Plant Circular RNA Database

Detail information of AT1G76050_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G76050_circ_g.2
					
						ID in PlantcircBase
						ath_circ_010401
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 28541290-28542232  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT1G76050						
					
						Parent gene annotation
						
							RNA pseudouridine synthase 2, chloroplastic
							
						Parent gene strand
						+
					
						Alternative splicing
						
							1_circ_ag.2 1_circ_ag.3 AT1G75920_circ_g.1 1_circ_ag.2 AT1G75940_circ_g.1 AT1G75940_circ_g.2 AT1G75940_circ_g.3 AT1G75940_circ_g.4 AT1G75940_circ_g.5 AT1G75950_circ_g.1 AT1G76010_circ_g.1 AT1G76010_circ_g.2 AT1G76010_circ_g.3 AT1G76010_circ_g.4 AT1G76010_circ_g.5 AT1G76010_circ_g.6 AT1G76010_circ_g.7 AT1G76010_circ_g.8 AT1G76010_circ_g.9 AT1G76010_circ_g.10 AT1G76010_circ_g.11 AT1G76020_circ_g.1 AT1G76030_circ_g.1 AT1G76030_circ_g.2 AT1G76030_circ_g.3 AT1G76030_circ_g.4 AT1G76030_circ_g.5 AT1G76030_circ_g.6 AT1G76030_circ_g.7 AT1G76040_circ_g.1 AT1G76040_circ_g.2 AT1G76050_circ_g.1 AT1G76050_circ_g.3 AT1G76050_circ_g.4 AT1G76060_circ_g.1 AT1G76090_circ_g.1 AT1G76090_circ_g.2 AT1G76100_circ_g.1 AT1G76100_circ_g.2 AT1G76110_circ_g.1 AT1G76130_circ_g.1 AT1G76130_circ_g.2 AT1G76140_circ_g.1 AT1G76140_circ_g.2 AT1G76150_circ_g.1 AT1G76150_circ_g.2 AT1G76150_circ_g.3 AT1G76160_circ_g.1 AT1G76160_circ_g.2 AT1G76160_circ_g.3 AT1G76160_circ_g.4 AT1G76180_circ_g.1 AT1G76180_circ_g.2 AT1G76180_circ_g.3 AT1G76180_circ_g.4 AT1G76180_circ_g.5 AT1G76180_circ_g.6 AT1G76180_circ_g.7 AT1G76180_circ_g.8 AT1G76180_circ_g.9 AT1G76180_circ_g.10 AT1G76180_circ_g.11 AT1G76180_circ_g.12 AT1G76180_circ_g.13 AT1G76180_circ_g.14 AT1G76180_circ_g.15 AT1G76180_circ_g.16 AT1G76180_circ_g.17 AT1G76180_circ_g.18 AT1G76180_circ_g.19 AT1G76180_circ_g.20 AT1G76180_circ_g.21 AT1G76180_circ_g.22 AT1G76180_circ_g.23 AT1G76180_circ_g.24 AT1G76180_circ_g.25 AT1G76180_circ_g.26 AT1G76180_circ_g.27 AT1G76180_circ_g.28 AT1G76180_circ_g.29 AT1G76180_circ_g.30 AT1G76260_circ_g.1 AT1G76270_circ_g.1 AT1G76280_circ_g.1 AT1G76280_circ_g.2 AT1G76280_circ_g.3 AT1G76280_circ_g.4 AT1G76280_circ_g.5 AT1G76310_circ_g.1 AT1G76310_circ_g.2 AT1G76320_circ_g.1 AT1G76350_circ_g.1 AT1G76350_circ_g.2 AT1G76380_circ_g.1 AT1G76380_circ_g.2 AT1G76380_circ_g.3 AT1G76380_circ_g.4 AT1G76400_circ_g.1 AT1G76400_circ_g.2 AT1G76405_circ_g.1 AT1G76450_circ_g.1 AT1G76450_circ_g.2 AT1G76450_circ_g.3 AT1G76450_circ_g.4 AT1G76450_circ_g.5 AT1G76460_circ_g.1 AT1G76460_circ_g.2 AT1G76470_circ_g.1 AT1G76490_circ_g.1 AT1G76490_circ_g.2 AT1G76490_circ_g.3 AT1G76490_circ_g.4 AT1G76510_circ_g.1 AT1G76510_circ_g.2 AT1G76510_circ_g.3 AT1G76510_circ_g.4 AT1G76510_circ_g.5 AT1G76510_circ_g.6 AT1G76510_circ_g.7 AT1G76510_circ_g.8 AT1G76510_circ_g.9 AT1G76510_circ_g.10 1_circ_ag.11 AT1G76520_circ_g.1 AT1G76520_circ_g.2 1_circ_ag.3 AT1G76530_circ_g.1 AT1G76540_circ_g.1 AT1G76540_circ_g.2 AT1G76540_circ_g.3 AT1G76550_circ_g.1 AT1G76550_circ_g.2 AT1G76580_circ_g.1 AT1G76580_circ_g.2 AT1G76580_circ_g.3 AT1G76580_circ_g.4 AT1G76590_circ_g.1 AT1G76620_circ_g.1 AT1G76620_circ_g.2 AT1G76630_circ_g.1 AT1G76630_circ_g.2 AT1G76630_circ_g.3 AT1G76660_circ_g.1 AT1G76660_circ_g.2 AT1G76670_circ_g.1 AT1G76670_circ_g.2 AT1G76670_circ_g.3 1_circ_ag.4 AT1G76680_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 AT1G76680_circ_g.5 AT1G76700_circ_g.1 1_circ_ag.2 AT1G76700_circ_g.3 AT1G76700_circ_g.4 AT1G76700_circ_g.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G76790_circ_g.1 AT1G76790_circ_g.2 AT1G76790_circ_g.3 AT1G76810_circ_g.1 AT1G76810_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						seed
					
