Plant Circular RNA Database

Detail information of orai.013G107700_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.013G107700_circ_g.1
					
						ID in PlantcircBase
						gra_circ_001385
					
						Alias
						Chr13:23365039|23366583
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr13: 23365039-23366583  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.013G107700						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.013G107700_circ_g.2 orai.013G107700_circ_g.3 orai.013G107700_circ_g.4 orai.013G107700_circ_g.5 						
					
						Support reads
						5
					
						Tissues
						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.013G107700.2:4
Gorai.013G107700.3:4
Gorai.013G107700.1:5

General Information
CircRNA Name	orai.013G107700_circ_g.1
ID in PlantcircBase	gra_circ_001385
Alias	Chr13:23365039\|23366583
Organism	Gossypium raimondii
Position	chrChr13: 23365039-23366583 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.013G107700
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.013G107700_circ_g.2 orai.013G107700_circ_g.3 orai.013G107700_circ_g.4 orai.013G107700_circ_g.5
Support reads	5
Tissues	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.013G107700.2:4 Gorai.013G107700.3:4 Gorai.013G107700.1:5

			
						 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  
						
							GTGAAACACAAAAGCGGAAGTTTTTGAACCCAGGAAATGGAATTTGACAGGGAAGTGGCGAATA
GAGAATATGTCTTCCAACATCCAGCAAGCATCCATCctgagactctgtttgcgtttcactgaaa
ccaccatataggcttcccgcattcacatctctggaatgactgctgatttcatcttttctcacat
tcctggaa

									
								

					

						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: 948
Transcript exons: 23365039-23365132,23365392-23365477,23365573-23365617,23
365712-23366143,23366293-23366583
CTGAGACTCTGTTTGCGTTTCACTGAAACCACCATATAGGCTTCCCGCATTCACATCTCTGGAA
TGACTGCTGATTTCATCTTTTCTCACATTCCGGTTTAACCAGTGTCGAGATAACCCAATAACAG
AATGAGGATCTGTATGATCTTGACGAAGGCCAGTACAATCAGATAAAAATATACTTCTGTCACA
CCCATTCCTCTCTGGTGACTTCTGATCATGAATCTTACTAGTTTGCTCCAGTAAGTCTATAACA
GTATCTACATCAGGCAAAACTTGAGCAGCTTCACCTGCATTTTTTAATTTGTTGTTTCCAGTAG
AATTTTCATTCAGAAAAGGCTCGCATAAATGCACTCGAGAAACAAGCAGATCATTCTGGTCATC
ATCTTCTAAGTGCCTTGCCCTTTTAAAATGATCATTTGATTGTTCGGCCTCATCTCTAGAGCCA
TCATTTCTATCACCAGTAATGCTTCCCATTTTAACACCAAGATCTTGTGTTCTCAGACCCTGAG
GTTGACTAGTAAACTGAGAGGGAACATCTACAGCAATCATTTTAGCAGCTTGAGTTGGAAACTG
GCTCACAGTGCATAATCCTGCTTCTTGGTCTTGAGCAGTAACTTCTTTAGGGCAAAATGGATCC
AGAGATACTACTTTATTCTGCCTTACACATTCATAAATCCACTCTGATGTAACTGACTGTATTC
CCCATTTACAAGCAGCCTCATATTTCGGTCCACTAGTAAACTTGCACAACAAATGAGTCACCTT
TTTTGTAAGTTTTTCCACAAACTTAGCTCCAAGAATAAAACATAGATTTCTTAATAGCAATCTA
TCCTTCTCTTCATATTGTGAAACACAAAAGCGGAAGTTTTTGAACCCAGGAAATGGAATTTGAC
AGGGAAGTGGCGAATAGAGAATATGTCTTCCAACATCCAGCAAGCATCCATC
						
					

