Plant Circular RNA Database

Detail information of orai.006G079100_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.006G079100_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000592
					
						Alias
						Chr06:30425417|30427722
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr06: 30425417-30427722  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.006G079100						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						3
					
						Tissues
						leaf
					
						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.006G079100.4:9
Gorai.006G079100.7:8
Gorai.006G079100.5:9
Gorai.006G079100.6:9
Gorai.006G079100.8:8
Gorai.006G079100.3:9
Gorai.006G079100.2:9
Gorai.006G079100.1:9
Gorai.006G079100.9:7

General Information
CircRNA Name	orai.006G079100_circ_g.1
ID in PlantcircBase	gra_circ_000592
Alias	Chr06:30425417\|30427722
Organism	Gossypium raimondii
Position	chrChr06: 30425417-30427722 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.006G079100
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	3
Tissues	leaf
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.006G079100.4:9 Gorai.006G079100.7:8 Gorai.006G079100.5:9 Gorai.006G079100.6:9 Gorai.006G079100.8:8 Gorai.006G079100.3:9 Gorai.006G079100.2:9 Gorai.006G079100.1:9 Gorai.006G079100.9:7

			
						 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  
						
							AGTCAATTTTCCTTGGGTTGATCAGCACCCTTTGGGCCAACTTACTAATCTCAGGATCAAACCC
GGGCATAAGTTGATCTAGAGCTTCAATAAAAGTAACctttgctgatttgaatagttcatcaaga
acttccgacaatgttggatgtgcgtgaactgcgaacctgatgtcctgaatggtgaaaacaaaca
ctcataag

									
								

					

						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: 825
Transcript exons: 30425417-30425488,30425602-30425715,30426098-30426211,30
426614-30426714,30426805-30426883,30426964-30427038,3042
7124-30427186,30427436-30427516,30427597-30427722
CTTTGCTGATTTGAATAGTTCATCAAGAACTTCCGACAATGTTGGATGTGCGTGAACTGCGAAC
CTGATGTCCTGGATTCGTGTTCCTAAAGCTACGGCATTTGATGCCTCATGGATAAGGTCCGCTG
CATGCAAGCCAAAAATATGAACTCCAAGAATCTCTCCATTGTCAGGTCTGTAAATCAACTTTGC
AAGTCCCTCGCCTTCGTTTTCTGCCAGTGCCTTTGTATTAGCCTTGAAACTTGTTTTGGCAACG
CTTATTTCAAACCCTTCCTTCTCAGCTTTCTCTCTTGCTTGAGGCTCTGTCAAACCAACCATAC
TTATTTCAGGGTGAGTGAAGCAAGCTGCTGGGACACTGAGGTGATTAAGCACGTGATCTCTTCC
AGTGACTTGTTCGACGACCGAAATTCCTTGTGCACTTGCTGCATGAGCAAGCATCATTTTACCA
TTTGCATCACCAATGCAGTACAGGTGAGGAACCAGATTGCCATTTGCATCAATTACTCGCATTC
TCTCATCAACAGGAACGAAACCCCTTTGTGTCACTACGTTAATATTCTCCAAGCCGAGACCATA
AGTGAATGGAGCCCTTCCAGTAGCAATCAAGGCTGCATCTACCTCCAAGGTGTCTTTGTGTTCC
TTGGTCTTGGCGTCAGTAAGCTCAACAATAACAGGCTTTCCATCCCTTGCAGGAGTGATCTTGG
TTGCAAACACTCCGGTATGGTAGTCAATTTTCCTTGGGTTGATCAGCACCCTTTGGGCCAACTT
ACTAATCTCAGGATCAAACCCGGGCATAAGTTGATCTAGAGCTTCAATAAAAGTAAC
						
					