						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  
						
							GT-AG							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
						AT1G76050.1:4
AT1G76050.2:4

General Information
CircRNA Name	AT1G76050_circ_g.2
ID in PlantcircBase	ath_circ_010401
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 28541290-28542232 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	AT1G76050
Parent gene annotation	RNA pseudouridine synthase 2, chloroplastic
Parent gene strand	+
Alternative splicing	1_circ_ag.2 1_circ_ag.3 AT1G75920_circ_g.1 1_circ_ag.2 AT1G75940_circ_g.1 AT1G75940_circ_g.2 AT1G75940_circ_g.3 AT1G75940_circ_g.4 AT1G75940_circ_g.5 AT1G75950_circ_g.1 AT1G76010_circ_g.1 AT1G76010_circ_g.2 AT1G76010_circ_g.3 AT1G76010_circ_g.4 AT1G76010_circ_g.5 AT1G76010_circ_g.6 AT1G76010_circ_g.7 AT1G76010_circ_g.8 AT1G76010_circ_g.9 AT1G76010_circ_g.10 AT1G76010_circ_g.11 AT1G76020_circ_g.1 AT1G76030_circ_g.1 AT1G76030_circ_g.2 AT1G76030_circ_g.3 AT1G76030_circ_g.4 AT1G76030_circ_g.5 AT1G76030_circ_g.6 AT1G76030_circ_g.7 AT1G76040_circ_g.1 AT1G76040_circ_g.2 AT1G76050_circ_g.1 AT1G76050_circ_g.3 AT1G76050_circ_g.4 AT1G76060_circ_g.1 AT1G76090_circ_g.1 AT1G76090_circ_g.2 AT1G76100_circ_g.1 AT1G76100_circ_g.2 AT1G76110_circ_g.1 AT1G76130_circ_g.1 AT1G76130_circ_g.2 AT1G76140_circ_g.1 AT1G76140_circ_g.2 AT1G76150_circ_g.1 AT1G76150_circ_g.2 AT1G76150_circ_g.3 AT1G76160_circ_g.1 AT1G76160_circ_g.2 AT1G76160_circ_g.3 AT1G76160_circ_g.4 AT1G76180_circ_g.1 AT1G76180_circ_g.2 AT1G76180_circ_g.3 AT1G76180_circ_g.4 AT1G76180_circ_g.5 AT1G76180_circ_g.6 AT1G76180_circ_g.7 AT1G76180_circ_g.8 AT1G76180_circ_g.9 AT1G76180_circ_g.10 AT1G76180_circ_g.11 AT1G76180_circ_g.12 AT1G76180_circ_g.13 AT1G76180_circ_g.14 AT1G76180_circ_g.15 AT1G76180_circ_g.16 AT1G76180_circ_g.17 AT1G76180_circ_g.18 AT1G76180_circ_g.19 AT1G76180_circ_g.20 AT1G76180_circ_g.21 AT1G76180_circ_g.22 AT1G76180_circ_g.23 AT1G76180_circ_g.24 AT1G76180_circ_g.25 AT1G76180_circ_g.26 AT1G76180_circ_g.27 AT1G76180_circ_g.28 AT1G76180_circ_g.29 AT1G76180_circ_g.30 AT1G76260_circ_g.1 AT1G76270_circ_g.1 AT1G76280_circ_g.1 AT1G76280_circ_g.2 AT1G76280_circ_g.3 AT1G76280_circ_g.4 AT1G76280_circ_g.5 AT1G76310_circ_g.1 AT1G76310_circ_g.2 AT1G76320_circ_g.1 AT1G76350_circ_g.1 AT1G76350_circ_g.2 AT1G76380_circ_g.1 AT1G76380_circ_g.2 AT1G76380_circ_g.3 AT1G76380_circ_g.4 AT1G76400_circ_g.1 AT1G76400_circ_g.2 AT1G76405_circ_g.1 AT1G76450_circ_g.1 AT1G76450_circ_g.2 AT1G76450_circ_g.3 AT1G76450_circ_g.4 AT1G76450_circ_g.5 AT1G76460_circ_g.1 AT1G76460_circ_g.2 AT1G76470_circ_g.1 AT1G76490_circ_g.1 AT1G76490_circ_g.2 AT1G76490_circ_g.3 AT1G76490_circ_g.4 AT1G76510_circ_g.1 AT1G76510_circ_g.2 AT1G76510_circ_g.3 AT1G76510_circ_g.4 AT1G76510_circ_g.5 AT1G76510_circ_g.6 AT1G76510_circ_g.7 AT1G76510_circ_g.8 AT1G76510_circ_g.9 AT1G76510_circ_g.10 1_circ_ag.11 AT1G76520_circ_g.1 AT1G76520_circ_g.2 1_circ_ag.3 AT1G76530_circ_g.1 AT1G76540_circ_g.1 AT1G76540_circ_g.2 AT1G76540_circ_g.3 AT1G76550_circ_g.1 AT1G76550_circ_g.2 AT1G76580_circ_g.1 AT1G76580_circ_g.2 AT1G76580_circ_g.3 AT1G76580_circ_g.4 AT1G76590_circ_g.1 AT1G76620_circ_g.1 AT1G76620_circ_g.2 AT1G76630_circ_g.1 AT1G76630_circ_g.2 AT1G76630_circ_g.3 AT1G76660_circ_g.1 AT1G76660_circ_g.2 AT1G76670_circ_g.1 AT1G76670_circ_g.2 AT1G76670_circ_g.3 1_circ_ag.4 AT1G76680_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 AT1G76680_circ_g.5 AT1G76700_circ_g.1 1_circ_ag.2 AT1G76700_circ_g.3 AT1G76700_circ_g.4 AT1G76700_circ_g.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G76790_circ_g.1 AT1G76790_circ_g.2 AT1G76790_circ_g.3 AT1G76810_circ_g.1 AT1G76810_circ_g.2
Support reads	1
Tissues	seed
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	GT-AG 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	AT1G76050.1:4 AT1G76050.2:4

