Plant Circular RNA Database

Detail information of AT5G35970_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G35970_circ_g.2
					
						ID in PlantcircBase
						ath_circ_041194
					
						Alias
						At_ciR4797, Ath_circ_FC3581
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 14119521-14121448  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							AT5G35970						
					
						Parent gene annotation
						
							P-loop containing nucleoside triphosphate hydrolases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G35970_circ_g.1 AT5G35970_circ_g.3 AT5G35970_circ_g.4 AT5G35970_circ_g.5 						
					
						Support reads
						2/29
					
						Tissues
						leaf/whole_plant
					
						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
						AT5G35970.1:3

General Information
CircRNA Name	AT5G35970_circ_g.2
ID in PlantcircBase	ath_circ_041194
Alias	At_ciR4797, Ath_circ_FC3581
Organism	Arabidpsis thaliana
Position	chr5: 14119521-14121448 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	AT5G35970
Parent gene annotation	P-loop containing nucleoside triphosphate hydrolases superfamily protein
Parent gene strand	-
Alternative splicing	AT5G35970_circ_g.1 AT5G35970_circ_g.3 AT5G35970_circ_g.4 AT5G35970_circ_g.5
Support reads	2/29
Tissues	leaf/whole_plant
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	AT5G35970.1:3

			
						 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  
						
							TATCTTCACCATCCCCAAATAAAGTCGCCACAACAGATATTGATGGATTTTTCTTCTGCAGACC
ATTCTTCTGCAGAAGCATTAGGGCTTCGCAGTTACGcattgagatgatcactgcatcagcctcc
cgcccttgaaagctgtcaatggttgcgacctcaactccatcagccactggaaaatcatccagcc
tttctctg

									
								

					

						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
						
							CATTGAGATGATCACTGCATCAGCCTCCCGCCCTTGAAAGCTGTCAATGGTTGCGACCTCAACT
CCATCAGCCACTGGAAAATCATCCAGCCTTTCTCTGAGAAGTTGAACCTGAGCAACATATGGGG
ATTGAACAGCAATAGCCATTGGACTAACACCTACAATCATGTCCAACAAGTTTTTTACTAGGTT
ATCGAGCTTATATTCAGGAACACAATTAATATGCATGAAGTTTAGATTCTTCAAGCTCTGGTAA
TTGTTTTGTGTTATATCCCAGTCATTCAACTGAAAATAGATGGTTCACCTGCGTATATCAAAGA
AATGACGTGATTAACCACAATATCTGCTTCTCCTTCATTGTATAATGAGCCTGTGCCAGCTGGA
TCCAAACGCTCCTCGCAGCCCACGGATAAACTCCCATATGGCATTCTTGTGTCAAGCAGAACCA
GTGGGCATTGCGTTATCCAAGTAGCCTGCAGTAAGTACAAGAAAAGAATGATGTTACATCTAAG
AGTCATGGTGTTACCAAAGGTGCTTTTGATCTACAATGATGTTGCATTTTATTAGACATTCAAA
GGTAAGTTAATTTGTGACACTGTTTAATATTATCCAGTTACCAGCAAAACAAGAGGGAAACATC
TATTGCAAGCTCATGAGCAACATCACTTTTCAATAAGGCCATAAAAAAGCTGTAATCAGTAGAT
ATTTCAACCACAAGTAAAGATAGTATCATGAAAGACAAACCAACAGAGTTGCAAGAGAAACCAG
ATAATGCTAAAATGGAAAATTTCTAACAAATAAAAGCTTTGAAGGTAAACAGATGTGTGATTGC
ATGCCATGTAACCATCATATAAATACCACACCAATCAAACAGCAGAAACAGTCAGAAGAAGTAC
CTTCACAAAAGGAGAATCGATAAGCAGATGAGAGGCCACACTTGGAGCAGATTTCAACCATCCA
CCATACATCTCCTTTGATGCCCAACCAGCGATTACATCGTTCATACGATACTGAGTTGTTAATT
TTGTCGCAAGAACTCCATCATGTAAAGATGCAGCTCTTTCCAGTAAGGATACACCAAGTCCACC
TTCTAAAGCTTTACGTGATAGAACAACTGGTGCTAATTGGCATGGATCACCGGAAAGAATACAA
CGTTTCCCTTGCAATATTGGGATCCAGCATGAAGGCTCGATAGACTGACCAGCTTCATCTATAA
CAACCAAATCAAATGTTTCTAACCTCCTAATCAAAGGATCAGCTGCTCCAATGTTAGTGGCAAA
AACAACCTGTGCATTTGATAGTATTTCCTTCACAGTCTCTTTTTCCTTCTTCTTCAACGTCTTT
CCAAGCTGTTTCAAGAGCTGCCGAATGCCAGCTGCAAGAACATCATCCCTCAGGCATTGCCGAA
GATCTTTTCTTAAATCTGACTTCTTCCTTTCCAATTCTGCTCGGAAGCTTGCAAGCTTAGAGTT
CACAATTTCCCCCAAAGACTTTGAAGCAACAGCAGATGATATTCTAGCGGGATTTCCTACTCGG
ACAATGTTTAGTCCAAGATGCAAGAGCTTCTCGACCATGTTATCAACAGCTGCATTAGTAGGCG
CTGTTACAAGTACTCTTTCCCCCTGTTGAACAGCCAGGGTAATGACCTCCTTAAGCATTCCAGT
CTTTCCCGTGCCAGGAGGTCCTTGGACTATCATAACAGGTCTTTTTTTGTTTACTCCAAGAGCT
ATGGCTCTCCTTTGGGAAGAATCAAATAACTTACTCACTGGCTCATCACTCAACTCCGCTTCAC
TCCAGTCTACATAATCATTTTGCTCCAGCCATGTTATATCTTCACCATCCCCAAATAAAGTCGC
CACAACAGATATTGATGGATTTTTCTTCTGCAGACCATTCTTCTGCAGAAGCATTAGGGCTTCG
CAGTTACG
						
