
TAAAATAGTGAGAACTGGACACTGCCCTAGCTTCATGAAGGTTGAAAAAAAGTGCTAAATTCCA
AGTCAGCACACGTTCAGTAAATGGCAATGCAAAGGGACAAGTACAATGAAGAAAAGCATAAAAG
AAAAATTTTTGCCTAACAGTAAAAATATGTCAGTTACATACGTTGCTTTCTGCATCGCCTTCAT
CGCAGATGCTCCAGTTCTCAATGCATCCACAGTTTCAGTTGTGGCTTTGGCACCTTCTAACATT
ATCATCTGTATAAGTTGATATAGAACAATCAATGAAATGGAAAAAAACTCAAAAAAGCCTTCAG
GACACGGTTAAAGCACTAAAAAATTAACAAAATTCAGAGCTTACTTGATCGTGAACACGAAGCT
GAAAGTTCCCAAGCTGTTCGATTTGCTGTTCATACAGTTTCTTCCTCTTCAAGCACTGTATAGC
CGCTGCATAGAGTAGCATAATGAATACTAAGTAAACGATATAAATATGGCAATCAAACTGCATA
ACATGGTTTTAAATTAACTCATAATTCAAATGATCTATTTAAAATTTTCTTCCGGAGGATCTTT
GATTGTTAAACCTTCACATGACATGAGCACATGATAAATTAGAAACCCAGCATCATATTTTAGC
ATGGTAATGTTAATCTGCATCAGATCATCACTCAATGTCCAAAGAACATTACGAGCTGACAGTG
ATTGAACCAAAAGACCCCAAAAATGAAGCTTGCAATGCTATAAAACATCAGGGTGTTATTTCTT
TTATTTTGGGGGCATCTTCATTCTCATTTGGTCTTTCCTTCATTTTGAGAATTGAAGTGTAAGG
GGGCACGGGGGAGGGGTTCAATGTGTAAATAAGAAATTGGTGCTCACAAGCTACTTGAGTTCAA
CTCGAGAAAAAACAAGAACTCGATTCGGTAACTATGGAGCTGAGCTTGAGTTATCAATTAAGCT
GAATTCAAGCTTAGTAATACTCTGCGCGAATGGCTTGGGAGCTTTATCAAGCTTTTCATTTTTA
ATATTTTTATATTATTAAATTATGTTATTGCCCTTAATATGTATTATTAACCCTAAGTAAAATT
ATCAAGTTGAGCTCGGGCTCAAGCTTGAATACATACAAGCTTAATCAAGCTTGAGTTTGAGTAC
AAAATAGATAAACAAGCTTAATCAAGCTCGAGCCTAAAAATAAATGTTCAATTAAGCTCGAGTC
AAGTATCGAGCTCCGAATTTTGTGGTCGAGCTCAAGCTTGCCAGTATTCAAGCTCGGCTTGGCT
CGATTATACCCCTAGGGGGGTTGTTATGGATGAATAATTAAACATCGACTATAATAACTGAAAA
ATATATGACTAATTAAAATGAAGCTCCAACATGAGTAAGCTAGAAGCCATCACATTATACTGTT
GCGAGAGAAAAGAATTTTACATCCTACAATATATCCCATATTTATATACAAGCATCAAGAAACA
AAGCATAAAAACTACTATAATTCACAAAGAAATTTTTTTCAATAGAAAAAAAGATGGAAAACAA
GGAAAAACATTAACCATTTGTGTATATATATTGCAATCATACCTTTCTTATTTCTCCCTTTGGC
ATACTCCTTGGCCTTTTCAACCTCTGCAGCAGTCTTTTTCAGAAGCACACTTTCCTTTTTCTCA
AGCATTTCAAGGGTCTACATGATGGAAACCGATATAGGGCTCATTTTAAGCAAAACGTAGAAGA
GAAACAACATAATTCAATCATTTGAAACAAATAAATGTGACTTGCAGCACCGTGCAAAATAAAA
ACTGCTGGATTTAGCATTATGATTACAGTTCTGGAGTTTGAGCATCTCCAACACACAACCAATA
AACCCAAATTTCTAACCTTATAGAAAAGATCATATTCCATCTTCTAGTGAGACTGGCATGGAAT
AAGCATACACAACATTCCTTTTATCTAATAGGCTTTACTTGATAAATTGTGCTAGTAAGTTTTA
AGAAACAAAATTCAGTTATTAATCAGTTTTTCTGTCCCGAAAACTAGTACATGCCTCGTTTGGT
TATTTGGTGTATTGACACAAGTAAAAGCTTAATTATTGCATAAGTATTAAAACAATTTGTTATA
ACATAAAATAAGACCTCCACAAAATAAGAAAAAAGTTTTCCCTTCCCTTTGCTGAAAACAAGTT
ATATTAGTAGCTAAAAATTATCAAGTGTAATTAGTTTATTGCTAACTCTAGTATTAAGATGTAT
GGAAAAAGTAATACTCTCATCAAAGGAAGCATTAAAAGAAAAGTTTCACCTTCAAGTCATCAAC
CAAAGTAAACAACTATCATCCTCTGAAAATGGCCAATTACTAAAGTGATCAACTGACTCTACTG
AATGTATTTTTTTAACTAAATTTAATTCCACTTCATAAGTTCATTAATTTTTATCGATCCAAAA
TGTAATCAATCGATTCAGTAATTCACCAAAAGGATTATCATATTATTTCCCATTAATTCATCAG
CTAGCAACTCAGTTCTTTCAAACAAATCCCGAAACTATAAAATCAACCCACCGAAATCACCAAA
TGCAAATTTCAAATCACACAGTTCACGCAAAAAAGAAATGCAACAAACAAACAACTTATTTCCC
GATTAAAGGAAAAAAAAGTACAACATCGAGGAAATACCTCATTTAATTTGTCTAACGTGGTTAG
AGCATTTGTTTCCGGCTTGGTTTTTCCAAAAATCCCTTTAAACATAGCTACCTCTCCGCGAATT
AAAACACCTGATATT
						
