Plant Circular RNA Database

Detail information of orai.002G147500_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G147500_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000167
					
						Alias
						Chr02:27553298|27556481
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 27553298-27556481  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G147500						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.002G147300_circ_g.1 orai.002G147300_circ_ag.1 						
					
						Support reads
						8/43
					
						Tissues
						leaf/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.002G147500.1:6
Gorai.002G147500.2:6

General Information
CircRNA Name	orai.002G147500_circ_g.1
ID in PlantcircBase	gra_circ_000167
Alias	Chr02:27553298\|27556481
Organism	Gossypium raimondii
Position	chrChr02: 27553298-27556481 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G147500
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.002G147300_circ_g.1 orai.002G147300_circ_ag.1
Support reads	8/43
Tissues	leaf/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.002G147500.1:6 Gorai.002G147500.2:6

			
						 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  
						
							ATGAGGTTGGCTGAATATTTGTCTTCATAGAATTTAAGGAGTTCTTGCCTTGTGTCTACTCCCT
TTGCTTTTGGTCTAACATATAAAGTATCCCAATTCCctgcatgtttgatgaaatatttagaaca
tagtacataggagagattttgtccttatagtgaaatcctgtctcgcaaatagctgatagcttca
ttcacaaa

									
								

					

						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: 665
Transcript exons: 27553298-27553384,27554244-27554329,27554499-27554591,27
555810-27555972,27556130-27556242,27556359-27556481
CTGCATGTTTGATGAAATATTTAGAACATAGTACATAGGAGAGATTTTGTCCTTATAGTGAAAT
CCTGTCTCGCAAATAGCTGATAGCTCATCAAATATCCATTTACAAACACCAGATTCCTGCAACA
GCTGAATATATCTAAATAGTAACCCGATTACATCTTGCATGCGATCCTGGCCAGCATCAGTAAG
ACCAATTACTACTTTGAAGAAAGAAAACTCTGAAGTGCAAACACCTTCACCAGCAGACAATCCA
GTAGCCCATCCTAATCTTTTCAAGACATAAAATAAAGATCCTTCTCCTTTATGGCCAATGAGAT
GACCAAGATACTTGCATGGCCCGTCTTTGTAATGAAGAATGCTGGGAGTAATTGGCCATACAAT
CCTTAATTTGTGGCCTTGTTTTACTGGAACAGCTCTGACAAGAATCTGAAGGTGTTCTGATGTG
CAAGGCTGACCAGGAAACTGGAAATGGCTTCTATCAGAGTTTTGAATTTCCTGGAACTTGTCCT
CCACCAGACATTGAATTTTATCAAGGCTTTCTTTTGAATAAACAACCAGATGCATGAGGTTGGC
TGAATATTTGTCTTCATAGAATTTAAGGAGTTCTTGCCTTGTGTCTACTCCCTTTGCTTTTGGT
CTAACATATAAAGTATCCCAATTCC
						
					