						Genomic sequence
						
							CTGAGACTCTGTTTGCGTTTCACTGAAACCACCATATAGGCTTCCCGCATTCACATCTCTGGAA
TGACTGCTGATTTCATCTTTTCTCACATTCCTGGAAAGAAAAAAAAATTAGGTCAATGGGAGAT
GAGAATGAAATGATTTTTGCTTGCTATAATGAAATATAATTCCCCACTGGCCTTGCAATTGTCC
CAAAATTCAGTAGGTTCTTTCTTGATTAAGCTTTCTGGCAAATGCAAGGCAGTCAACTAAAGTT
CAGATATTAATACTTTACTTTTTTTGGTTCAACTAAGACGGTAATATTAAAATGTTAAAAGGGA
GAGCAATTATTTGGTAATCGTATAACAAGGTACCGGTTTAACCAGTGTCGAGATAACCCAATAA
CAGAATGAGGATCTGTATGATCTTGACGAAGGCCAGTACAATCAGATAAAAATATCTGCTCCAC
ATCAAGGATTGATAACATAAAGAAACTTATATAAGAGATAAAGAGTAGACATCTAGACATTGAA
AACTCAACAAATACAAGGATACACTTCTGTCACACCCATTCCTCTCTGGTGACTTCTGATCATG
AATCTTGAAAAGAAGCATAGATAATTGAGTCAGCCAACCAGCTATCTTGAACAATAAAACAATT
AGGTGATACAGTTAGAGGAACAACAATATTCACCTTACTAGTTTGCTCCAGTAAGTCTATAACA
GTATCTACATCAGGCAAAACTTGAGCAGCTTCACCTGCATTTTTTAATTTGTTGTTTCCAGTAG
AATTTTCATTCAGAAAAGGCTCGCATAAATGCACTCGAGAAACAAGCAGATCATTCTGGTCATC
ATCTTCTAAGTGCCTTGCCCTTTTAAAATGATCATTTGATTGTTCGGCCTCATCTCTAGAGCCA
TCATTTCTATCACCAGTAATGCTTCCCATTTTAACACCAAGATCTTGTGTTCTCAGACCCTGAG
GTTGACTAGTAAACTGAGAGGGAACATCTACAGCAATCATTTTAGCAGCTTGAGTTGGAAACTG
GCTCACAGTGCATAATCCTGCTTCTTGGTCTTGAGCAGTAACTTCTTTAGGGCAAAATGGATCC
AGAGATACTACTTTATTCTACGAGATTTAAATTGAACACATGAATTTTGTTGATCTTATCATTT
CTAAGGAAAAACAACAAAAATTCAGGGCAGACATGATTGGAAATGCATAACTGCGCAGATGAGC
GCAGAGAGAGAGAGAGAGAGAAAGAATCAGAACCTTACCTGCCTTACACATTCATAAATCCACT
CTGATGTAACTGACTGTATTCCCCATTTACAAGCAGCCTCATATTTCGGTCCACTAGTAAACTT
GCACAACAAATGAGTCACCTTTTTTGTAAGTTTTTCCACAAACTTAGCTCCAAGAATAAAACAT
AGATTTCTTAATAGCAATCTATCCTTCTCTTCATATTGTGAAACACAAAAGCGGAAGTTTTTGA
ACCCAGGAAATGGAATTTGACAGGGAAGTGGCGAATAGAGAATATGTCTTCCAACATCCAGCAA
GCATCCATC
						
					

			
		