						Genomic sequence
						
							CTTTGCTGATTTGAATAGTTCATCAAGAACTTCCGACAATGTTGGATGTGCGTGAACTGCGAAC
CTGATGTCCTGAATGGTGAAAACAAACACTCATAAGTATTTACAATTTAAAAGCTTAACCGAGC
TTCCAGGAAAGAAAAGTGTGAAGCCAAAATATTTTGGTTTTCACACACAAGACCCACCTGGATT
CGTGTTCCTAAAGCTACGGCATTTGATGCCTCATGGATAAGGTCCGCTGCATGCAAGCCAAAAA
TATGAACTCCAAGAATCTCTCCATTGTCAGGTCTGTAAATCAACTGCATGGAAATAACATACGT
AAAATTTAGCAACTATACCAACAGATTGAGATGAAGTTCAAAAGAGAAAAACAAAAGCAAACAA
AAGGATGAAAAGAGACCATAGTCCATTGTTGATTCTAGCTCTATCAAAGAAATCAAACTTCTTT
CCTCAATACTTTTATTTTAAGAATTCAGCCCTATATATCTTATAAGTTTCAATTAGTTATTTTT
TAGAACTGATAAATTTTTGTTTCCGGCATTTTGTGAAAATTAGGAAACAACATTTTCTACAATG
GAGAACCATGTGAAAGAAATGAAATCAACCCATTGATCATCTGTTAATATCTTTAGAAATGTTC
ATTGATTTAGTTACTGTTCAAGTAAGGTCTCAAGAAATAACCTTTGCAAGTCCCTCGCCTTCGT
TTTCTGCCAGTGCCTTTGTATTAGCCTTGAAACTTGTTTTGGCAACGCTTATTTCAAACCCTTC
CTTCTCAGCTTTCTCTCTTGCTTGAGGCTGTGAAGTTATAGCATTGTCAAATTTTCAGATATTT
TACAGCATAAGAGTACAAAGCACTGAAATGGTGAAAAAAACATAAATGGTCGACTTTGGCAACT
TTTGTAACATCTAGTGTGTGTGTAATTTCTCGTGTCATAATCTTGTTTAAGATATTTTATTTTG
ACAAGTTAATAATTTTTGTTATATAGAATTTGACATGTTCATATATTTGTGTTATGTTCGTATA
CCTTTTTGTGATGTGTTTCATGTACCGTTTTAGTTATTTTTTCTATGTTGATGTCATGATCAAC
ATTGTCAGGTCTAATCAATGGCAATAATATTATGCTAAAATGGAAAAACTGAACCAATTTAACT
TAATAATAAATCAGAAATTGAGGGTGTTTGCAAGTCGGTATTCACCTCTGTCAAACCAACCATA
CTTATTTCAGGGTGAGTGAAGCAAGCTGCTGGGACACTGAGGTGATTAAGCACGTGATCTCTTC
CAGTGACTTGTTCGACGACTGCATCAAGATATTTAAGCAAAAGATGAAATGGATCCAAAAGAAA
ATATCAGCTACGAATTAGCAAAGTATAAGTTAGCAGGCACTTACCCGAAATTCCTTGTGCACTT
GCTGCATGAGCAAGCATCATTTTACCATTTGCATCACCAATGCAGTACAGGTGAGGAACCTAGC
ATTCCAACTCTAAATTAATGTTTGTTGAAAGTCAACAAGGGAAAATATACAGTCAGAAATATTT
TTCAAACATACCAGATTGCCATTTGCATCAATTACTCGCATTCTCTCATCAACAGGAACGAAAC
CCCTTTGTGTCACTACGTTAATCTGATCAAAAGGAATACATAAATTTAAATCCATTTCCTTTTA
ATGAACAATCTCATATAATCCTATGATATTCATGAAGACATACATTCTCCAAGCCGAGACCATA
AGTGAATGGAGCCCTTCCAGTAGCAATCAAGGCTGCATCTACCTGTAGCAAATGACAGAAAAAG
GGTCACTCAAACAGATACCATTGACCTCAATCAAGCAGAGCCACAACTTACAAATGGGAAAAGC
AAATAGAAGATAACAGGGATATAGATTTGACATCAGGAAAAGCATCATATGGCAGAAAATTCAG
TACATGATAACATTGTCTAGAAAGAAAATATGCTGCCATAACTACCAAACAGAATGGGCATATT
CCAAGAATTCCACACAAAAGAACATATGCACATACCTCCAAGGTGTCTTTGTGTTCCTTGGTCT
TGGCGTCAGTAAGCTCAACAATAACAGGCTTTCCATCCCTTGCAGGAGTGATCTATAAATAGCA
AGAAAGTAATCAATAACCATTTATTGAACAGCCAGCCAGAATGCACACAGATTTAAACAGTAGA
ATGCCTTGGTTGCAAACACTCCGGTATGGTAGTCAATTTTCCTTGGGTTGATCAGCACCCTTTG
GGCCAACTTACTAATCTCAGGATCAAACCCGGGCATAAGTTGATCTAGAGCTTCAATAAAAGTA
AC
						
					

			
		