						Genomic sequence
						
							CTGCATGTTTGATGAAATATTTAGAACATAGTACATAGGAGAGATTTTGTCCTTATAGTGAAAT
CCTGTCTCGCAAATAGCTGATAGCTTCATTCACAAACTAAAATATCTTAGAATCATTAATATAA
AGACATACAGGCCACCACTAAAATCAAACCATTGATGCACATAAAATAAATTGACACATTGAGC
AAAATCTCAACATGAATACAGACACCACCTTGACCGATGCGCCTATAGATATGAAAGCTGATCA
AGTCGTCTTACACTTGTTCTTATGTTTCAAACAAAGGGGGAAAAAGAGCCCCACGGAGAGTTTC
AAAATGATAAACATGAAAATTTTCAATTCTATTACACAAATATTAACCATTAATCATAGGGTAA
TCAACTGATTTTTGACTGATAAAGAATCTGCAATAGAAGTTCTCTCCCCCCCGCCCCCCAAAAT
AAAAAAAAATCTGATCCTGTATATTATTTTATATAATAAAAAAAAAACCCACTCTCTCATACTG
TTCACAGCATAAAACCTCTGCCTCTGAACTGTAAATAACTTTCTTCTTTGTAGCCTTAGTCACA
TTCCTTTCCATCATCAACCCTTATCCTTACCCATATTTTAAAATAATTCCCATAAGCCAAAAAA
CTTAAGGACAAAATAAATCCTAATCTTCTTTTTTTCCCCCTGCCAAAAGAGTTAACTCTAAGAG
AGCAATATTTCCCCTAAAGAGGTTATACACAAGCCCAAAGTTACAAATCCAGACATTTGTTTTC
ACAAGATCTAATGAACTGCAGTATGCTATCAATCAAAAAGCAGTCCGTGGGTAAGTTAAAACAG
ACATATGATCACATATGCAAGCAACAAAGACATATTCAAGTGATGATAAACAGTTGCAATGAAT
GGTAAAATAACTCCTAAAAGAATTATATTTTAAGTATAATATATGCATACCTCATCAAATATCC
ATTTACAAACACCAGATTCCTGCAACAGCTGAATATATCTAAATAGTAACCCGATTACATCTTG
CATGCGATCTGAAATTTACTCAACGGAAAACAATATTAGTCAAGTAAAAGACATCATTTTTTCC
CACACAAACTTTACAAGCCTTTGTAATCTTTACCATTAAAGAAGACTCCAATGATTAAAAGCAT
ATCAAACACCATATGATATAAGAGAGGATGTTAAAAAATAAAAACTAACCCTGGCCAGCATCAG
TAAGACCAATTACTACTTTGAAGAAAGAAAACTCTGAAGTGCAAACACCTTCACCAGCAGACAA
TCCAGTAGCCCATCCTACAAAGTTCCATACATATGCATGTACAAAATTCACTAAATATAAACAC
ATAATTATGACATATGATGTCCTTAGACATAAATAAATAAATATGTATATGCAAATAGACGTTA
TGTATGCATTCCTCATAAAAGGACAAAATAGAGGGGAAAATGGAAACAAAAGGGGGGGCGGGGG
TTTCTGCATGATGCCTATTTGTGCATGTCTGCACATTCAAACTTGAGCTAATGCTGCTAAGTCA
TTTAATGATTCCGCTCTCCTAAGCTGCAATAACCAAATACCAAGCAATGGCCAACAAAAACATA