Sequences
Splice junction sequence	GTGAAACACAAAAGCGGAAGTTTTTGAACCCAGGAAATGGAATTTGACAGGGAAGTGGCGAATA GAGAATATGTCTTCCAACATCCAGCAAGCATCCATCctgagactctgtttgcgtttcactgaaa ccaccatataggcttcccgcattcacatctctggaatgactgctgatttcatcttttctcacat tcctggaa
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: 948 Transcript exons: 23365039-23365132,23365392-23365477,23365573-23365617,23 365712-23366143,23366293-23366583 CTGAGACTCTGTTTGCGTTTCACTGAAACCACCATATAGGCTTCCCGCATTCACATCTCTGGAA TGACTGCTGATTTCATCTTTTCTCACATTCCGGTTTAACCAGTGTCGAGATAACCCAATAACAG AATGAGGATCTGTATGATCTTGACGAAGGCCAGTACAATCAGATAAAAATATACTTCTGTCACA CCCATTCCTCTCTGGTGACTTCTGATCATGAATCTTACTAGTTTGCTCCAGTAAGTCTATAACA GTATCTACATCAGGCAAAACTTGAGCAGCTTCACCTGCATTTTTTAATTTGTTGTTTCCAGTAG AATTTTCATTCAGAAAAGGCTCGCATAAATGCACTCGAGAAACAAGCAGATCATTCTGGTCATC ATCTTCTAAGTGCCTTGCCCTTTTAAAATGATCATTTGATTGTTCGGCCTCATCTCTAGAGCCA TCATTTCTATCACCAGTAATGCTTCCCATTTTAACACCAAGATCTTGTGTTCTCAGACCCTGAG GTTGACTAGTAAACTGAGAGGGAACATCTACAGCAATCATTTTAGCAGCTTGAGTTGGAAACTG GCTCACAGTGCATAATCCTGCTTCTTGGTCTTGAGCAGTAACTTCTTTAGGGCAAAATGGATCC AGAGATACTACTTTATTCTGCCTTACACATTCATAAATCCACTCTGATGTAACTGACTGTATTC CCCATTTACAAGCAGCCTCATATTTCGGTCCACTAGTAAACTTGCACAACAAATGAGTCACCTT TTTTGTAAGTTTTTCCACAAACTTAGCTCCAAGAATAAAACATAGATTTCTTAATAGCAATCTA TCCTTCTCTTCATATTGTGAAACACAAAAGCGGAAGTTTTTGAACCCAGGAAATGGAATTTGAC AGGGAAGTGGCGAATAGAGAATATGTCTTCCAACATCCAGCAAGCATCCATC
Genomic sequence	CTGAGACTCTGTTTGCGTTTCACTGAAACCACCATATAGGCTTCCCGCATTCACATCTCTGGAA TGACTGCTGATTTCATCTTTTCTCACATTCCTGGAAAGAAAAAAAAATTAGGTCAATGGGAGAT GAGAATGAAATGATTTTTGCTTGCTATAATGAAATATAATTCCCCACTGGCCTTGCAATTGTCC CAAAATTCAGTAGGTTCTTTCTTGATTAAGCTTTCTGGCAAATGCAAGGCAGTCAACTAAAGTT CAGATATTAATACTTTACTTTTTTTGGTTCAACTAAGACGGTAATATTAAAATGTTAAAAGGGA GAGCAATTATTTGGTAATCGTATAACAAGGTACCGGTTTAACCAGTGTCGAGATAACCCAATAA CAGAATGAGGATCTGTATGATCTTGACGAAGGCCAGTACAATCAGATAAAAATATCTGCTCCAC ATCAAGGATTGATAACATAAAGAAACTTATATAAGAGATAAAGAGTAGACATCTAGACATTGAA AACTCAACAAATACAAGGATACACTTCTGTCACACCCATTCCTCTCTGGTGACTTCTGATCATG AATCTTGAAAAGAAGCATAGATAATTGAGTCAGCCAACCAGCTATCTTGAACAATAAAACAATT AGGTGATACAGTTAGAGGAACAACAATATTCACCTTACTAGTTTGCTCCAGTAAGTCTATAACA GTATCTACATCAGGCAAAACTTGAGCAGCTTCACCTGCATTTTTTAATTTGTTGTTTCCAGTAG AATTTTCATTCAGAAAAGGCTCGCATAAATGCACTCGAGAAACAAGCAGATCATTCTGGTCATC ATCTTCTAAGTGCCTTGCCCTTTTAAAATGATCATTTGATTGTTCGGCCTCATCTCTAGAGCCA TCATTTCTATCACCAGTAATGCTTCCCATTTTAACACCAAGATCTTGTGTTCTCAGACCCTGAG GTTGACTAGTAAACTGAGAGGGAACATCTACAGCAATCATTTTAGCAGCTTGAGTTGGAAACTG GCTCACAGTGCATAATCCTGCTTCTTGGTCTTGAGCAGTAACTTCTTTAGGGCAAAATGGATCC AGAGATACTACTTTATTCTACGAGATTTAAATTGAACACATGAATTTTGTTGATCTTATCATTT CTAAGGAAAAACAACAAAAATTCAGGGCAGACATGATTGGAAATGCATAACTGCGCAGATGAGC GCAGAGAGAGAGAGAGAGAGAAAGAATCAGAACCTTACCTGCCTTACACATTCATAAATCCACT CTGATGTAACTGACTGTATTCCCCATTTACAAGCAGCCTCATATTTCGGTCCACTAGTAAACTT GCACAACAAATGAGTCACCTTTTTTGTAAGTTTTTCCACAAACTTAGCTCCAAGAATAAAACAT AGATTTCTTAATAGCAATCTATCCTTCTCTTCATATTGTGAAACACAAAAGCGGAAGTTTTTGA ACCCAGGAAATGGAATTTGACAGGGAAGTGGCGAATAGAGAATATGTCTTCCAACATCCAGCAA GCATCCATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.570212487

Conservation Information
Conserved circRNAs	NA
PMCS	0.570212487

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23365089-23366456(-)
23366554-23365074(+)
23366520-23365061(+)
						
						Potential amino acid sequence
						
							MREAYMVVSVKRKQSLRMDACWMLEDIFSIRHFPVKFHFLGSKTSAFVFHNMKRRIDCY*(-)
MSSNIQQASILRLCLRFTETTI*(+)
MEFDREVANREYVFQHPASIHPETLFAFH*(+)
						
						Sponge-miRNAs
						
							gra-miR8684 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23365089-23366456(-) 23366554-23365074(+) 23366520-23365061(+)
Potential amino acid sequence	MREAYMVVSVKRKQSLRMDACWMLEDIFSIRHFPVKFHFLGSKTSAFVFHNMKRRIDCY(-) MSSNIQQASILRLCLRFTETTI(+) MEFDREVANREYVFQHPASIHPETLFAFH*(+)
Sponge-miRNAs	gra-miR8684
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.013G107700_circ_g.1

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