Sequences
Splice junction sequence	AGTCAATTTTCCTTGGGTTGATCAGCACCCTTTGGGCCAACTTACTAATCTCAGGATCAAACCC GGGCATAAGTTGATCTAGAGCTTCAATAAAAGTAACctttgctgatttgaatagttcatcaaga acttccgacaatgttggatgtgcgtgaactgcgaacctgatgtcctgaatggtgaaaacaaaca ctcataag
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: 825 Transcript exons: 30425417-30425488,30425602-30425715,30426098-30426211,30 426614-30426714,30426805-30426883,30426964-30427038,3042 7124-30427186,30427436-30427516,30427597-30427722 CTTTGCTGATTTGAATAGTTCATCAAGAACTTCCGACAATGTTGGATGTGCGTGAACTGCGAAC CTGATGTCCTGGATTCGTGTTCCTAAAGCTACGGCATTTGATGCCTCATGGATAAGGTCCGCTG CATGCAAGCCAAAAATATGAACTCCAAGAATCTCTCCATTGTCAGGTCTGTAAATCAACTTTGC AAGTCCCTCGCCTTCGTTTTCTGCCAGTGCCTTTGTATTAGCCTTGAAACTTGTTTTGGCAACG CTTATTTCAAACCCTTCCTTCTCAGCTTTCTCTCTTGCTTGAGGCTCTGTCAAACCAACCATAC TTATTTCAGGGTGAGTGAAGCAAGCTGCTGGGACACTGAGGTGATTAAGCACGTGATCTCTTCC AGTGACTTGTTCGACGACCGAAATTCCTTGTGCACTTGCTGCATGAGCAAGCATCATTTTACCA TTTGCATCACCAATGCAGTACAGGTGAGGAACCAGATTGCCATTTGCATCAATTACTCGCATTC TCTCATCAACAGGAACGAAACCCCTTTGTGTCACTACGTTAATATTCTCCAAGCCGAGACCATA AGTGAATGGAGCCCTTCCAGTAGCAATCAAGGCTGCATCTACCTCCAAGGTGTCTTTGTGTTCC TTGGTCTTGGCGTCAGTAAGCTCAACAATAACAGGCTTTCCATCCCTTGCAGGAGTGATCTTGG TTGCAAACACTCCGGTATGGTAGTCAATTTTCCTTGGGTTGATCAGCACCCTTTGGGCCAACTT ACTAATCTCAGGATCAAACCCGGGCATAAGTTGATCTAGAGCTTCAATAAAAGTAAC
Genomic sequence	CTTTGCTGATTTGAATAGTTCATCAAGAACTTCCGACAATGTTGGATGTGCGTGAACTGCGAAC CTGATGTCCTGAATGGTGAAAACAAACACTCATAAGTATTTACAATTTAAAAGCTTAACCGAGC TTCCAGGAAAGAAAAGTGTGAAGCCAAAATATTTTGGTTTTCACACACAAGACCCACCTGGATT CGTGTTCCTAAAGCTACGGCATTTGATGCCTCATGGATAAGGTCCGCTGCATGCAAGCCAAAAA TATGAACTCCAAGAATCTCTCCATTGTCAGGTCTGTAAATCAACTGCATGGAAATAACATACGT AAAATTTAGCAACTATACCAACAGATTGAGATGAAGTTCAAAAGAGAAAAACAAAAGCAAACAA AAGGATGAAAAGAGACCATAGTCCATTGTTGATTCTAGCTCTATCAAAGAAATCAAACTTCTTT CCTCAATACTTTTATTTTAAGAATTCAGCCCTATATATCTTATAAGTTTCAATTAGTTATTTTT TAGAACTGATAAATTTTTGTTTCCGGCATTTTGTGAAAATTAGGAAACAACATTTTCTACAATG GAGAACCATGTGAAAGAAATGAAATCAACCCATTGATCATCTGTTAATATCTTTAGAAATGTTC ATTGATTTAGTTACTGTTCAAGTAAGGTCTCAAGAAATAACCTTTGCAAGTCCCTCGCCTTCGT TTTCTGCCAGTGCCTTTGTATTAGCCTTGAAACTTGTTTTGGCAACGCTTATTTCAAACCCTTC CTTCTCAGCTTTCTCTCTTGCTTGAGGCTGTGAAGTTATAGCATTGTCAAATTTTCAGATATTT TACAGCATAAGAGTACAAAGCACTGAAATGGTGAAAAAAACATAAATGGTCGACTTTGGCAACT TTTGTAACATCTAGTGTGTGTGTAATTTCTCGTGTCATAATCTTGTTTAAGATATTTTATTTTG ACAAGTTAATAATTTTTGTTATATAGAATTTGACATGTTCATATATTTGTGTTATGTTCGTATA CCTTTTTGTGATGTGTTTCATGTACCGTTTTAGTTATTTTTTCTATGTTGATGTCATGATCAAC ATTGTCAGGTCTAATCAATGGCAATAATATTATGCTAAAATGGAAAAACTGAACCAATTTAACT TAATAATAAATCAGAAATTGAGGGTGTTTGCAAGTCGGTATTCACCTCTGTCAAACCAACCATA CTTATTTCAGGGTGAGTGAAGCAAGCTGCTGGGACACTGAGGTGATTAAGCACGTGATCTCTTC CAGTGACTTGTTCGACGACTGCATCAAGATATTTAAGCAAAAGATGAAATGGATCCAAAAGAAA ATATCAGCTACGAATTAGCAAAGTATAAGTTAGCAGGCACTTACCCGAAATTCCTTGTGCACTT GCTGCATGAGCAAGCATCATTTTACCATTTGCATCACCAATGCAGTACAGGTGAGGAACCTAGC ATTCCAACTCTAAATTAATGTTTGTTGAAAGTCAACAAGGGAAAATATACAGTCAGAAATATTT TTCAAACATACCAGATTGCCATTTGCATCAATTACTCGCATTCTCTCATCAACAGGAACGAAAC CCCTTTGTGTCACTACGTTAATCTGATCAAAAGGAATACATAAATTTAAATCCATTTCCTTTTA ATGAACAATCTCATATAATCCTATGATATTCATGAAGACATACATTCTCCAAGCCGAGACCATA AGTGAATGGAGCCCTTCCAGTAGCAATCAAGGCTGCATCTACCTGTAGCAAATGACAGAAAAAG GGTCACTCAAACAGATACCATTGACCTCAATCAAGCAGAGCCACAACTTACAAATGGGAAAAGC AAATAGAAGATAACAGGGATATAGATTTGACATCAGGAAAAGCATCATATGGCAGAAAATTCAG TACATGATAACATTGTCTAGAAAGAAAATATGCTGCCATAACTACCAAACAGAATGGGCATATT CCAAGAATTCCACACAAAAGAACATATGCACATACCTCCAAGGTGTCTTTGTGTTCCTTGGTCT TGGCGTCAGTAAGCTCAACAATAACAGGCTTTCCATCCCTTGCAGGAGTGATCTATAAATAGCA AGAAAGTAATCAATAACCATTTATTGAACAGCCAGCCAGAATGCACACAGATTTAAACAGTAGA ATGCCTTGGTTGCAAACACTCCGGTATGGTAGTCAATTTTCCTTGGGTTGATCAGCACCCTTTG GGCCAACTTACTAATCTCAGGATCAAACCCGGGCATAAGTTGATCTAGAGCTTCAATAAAAGTA AC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.444288125

