Plant Circular RNA Database

Detail information of orai.005G116600_circ_g.4

			
						 General Information
					
						CircRNA Name
						orai.005G116600_circ_g.4
					
						ID in PlantcircBase
						gra_circ_000471
					
						Alias
						Chr05:23220429|23225529
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr05: 23220429-23225529  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.005G116600						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.005G116600_circ_g.3 						
					
						Support reads
						2
					
						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.005G116600.6:6
Gorai.005G116600.3:6
Gorai.005G116600.9:6
Gorai.005G116600.1:6
Gorai.005G116600.2:6
Gorai.005G116600.10:4
Gorai.005G116600.7:6
Gorai.005G116600.5:6
Gorai.005G116600.4:6
Gorai.005G116600.8:6

General Information
CircRNA Name	orai.005G116600_circ_g.4
ID in PlantcircBase	gra_circ_000471
Alias	Chr05:23220429\|23225529
Organism	Gossypium raimondii
Position	chrChr05: 23220429-23225529 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.005G116600
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.005G116600_circ_g.3
Support reads	2
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.005G116600.6:6 Gorai.005G116600.3:6 Gorai.005G116600.9:6 Gorai.005G116600.1:6 Gorai.005G116600.2:6 Gorai.005G116600.10:4 Gorai.005G116600.7:6 Gorai.005G116600.5:6 Gorai.005G116600.4:6 Gorai.005G116600.8:6

			
						 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  
						
							AATCCATGCCCCCTTTTCGAGCAAACCAGTGACCCCTTAGGACACGCCGAGTTTCTCCATTCCA
GTATACGGGGAAACAGTGTCTCTTAACTAAATCCACcgagtcaataatgctctgacagtaaata
ggactcatgtagtataacacatcatgagcagtagcgctcagcataactcgcaaaccccgcacac
catctagg

						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: 753
Transcript exons: 23220429-23220578,23223388-23223558,23224520-23224570,23
224736-23224888,23224979-23225050,23225374-23225529
CGAGTCAATAATGCTCTGACAGTAAATAGGACTCATGTAGTATAACACATCATGAGCAGTAGCG
CTCAGCATAACTCGCAAACCCCGCACACCATCTAGGGTGATTTTGTCAACTGCAGCTTCCCCAC
TGAGCTTCAAGCCTTTTCTCCACTGACATGGGATGAAAAGGACTCTCTGTTTGCGTCGTTGATG
TGAAGTCAGGTGTCGCTCAGCAAGGCTTGCTGTGATATGGCGAAAGTTGCCAACATCATCAACC
AAATTAGATTTCTCCAACCTCTGACCAATACCATGGACCATAAAGACCAAGTGTCGAACAGGAA
CCTGAGAACAATAATCGTCCATCTGTTCCTCTTTTCTTTGACGTAATTCATCCTGGGTTGGTTT
GGGGGATTGAGAAGCAGAGTAACCACGTCTTAACTTGATTCCATTTCGACTGAAACTAATAACA
CCAGAAAAACCAGAAGCATCAACATTGAGCCATGCCTCCCAAGTATCATCTTCTCCAGTAAAAA
GTGCATGAAGTCCTGGGGTAGAGCCTTGCAAATCAACTCTAGCTGCAAAAAGTCCCGATGGTTG
AAATTTTCTTCGATGCCAAACCTGGCTGCGATATGCAATCTCTAATTGTTCAGCTACATCTTCA
CGGAGTGGAAGCCAATCCATGCCCCCTTTTCGAGCAAACCAGTGACCCCTTAGGACACGCCGAG
TTTCTCCATTCCAGTATACGGGGAAACAGTGTCTCTTAACTAAATCCAC
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	AATCCATGCCCCCTTTTCGAGCAAACCAGTGACCCCTTAGGACACGCCGAGTTTCTCCATTCCA GTATACGGGGAAACAGTGTCTCTTAACTAAATCCACcgagtcaataatgctctgacagtaaata ggactcatgtagtataacacatcatgagcagtagcgctcagcataactcgcaaaccccgcacac catctagg
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: 753 Transcript exons: 23220429-23220578,23223388-23223558,23224520-23224570,23 224736-23224888,23224979-23225050,23225374-23225529 CGAGTCAATAATGCTCTGACAGTAAATAGGACTCATGTAGTATAACACATCATGAGCAGTAGCG CTCAGCATAACTCGCAAACCCCGCACACCATCTAGGGTGATTTTGTCAACTGCAGCTTCCCCAC TGAGCTTCAAGCCTTTTCTCCACTGACATGGGATGAAAAGGACTCTCTGTTTGCGTCGTTGATG TGAAGTCAGGTGTCGCTCAGCAAGGCTTGCTGTGATATGGCGAAAGTTGCCAACATCATCAACC AAATTAGATTTCTCCAACCTCTGACCAATACCATGGACCATAAAGACCAAGTGTCGAACAGGAA CCTGAGAACAATAATCGTCCATCTGTTCCTCTTTTCTTTGACGTAATTCATCCTGGGTTGGTTT GGGGGATTGAGAAGCAGAGTAACCACGTCTTAACTTGATTCCATTTCGACTGAAACTAATAACA CCAGAAAAACCAGAAGCATCAACATTGAGCCATGCCTCCCAAGTATCATCTTCTCCAGTAAAAA GTGCATGAAGTCCTGGGGTAGAGCCTTGCAAATCAACTCTAGCTGCAAAAAGTCCCGATGGTTG AAATTTTCTTCGATGCCAAACCTGGCTGCGATATGCAATCTCTAATTGTTCAGCTACATCTTCA CGGAGTGGAAGCCAATCCATGCCCCCTTTTCGAGCAAACCAGTGACCCCTTAGGACACGCCGAG TTTCTCCATTCCAGTATACGGGGAAACAGTGTCTCTTAACTAAATCCAC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.852901269