			
						 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  
						
							TGCTCTTTTATGTTGTCATAGGTATAAGGTAATCGAAACATTCGCTGGAGGTGGCTCTGCATTG
GTTGAGTGGAGACTGGAAACCGGCCGTACTCATCAGgtttcacacaatgtcaaatctggtgatg
aggttaattgtacgatatcagagcttcaacctttgaaagctgaagctgaagatataccattaga
tatagttt

						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
						
							GTTTCACACAATGTCAAATCTGGTGATGAGGTTAATTGTACGATATCAGAGCTTCAACCTTTGA
AAGCTGAAGCTGAAGATATACCATTAGATATAGTTTATGAAGATAAACATGTTCTTGTTGTTAA
CAAACCAGCTCACATGGTAAACACATTCTCTCAATATACTAACATCATGACTTAGAATCATCAC
TAAGAATATCTCTCCAATTCTTAGGTCGTTCATCCTGCGCCTGGGAATCCTACCGGCACGCTTG
TTAATGGCATACTTCATCATTGTAGTCTTCCTTGTGTTGATTATTCGAACTCAGAAGAAGATGA
TGATTCCGATGAAGAAACATTTTCAGATGATGAAGAGATGACTACCTCTCCTAGTTCATATGCT
GCTTCTGTTCGTCCTGGTATTGTTCATAGGTTGGATAAAGGCACAACTGGATTGCTCGTTGTAG
CCAAGGTTAGTTCAATGCTGCTTTAGGAACTACTTTAATTGCTTCTTCTGAATTTAACGGAAAG
TTTAATGGCAGGATGAACATTCTCATGCCCATTTAGCAGAACAGTTCAAGCTACACACAATTGA
GAGAGTATATGTAAGTCTTACTACTGGGGTTCCTTCTCCACCACAGGGGCGTATTGAGATACCG
ATTGGTCGTGATTCGAGTAATCGGATACGTATGGCTGCTATTCCTGGAGGAGTAAGGGGTGGAA
GAGCCCGCCATGCTGCTAGTAGGTGATGAGAGCAGTCTTCTGCAAGTGCACCAACCACTATAAC
ACTGCATTTATTCTTCAGAATGAGAAAAATCTCTCTGAAAGAGTTGTTAACTGATACTGATATA
TGCTAAAAAAATGCTCTTTTATGTTGTCATAGGTATAAGGTAATCGAAACATTCGCTGGAGGTG
GCTCTGCATTGGTTGAGTGGAGACTGGAAACCGGCCGTACTCATCAG