TCCTAGTGCAATGTACACATATCATGGTCTTCGCACAATAACTGCATACCTAAAGGATACTTAA
ATTTTAAGAAACTTATTGAAGAATTCAAGTTAAACAAATCCCAATTTGACACAGAACAGATTAG
GAAAATACTTAATACCAACCAAAACTATAGTTTGACGAGATCTCCAAAAGATTTATGCAGTATG
AATAACAACTGGATTCAAAATGCAGCAACATACTATGCAAAACTTCAACTTGTATTTCCACTTC
CATGAAAAGTTAAAAAGTGCTGTCAATTGCATTAAATGCAATGAAAGAAGAGAAATAGCTCTTA
CAATAAAAAAGAGATCAAAGGAACCACAAAAGAGAAGTGAAGCATATGGAATAAACTAAATATT
TAAGTAAGGAAGCACATTACTTTTAGGAAAAAACAAAAGATAAACAAATACTCCGATAAAATTT
GTCGTATAGATATAAGATCAAAAGGCCAGTCTAGACTAATAACAAAGCCCATGATTGAGTTCAG
TGTAATGAATGCAGTGACACCAGTGAATTGATGAAAACCCAATCATAATATGAAAAAGGAAATT
GTACTAGTAAGACCATTTGTGATTTACTTTTCCTATGAAGTAGGGTCAGAGTCCATAACCCATT
TACATGCATGTACTCCGTCAGACCAACTTCTCTCTTTCACATTTTAAGACGCCTCAAATTCTTT
CATATTTCATATTGTTCTATTCTTATCTACTTTACCCATATAATGCATATGCATGGACTGGTAT
CTTTTGTATATTTGAACCAAAAGCAAAACATGTCTGCATTTAACCTGGATTTTTAGAGGACGCA
TCCTAAATGTTAGGGAGGCACGAATTTTGAGATATTCCAAATTGGATTATCTAAAGCTTATAAT
GACATGTGCAACCTACCTAATCTTTTCAAGACATAAAATAAAGATCCTTCTCCTTTATGGCCAA
TGAGATGACCAAGATACTTGCATGGCCCGTCTTTGTAATGAAGAATGCTGGGAGTAATTGGCCA
TACAATCCTTAATTTGTGGCCTTGTTTTACTGGAACAGCTCTGACAAGAATCTGCGAATTGAAG
AGAAAAAACGAACAGAAAAGAAACCAGAAAAAAAAAAAGTACCTCTTAGAACATTGAACCTTGC
AGAAGAGTACTGCTTTCTTTGCTCAACACTGTGACAAACATAAGATAACGATGCATAGGCAACA
TAACAGCACCATATACCTGAAGGTGTTCTGATGTGCAAGGCTGACCAGGAAACTGGAAATGGCT
TCTATCAGAGTTTTGAATTTCCTGGAACTTGTCCTCCACCAGACATTGAATTTTATCAAGGCTT
TCTGAAATTACAGAACAAAGAGATGATAATTTTGTTGATTCAAAAAAATATAGCAATAGCTTGT
TTTCTTCTTACCAATGCCAGAGCCCTTAAATTACTGGAAAATTAGTTACCAACCTTTTGAATAA
ACAACCAGATGCATGAGGTTGGCTGAATATTTGTCTTCATAGAATTTAAGGAGTTCTTGCCTTG
TGTCTACTCCCTTTGCTTTTGGTCTAACATATAAAGTATCCCAATTCC
						