					

			
		

Sequences
Splice junction sequence	TATCTTCACCATCCCCAAATAAAGTCGCCACAACAGATATTGATGGATTTTTCTTCTGCAGACC ATTCTTCTGCAGAAGCATTAGGGCTTCGCAGTTACGcattgagatgatcactgcatcagcctcc cgcccttgaaagctgtcaatggttgcgacctcaactccatcagccactggaaaatcatccagcc tttctctg
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	CATTGAGATGATCACTGCATCAGCCTCCCGCCCTTGAAAGCTGTCAATGGTTGCGACCTCAACT CCATCAGCCACTGGAAAATCATCCAGCCTTTCTCTGAGAAGTTGAACCTGAGCAACATATGGGG ATTGAACAGCAATAGCCATTGGACTAACACCTACAATCATGTCCAACAAGTTTTTTACTAGGTT ATCGAGCTTATATTCAGGAACACAATTAATATGCATGAAGTTTAGATTCTTCAAGCTCTGGTAA TTGTTTTGTGTTATATCCCAGTCATTCAACTGAAAATAGATGGTTCACCTGCGTATATCAAAGA AATGACGTGATTAACCACAATATCTGCTTCTCCTTCATTGTATAATGAGCCTGTGCCAGCTGGA TCCAAACGCTCCTCGCAGCCCACGGATAAACTCCCATATGGCATTCTTGTGTCAAGCAGAACCA GTGGGCATTGCGTTATCCAAGTAGCCTGCAGTAAGTACAAGAAAAGAATGATGTTACATCTAAG AGTCATGGTGTTACCAAAGGTGCTTTTGATCTACAATGATGTTGCATTTTATTAGACATTCAAA GGTAAGTTAATTTGTGACACTGTTTAATATTATCCAGTTACCAGCAAAACAAGAGGGAAACATC TATTGCAAGCTCATGAGCAACATCACTTTTCAATAAGGCCATAAAAAAGCTGTAATCAGTAGAT ATTTCAACCACAAGTAAAGATAGTATCATGAAAGACAAACCAACAGAGTTGCAAGAGAAACCAG ATAATGCTAAAATGGAAAATTTCTAACAAATAAAAGCTTTGAAGGTAAACAGATGTGTGATTGC ATGCCATGTAACCATCATATAAATACCACACCAATCAAACAGCAGAAACAGTCAGAAGAAGTAC CTTCACAAAAGGAGAATCGATAAGCAGATGAGAGGCCACACTTGGAGCAGATTTCAACCATCCA CCATACATCTCCTTTGATGCCCAACCAGCGATTACATCGTTCATACGATACTGAGTTGTTAATT TTGTCGCAAGAACTCCATCATGTAAAGATGCAGCTCTTTCCAGTAAGGATACACCAAGTCCACC TTCTAAAGCTTTACGTGATAGAACAACTGGTGCTAATTGGCATGGATCACCGGAAAGAATACAA CGTTTCCCTTGCAATATTGGGATCCAGCATGAAGGCTCGATAGACTGACCAGCTTCATCTATAA CAACCAAATCAAATGTTTCTAACCTCCTAATCAAAGGATCAGCTGCTCCAATGTTAGTGGCAAA AACAACCTGTGCATTTGATAGTATTTCCTTCACAGTCTCTTTTTCCTTCTTCTTCAACGTCTTT CCAAGCTGTTTCAAGAGCTGCCGAATGCCAGCTGCAAGAACATCATCCCTCAGGCATTGCCGAA GATCTTTTCTTAAATCTGACTTCTTCCTTTCCAATTCTGCTCGGAAGCTTGCAAGCTTAGAGTT CACAATTTCCCCCAAAGACTTTGAAGCAACAGCAGATGATATTCTAGCGGGATTTCCTACTCGG ACAATGTTTAGTCCAAGATGCAAGAGCTTCTCGACCATGTTATCAACAGCTGCATTAGTAGGCG CTGTTACAAGTACTCTTTCCCCCTGTTGAACAGCCAGGGTAATGACCTCCTTAAGCATTCCAGT CTTTCCCGTGCCAGGAGGTCCTTGGACTATCATAACAGGTCTTTTTTTGTTTACTCCAAGAGCT ATGGCTCTCCTTTGGGAAGAATCAAATAACTTACTCACTGGCTCATCACTCAACTCCGCTTCAC TCCAGTCTACATAATCATTTTGCTCCAGCCATGTTATATCTTCACCATCCCCAAATAAAGTCGC CACAACAGATATTGATGGATTTTTCTTCTGCAGACCATTCTTCTGCAGAAGCATTAGGGCTTCG CAGTTACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.249174295