Sequences
Splice junction sequence	TGCTCTTTTATGTTGTCATAGGTATAAGGTAATCGAAACATTCGCTGGAGGTGGCTCTGCATTG GTTGAGTGGAGACTGGAAACCGGCCGTACTCATCAGgtttcacacaatgtcaaatctggtgatg aggttaattgtacgatatcagagcttcaacctttgaaagctgaagctgaagatataccattaga tatagttt
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	GTTTCACACAATGTCAAATCTGGTGATGAGGTTAATTGTACGATATCAGAGCTTCAACCTTTGA AAGCTGAAGCTGAAGATATACCATTAGATATAGTTTATGAAGATAAACATGTTCTTGTTGTTAA CAAACCAGCTCACATGGTAAACACATTCTCTCAATATACTAACATCATGACTTAGAATCATCAC TAAGAATATCTCTCCAATTCTTAGGTCGTTCATCCTGCGCCTGGGAATCCTACCGGCACGCTTG TTAATGGCATACTTCATCATTGTAGTCTTCCTTGTGTTGATTATTCGAACTCAGAAGAAGATGA TGATTCCGATGAAGAAACATTTTCAGATGATGAAGAGATGACTACCTCTCCTAGTTCATATGCT GCTTCTGTTCGTCCTGGTATTGTTCATAGGTTGGATAAAGGCACAACTGGATTGCTCGTTGTAG CCAAGGTTAGTTCAATGCTGCTTTAGGAACTACTTTAATTGCTTCTTCTGAATTTAACGGAAAG TTTAATGGCAGGATGAACATTCTCATGCCCATTTAGCAGAACAGTTCAAGCTACACACAATTGA GAGAGTATATGTAAGTCTTACTACTGGGGTTCCTTCTCCACCACAGGGGCGTATTGAGATACCG ATTGGTCGTGATTCGAGTAATCGGATACGTATGGCTGCTATTCCTGGAGGAGTAAGGGGTGGAA GAGCCCGCCATGCTGCTAGTAGGTGATGAGAGCAGTCTTCTGCAAGTGCACCAACCACTATAAC ACTGCATTTATTCTTCAGAATGAGAAAAATCTCTCTGAAAGAGTTGTTAACTGATACTGATATA TGCTAAAAAAATGCTCTTTTATGTTGTCATAGGTATAAGGTAATCGAAACATTCGCTGGAGGTG GCTCTGCATTGGTTGAGTGGAGACTGGAAACCGGCCGTACTCATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.157126061

Conservation Information
Conserved circRNAs	NA
PMCS	0.157126061

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28541431-28542229(+)
						
						Potential amino acid sequence
						
							MVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASVRPGI
VHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPIGRDSSNRI
RMAAIPGGVRGGRARHAASRYKVIETFAGGGSALVEWRLETGRTHQVSHNVKSGDEVNCTISEL
QPLKAEAEDIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEED
DDSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHTIER
VYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAIPGGVRGGRARHAASRYKVIETFAGGGSALV
EWRLETGRTHQVSHNVKSGDEVNCTISELQPLKAEAEDIPLDIVYEDKHVLVVNKPAHMVVHPA
PGNPTGTLVNGILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDK
GTTGLLVVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAIP
GGVRGGRARHAASRYKVIETFAGGGSALVEWRLETGRTHQVSHNVKSGDEVNCTISELQPLKAE
AEDIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEEDDDSDEE
TFSDDEEMTTSPSSYAASVRPGIVHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHTIERVYVSLT
TGVPSPPQGRIEIPIGRDSSNRIRMAAIPGGVRGGRARHAASRYKVIETFAGGGSALVEWRLET
GRTHQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28541431-28542229(+)
Potential amino acid sequence	MVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASVRPGI VHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPIGRDSSNRI RMAAIPGGVRGGRARHAASRYKVIETFAGGGSALVEWRLETGRTHQVSHNVKSGDEVNCTISEL QPLKAEAEDIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEED DDSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHTIER VYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAIPGGVRGGRARHAASRYKVIETFAGGGSALV EWRLETGRTHQVSHNVKSGDEVNCTISELQPLKAEAEDIPLDIVYEDKHVLVVNKPAHMVVHPA PGNPTGTLVNGILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDK GTTGLLVVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAIP GGVRGGRARHAASRYKVIETFAGGGSALVEWRLETGRTHQVSHNVKSGDEVNCTISELQPLKAE AEDIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEEDDDSDEE TFSDDEEMTTSPSSYAASVRPGIVHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHTIERVYVSLT TGVPSPPQGRIEIPIGRDSSNRIRMAAIPGGVRGGRARHAASRYKVIETFAGGGSALVEWRLET GRTHQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G76050_circ_g.2

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