					

			
		

Sequences
Splice junction sequence	ATGAGGTTGGCTGAATATTTGTCTTCATAGAATTTAAGGAGTTCTTGCCTTGTGTCTACTCCCT TTGCTTTTGGTCTAACATATAAAGTATCCCAATTCCctgcatgtttgatgaaatatttagaaca tagtacataggagagattttgtccttatagtgaaatcctgtctcgcaaatagctgatagcttca ttcacaaa
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: 665 Transcript exons: 27553298-27553384,27554244-27554329,27554499-27554591,27 555810-27555972,27556130-27556242,27556359-27556481 CTGCATGTTTGATGAAATATTTAGAACATAGTACATAGGAGAGATTTTGTCCTTATAGTGAAAT CCTGTCTCGCAAATAGCTGATAGCTCATCAAATATCCATTTACAAACACCAGATTCCTGCAACA GCTGAATATATCTAAATAGTAACCCGATTACATCTTGCATGCGATCCTGGCCAGCATCAGTAAG ACCAATTACTACTTTGAAGAAAGAAAACTCTGAAGTGCAAACACCTTCACCAGCAGACAATCCA GTAGCCCATCCTAATCTTTTCAAGACATAAAATAAAGATCCTTCTCCTTTATGGCCAATGAGAT GACCAAGATACTTGCATGGCCCGTCTTTGTAATGAAGAATGCTGGGAGTAATTGGCCATACAAT CCTTAATTTGTGGCCTTGTTTTACTGGAACAGCTCTGACAAGAATCTGAAGGTGTTCTGATGTG CAAGGCTGACCAGGAAACTGGAAATGGCTTCTATCAGAGTTTTGAATTTCCTGGAACTTGTCCT CCACCAGACATTGAATTTTATCAAGGCTTTCTTTTGAATAAACAACCAGATGCATGAGGTTGGC TGAATATTTGTCTTCATAGAATTTAAGGAGTTCTTGCCTTGTGTCTACTCCCTTTGCTTTTGGT CTAACATATAAAGTATCCCAATTCC
Genomic sequence	CTGCATGTTTGATGAAATATTTAGAACATAGTACATAGGAGAGATTTTGTCCTTATAGTGAAAT CCTGTCTCGCAAATAGCTGATAGCTTCATTCACAAACTAAAATATCTTAGAATCATTAATATAA AGACATACAGGCCACCACTAAAATCAAACCATTGATGCACATAAAATAAATTGACACATTGAGC AAAATCTCAACATGAATACAGACACCACCTTGACCGATGCGCCTATAGATATGAAAGCTGATCA AGTCGTCTTACACTTGTTCTTATGTTTCAAACAAAGGGGGAAAAAGAGCCCCACGGAGAGTTTC AAAATGATAAACATGAAAATTTTCAATTCTATTACACAAATATTAACCATTAATCATAGGGTAA TCAACTGATTTTTGACTGATAAAGAATCTGCAATAGAAGTTCTCTCCCCCCCGCCCCCCAAAAT AAAAAAAAATCTGATCCTGTATATTATTTTATATAATAAAAAAAAAACCCACTCTCTCATACTG TTCACAGCATAAAACCTCTGCCTCTGAACTGTAAATAACTTTCTTCTTTGTAGCCTTAGTCACA TTCCTTTCCATCATCAACCCTTATCCTTACCCATATTTTAAAATAATTCCCATAAGCCAAAAAA CTTAAGGACAAAATAAATCCTAATCTTCTTTTTTTCCCCCTGCCAAAAGAGTTAACTCTAAGAG AGCAATATTTCCCCTAAAGAGGTTATACACAAGCCCAAAGTTACAAATCCAGACATTTGTTTTC ACAAGATCTAATGAACTGCAGTATGCTATCAATCAAAAAGCAGTCCGTGGGTAAGTTAAAACAG ACATATGATCACATATGCAAGCAACAAAGACATATTCAAGTGATGATAAACAGTTGCAATGAAT GGTAAAATAACTCCTAAAAGAATTATATTTTAAGTATAATATATGCATACCTCATCAAATATCC ATTTACAAACACCAGATTCCTGCAACAGCTGAATATATCTAAATAGTAACCCGATTACATCTTG CATGCGATCTGAAATTTACTCAACGGAAAACAATATTAGTCAAGTAAAAGACATCATTTTTTCC CACACAAACTTTACAAGCCTTTGTAATCTTTACCATTAAAGAAGACTCCAATGATTAAAAGCAT ATCAAACACCATATGATATAAGAGAGGATGTTAAAAAATAAAAACTAACCCTGGCCAGCATCAG TAAGACCAATTACTACTTTGAAGAAAGAAAACTCTGAAGTGCAAACACCTTCACCAGCAGACAA TCCAGTAGCCCATCCTACAAAGTTCCATACATATGCATGTACAAAATTCACTAAATATAAACAC ATAATTATGACATATGATGTCCTTAGACATAAATAAATAAATATGTATATGCAAATAGACGTTA TGTATGCATTCCTCATAAAAGGACAAAATAGAGGGGAAAATGGAAACAAAAGGGGGGGCGGGGG