					

			
		

Sequences
Splice junction sequence	TAATTTGTCTAACGTGGTTAGAGCATTTGTTTCCGGCTTGGTTTTTCCAAAAATCCCTTTAAAC ATAGCTACCTCTCCGCGAATTAAAACACCTGATATTcttaaagtgccatctcagcctgcaatgc agcgagttcatcttcttcggctgtgtgtttttgaggaacgggtcgagctggttgactgctagca ggcacctg
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	CTTAAAGTGCCATCTCAGCCTGCAATGCAGCGAGTTCATCTTCTTCGGCTGTGTGTTTTTGAGG AACGGGTCGAGCTGGTTGACTGCTAGCAGGCACCTGTACTGGTGCTGCCGGGGCAGTTGTTGCA GGCTGGAGAAGCTGTTCTTCTAATTCAGCACCTTCAAGTTCTTCGAGTTCAGCTTCCAATTCAT CCTACGATATCAAAAGTTTCGGACTCAATTGTTAAGATGCATATAAGTGCCGGACATGGTATTT ATGAACACCGATGATAGGATGGAGGAAAAAATGAGAGTGCATCAGAAAGTTATAACCTCATCAA AATCAGCCGCAGCTCCGATAGGAGTTGATAGTGCTTCCTGAATCTGTTTCATGTTCTCGGTTTG TTCGTTGATCTCATCCATTGTTTTGTCCACATCATCTATGCTACTGTACGAAAGCCATTTTGAG TAAAATAGTGAGAACTGGACACTGCCCTAGCTTCATGAAGGTTGAAAAAAAGTGCTAAATTCCA AGTCAGCACACGTTCAGTAAATGGCAATGCAAAGGGACAAGTACAATGAAGAAAAGCATAAAAG AAAAATTTTTGCCTAACAGTAAAAATATGTCAGTTACATACGTTGCTTTCTGCATCGCCTTCAT CGCAGATGCTCCAGTTCTCAATGCATCCACAGTTTCAGTTGTGGCTTTGGCACCTTCTAACATT ATCATCTGTATAAGTTGATATAGAACAATCAATGAAATGGAAAAAAACTCAAAAAAGCCTTCAG GACACGGTTAAAGCACTAAAAAATTAACAAAATTCAGAGCTTACTTGATCGTGAACACGAAGCT GAAAGTTCCCAAGCTGTTCGATTTGCTGTTCATACAGTTTCTTCCTCTTCAAGCACTGTATAGC CGCTGCATAGAGTAGCATAATGAATACTAAGTAAACGATATAAATATGGCAATCAAACTGCATA ACATGGTTTTAAATTAACTCATAATTCAAATGATCTATTTAAAATTTTCTTCCGGAGGATCTTT GATTGTTAAACCTTCACATGACATGAGCACATGATAAATTAGAAACCCAGCATCATATTTTAGC ATGGTAATGTTAATCTGCATCAGATCATCACTCAATGTCCAAAGAACATTACGAGCTGACAGTG ATTGAACCAAAAGACCCCAAAAATGAAGCTTGCAATGCTATAAAACATCAGGGTGTTATTTCTT TTATTTTGGGGGCATCTTCATTCTCATTTGGTCTTTCCTTCATTTTGAGAATTGAAGTGTAAGG GGGCACGGGGGAGGGGTTCAATGTGTAAATAAGAAATTGGTGCTCACAAGCTACTTGAGTTCAA CTCGAGAAAAAACAAGAACTCGATTCGGTAACTATGGAGCTGAGCTTGAGTTATCAATTAAGCT GAATTCAAGCTTAGTAATACTCTGCGCGAATGGCTTGGGAGCTTTATCAAGCTTTTCATTTTTA ATATTTTTATATTATTAAATTATGTTATTGCCCTTAATATGTATTATTAACCCTAAGTAAAATT ATCAAGTTGAGCTCGGGCTCAAGCTTGAATACATACAAGCTTAATCAAGCTTGAGTTTGAGTAC