Conservation Information
Conserved circRNAs	NA
PMCS	0.444288125

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							30425722-30426088(-)
						
						Potential amino acid sequence
						
							MQLIYRPDNGEILGVHIFGLHAADLIHEASNAVALGTRIQDIRFAVHAHPTLSEVLDELFKSAK
VTFIEALDQLMPGFDPEISKLAQRVLINPRKIDYHTGVFATKITPARDGKPVIVELTDAKTKEH
KDTLEVDAALIATGRAPFTYGLGLENINVVTQRGFVPVDERMRVIDANGNLVPHLYCIGDANGK
MMLAHAASAQGISVVEQVTGRDHVLNHLSVPAACFTHPEISMVGLTEPQAREKAEKEGFEISVA
KTSFKANTKALAENEGEGLAKVIS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	30425722-30426088(-)
Potential amino acid sequence	MQLIYRPDNGEILGVHIFGLHAADLIHEASNAVALGTRIQDIRFAVHAHPTLSEVLDELFKSAK VTFIEALDQLMPGFDPEISKLAQRVLINPRKIDYHTGVFATKITPARDGKPVIVELTDAKTKEH KDTLEVDAALIATGRAPFTYGLGLENINVVTQRGFVPVDERMRVIDANGNLVPHLYCIGDANGK MMLAHAASAQGISVVEQVTGRDHVLNHLSVPAACFTHPEISMVGLTEPQAREKAEKEGFEISVA KTSFKANTKALAENEGEGLAKVIS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.006G079100_circ_g.1

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