Conservation Information
Conserved circRNAs	NA
PMCS	0.852901269

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23225437-23220431(-)
						
						Potential amino acid sequence
						
							MDWLPLREDVAEQLEIAYRSQVWHRRKFQPSGLFAARVDLQGSTPGLHALFTGEDDTWEAWLNV
DASGFSGVISFSRNGIKLRRGYSASQSPKPTQDELRQRKEEQMDDYCSQVPVRHLVFMVHGIGQ
RLEKSNLVDDVGNFRHITASLAERHLTSHQRRKQRVLFIPCQWRKGLKLSGEAAVDKITLDGVR
GLRVMLSATAHDVLYYMSPIYCQSIIDSVDLVKRHCFPVYWNGETRRVLRGHWFARKGGMDWLP
LREDVAEQLEIAYRSQVWHRRKFQPSGLFAARVDLQGSTPGLHALFTGEDDTWEAWLNVDASGF
SGVISFSRNGIKLRRGYSASQSPKPTQDELRQRKEEQMDDYCSQVPVRHLVFMVHGIGQRLEKS
NLVDDVGNFRHITASLAERHLTSHQRRKQRVLFIPCQWRKGLKLSGEAAVDKITLDGVRGLRVM
LSATAHDVLYYMSPIYCQSIIDSVDLVKRHCFPVYWNGETRRVLRGHWFARKGGMDWLPLREDV
AEQLEIAYRSQVWHRRKFQPSGLFAARVDLQGSTPGLHALFTGEDDTWEAWLNVDASGFSGVIS
FSRNGIKLRRGYSASQSPKPTQDELRQRKEEQMDDYCSQVPVRHLVFMVHGIGQRLEKSNLVDD
VGNFRHITASLAERHLTSHQRRKQRVLFIPCQWRKGLKLSGEAAVDKITLDGVRGLRVMLSATA
HDVLYYMSPIYCQSIIDSVDLVKRHCFPVYWNGETRRVLRGHWFARKGGMDWLPLREDVAEQLE
IAYRSQVWHRRKFQPSGLFAARVDLQGSTPGLHALFTGEDDTWEAWLNVDASGFSGVISFSRNG
IKLRRGYSASQSPKPTQDELRQRKEEQMDDYCSQVPVRHLVFMVHGIGQRLEKSNLVDDVGNFR
HITASLAERHLTSHQRRKQRVLFIPCQWRKGLKLSGEAAVDKITLDGVRGLRVMLSATAHDVLY
YMSPIYCQSIIDS(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23225437-23220431(-)
Potential amino acid sequence	MDWLPLREDVAEQLEIAYRSQVWHRRKFQPSGLFAARVDLQGSTPGLHALFTGEDDTWEAWLNV DASGFSGVISFSRNGIKLRRGYSASQSPKPTQDELRQRKEEQMDDYCSQVPVRHLVFMVHGIGQ RLEKSNLVDDVGNFRHITASLAERHLTSHQRRKQRVLFIPCQWRKGLKLSGEAAVDKITLDGVR GLRVMLSATAHDVLYYMSPIYCQSIIDSVDLVKRHCFPVYWNGETRRVLRGHWFARKGGMDWLP LREDVAEQLEIAYRSQVWHRRKFQPSGLFAARVDLQGSTPGLHALFTGEDDTWEAWLNVDASGF SGVISFSRNGIKLRRGYSASQSPKPTQDELRQRKEEQMDDYCSQVPVRHLVFMVHGIGQRLEKS NLVDDVGNFRHITASLAERHLTSHQRRKQRVLFIPCQWRKGLKLSGEAAVDKITLDGVRGLRVM LSATAHDVLYYMSPIYCQSIIDSVDLVKRHCFPVYWNGETRRVLRGHWFARKGGMDWLPLREDV AEQLEIAYRSQVWHRRKFQPSGLFAARVDLQGSTPGLHALFTGEDDTWEAWLNVDASGFSGVIS FSRNGIKLRRGYSASQSPKPTQDELRQRKEEQMDDYCSQVPVRHLVFMVHGIGQRLEKSNLVDD VGNFRHITASLAERHLTSHQRRKQRVLFIPCQWRKGLKLSGEAAVDKITLDGVRGLRVMLSATA HDVLYYMSPIYCQSIIDSVDLVKRHCFPVYWNGETRRVLRGHWFARKGGMDWLPLREDVAEQLE IAYRSQVWHRRKFQPSGLFAARVDLQGSTPGLHALFTGEDDTWEAWLNVDASGFSGVISFSRNG IKLRRGYSASQSPKPTQDELRQRKEEQMDDYCSQVPVRHLVFMVHGIGQRLEKSNLVDDVGNFR HITASLAERHLTSHQRRKQRVLFIPCQWRKGLKLSGEAAVDKITLDGVRGLRVMLSATAHDVLY YMSPIYCQSIIDS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.005G116600_circ_g.4

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