AAAATAGATAAACAAGCTTAATCAAGCTCGAGCCTAAAAATAAATGTTCAATTAAGCTCGAGTC AAGTATCGAGCTCCGAATTTTGTGGTCGAGCTCAAGCTTGCCAGTATTCAAGCTCGGCTTGGCT CGATTATACCCCTAGGGGGGTTGTTATGGATGAATAATTAAACATCGACTATAATAACTGAAAA ATATATGACTAATTAAAATGAAGCTCCAACATGAGTAAGCTAGAAGCCATCACATTATACTGTT GCGAGAGAAAAGAATTTTACATCCTACAATATATCCCATATTTATATACAAGCATCAAGAAACA AAGCATAAAAACTACTATAATTCACAAAGAAATTTTTTTCAATAGAAAAAAAGATGGAAAACAA GGAAAAACATTAACCATTTGTGTATATATATTGCAATCATACCTTTCTTATTTCTCCCTTTGGC ATACTCCTTGGCCTTTTCAACCTCTGCAGCAGTCTTTTTCAGAAGCACACTTTCCTTTTTCTCA AGCATTTCAAGGGTCTACATGATGGAAACCGATATAGGGCTCATTTTAAGCAAAACGTAGAAGA GAAACAACATAATTCAATCATTTGAAACAAATAAATGTGACTTGCAGCACCGTGCAAAATAAAA ACTGCTGGATTTAGCATTATGATTACAGTTCTGGAGTTTGAGCATCTCCAACACACAACCAATA AACCCAAATTTCTAACCTTATAGAAAAGATCATATTCCATCTTCTAGTGAGACTGGCATGGAAT AAGCATACACAACATTCCTTTTATCTAATAGGCTTTACTTGATAAATTGTGCTAGTAAGTTTTA AGAAACAAAATTCAGTTATTAATCAGTTTTTCTGTCCCGAAAACTAGTACATGCCTCGTTTGGT TATTTGGTGTATTGACACAAGTAAAAGCTTAATTATTGCATAAGTATTAAAACAATTTGTTATA ACATAAAATAAGACCTCCACAAAATAAGAAAAAAGTTTTCCCTTCCCTTTGCTGAAAACAAGTT ATATTAGTAGCTAAAAATTATCAAGTGTAATTAGTTTATTGCTAACTCTAGTATTAAGATGTAT GGAAAAAGTAATACTCTCATCAAAGGAAGCATTAAAAGAAAAGTTTCACCTTCAAGTCATCAAC CAAAGTAAACAACTATCATCCTCTGAAAATGGCCAATTACTAAAGTGATCAACTGACTCTACTG AATGTATTTTTTTAACTAAATTTAATTCCACTTCATAAGTTCATTAATTTTTATCGATCCAAAA TGTAATCAATCGATTCAGTAATTCACCAAAAGGATTATCATATTATTTCCCATTAATTCATCAG CTAGCAACTCAGTTCTTTCAAACAAATCCCGAAACTATAAAATCAACCCACCGAAATCACCAAA TGCAAATTTCAAATCACACAGTTCACGCAAAAAAGAAATGCAACAAACAAACAACTTATTTCCC GATTAAAGGAAAAAAAAGTACAACATCGAGGAAATACCTCATTTAATTTGTCTAACGTGGTTAG AGCATTTGTTTCCGGCTTGGTTTTTCCAAAAATCCCTTTAAACATAGCTACCTCTCCGCGAATT AAAACACCTGATATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							ghi_circ_001001* 						
					
						PMCS
						0.863061866

Conservation Information
Conserved circRNAs	ghi_circ_001001*
PMCS	0.863061866

			
						 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.004G283100_circ_g.1

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