TTTCTGCATGATGCCTATTTGTGCATGTCTGCACATTCAAACTTGAGCTAATGCTGCTAAGTCA TTTAATGATTCCGCTCTCCTAAGCTGCAATAACCAAATACCAAGCAATGGCCAACAAAAACATA TCCTAGTGCAATGTACACATATCATGGTCTTCGCACAATAACTGCATACCTAAAGGATACTTAA ATTTTAAGAAACTTATTGAAGAATTCAAGTTAAACAAATCCCAATTTGACACAGAACAGATTAG GAAAATACTTAATACCAACCAAAACTATAGTTTGACGAGATCTCCAAAAGATTTATGCAGTATG AATAACAACTGGATTCAAAATGCAGCAACATACTATGCAAAACTTCAACTTGTATTTCCACTTC CATGAAAAGTTAAAAAGTGCTGTCAATTGCATTAAATGCAATGAAAGAAGAGAAATAGCTCTTA CAATAAAAAAGAGATCAAAGGAACCACAAAAGAGAAGTGAAGCATATGGAATAAACTAAATATT TAAGTAAGGAAGCACATTACTTTTAGGAAAAAACAAAAGATAAACAAATACTCCGATAAAATTT GTCGTATAGATATAAGATCAAAAGGCCAGTCTAGACTAATAACAAAGCCCATGATTGAGTTCAG TGTAATGAATGCAGTGACACCAGTGAATTGATGAAAACCCAATCATAATATGAAAAAGGAAATT GTACTAGTAAGACCATTTGTGATTTACTTTTCCTATGAAGTAGGGTCAGAGTCCATAACCCATT TACATGCATGTACTCCGTCAGACCAACTTCTCTCTTTCACATTTTAAGACGCCTCAAATTCTTT CATATTTCATATTGTTCTATTCTTATCTACTTTACCCATATAATGCATATGCATGGACTGGTAT CTTTTGTATATTTGAACCAAAAGCAAAACATGTCTGCATTTAACCTGGATTTTTAGAGGACGCA TCCTAAATGTTAGGGAGGCACGAATTTTGAGATATTCCAAATTGGATTATCTAAAGCTTATAAT GACATGTGCAACCTACCTAATCTTTTCAAGACATAAAATAAAGATCCTTCTCCTTTATGGCCAA TGAGATGACCAAGATACTTGCATGGCCCGTCTTTGTAATGAAGAATGCTGGGAGTAATTGGCCA TACAATCCTTAATTTGTGGCCTTGTTTTACTGGAACAGCTCTGACAAGAATCTGCGAATTGAAG AGAAAAAACGAACAGAAAAGAAACCAGAAAAAAAAAAAGTACCTCTTAGAACATTGAACCTTGC AGAAGAGTACTGCTTTCTTTGCTCAACACTGTGACAAACATAAGATAACGATGCATAGGCAACA TAACAGCACCATATACCTGAAGGTGTTCTGATGTGCAAGGCTGACCAGGAAACTGGAAATGGCT TCTATCAGAGTTTTGAATTTCCTGGAACTTGTCCTCCACCAGACATTGAATTTTATCAAGGCTT TCTGAAATTACAGAACAAAGAGATGATAATTTTGTTGATTCAAAAAAATATAGCAATAGCTTGT TTTCTTCTTACCAATGCCAGAGCCCTTAAATTACTGGAAAATTAGTTACCAACCTTTTGAATAA ACAACCAGATGCATGAGGTTGGCTGAATATTTGTCTTCATAGAATTTAAGGAGTTCTTGCCTTG TGTCTACTCCCTTTGCTTTTGGTCTAACATATAAAGTATCCCAATTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.932728177

Conservation Information
Conserved circRNAs	NA
PMCS	0.932728177

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27556384-27556439(-)
						
						Potential amino acid sequence
						
							MHLVVYSKESLDKIQCLVEDKFQEIQNSDRSHFQFPGQPCTSEHLQILVRAVPVKQGHKLRIVW
PITPSILHYKDGPCKYLGHLIGHKGEGSLFYVLKRLGWATGLSAGEGVCTSEFSFFKVVIGLTD
AGQDRMQDVIGLLFRYIQLLQESGVCKWIFDELSAICETGFHYKDKISPMYYVLNISSNMQGIG
ILYMLDQKQRE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27556384-27556439(-)
Potential amino acid sequence	MHLVVYSKESLDKIQCLVEDKFQEIQNSDRSHFQFPGQPCTSEHLQILVRAVPVKQGHKLRIVW PITPSILHYKDGPCKYLGHLIGHKGEGSLFYVLKRLGWATGLSAGEGVCTSEFSFFKVVIGLTD AGQDRMQDVIGLLFRYIQLLQESGVCKWIFDELSAICETGFHYKDKISPMYYVLNISSNMQGIG ILYMLDQKQRE*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G147500_circ_g.1

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