Conservation Information
Conserved circRNAs	NA
PMCS	0.249174295

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							14121431-14119523(-)
						
					

						Potential amino acid sequence
						
							MLLQKNGLQKKNPSISVVATLFGDGEDITWLEQNDYVDWSEAELSDEPVSKLFDSSQRRAIALG
VNKKRPVMIVQGPPGTGKTGMLKEVITLAVQQGERVLVTAPTNAAVDNMVEKLLHLGLNIVRVG
NPARISSAVASKSLGEIVNSKLASFRAELERKKSDLRKDLRQCLRDDVLAAGIRQLLKQLGKTL
KKKEKETVKEILSNAQVVFATNIGAADPLIRRLETFDLVVIDEAGQSIEPSCWIPILQGKRCIL
SGDPCQLAPVVLSRKALEGGLGVSLLERAASLHDGVLATKLTTQYRMNDVIAGWASKEMYGGWL
KSAPSVASHLLIDSPFVKATWITQCPLVLLDTRMPYGSLSVGCEERLDPAGTGSLYNEGEADIV
VNHVISLIYAGVSPMAIAVQSPYVAQVQLLRERLDDFPVADGVEVATIDSFQGREADAVIISMR
NCEALMLLQKNGLQKKNPSISVVATLFGDGEDITWLEQNDYVDWSEAELSDEPVSKLFDSSQRR
AIALGVNKKRPVMIVQGPPGTGKTGMLKEVITLAVQQGERVLVTAPTNAAVDNMVEKLLHLGLN
IVRVGNPARISSAVASKSLGEIVNSKLASFRAELERKKSDLRKDLRQCLRDDVLAAGIRQLLKQ
LGKTLKKKEKETVKEILSNAQVVFATNIGAADPLIRRLETFDLVVIDEAGQSIEPSCWIPILQG
KRCILSGDPCQLAPVVLSRKALEGGLGVSLLERAASLHDGVLATKLTTQYRMNDVIAGWASKEM
YGGWLKSAPSVASHLLIDSPFVKATWITQCPLVLLDTRMPYGSLSVGCEERLDPAGTGSLYNEG
EADIVVNHVISLIYAGVSPMAIAVQSPYVAQVQLLRERLDDFPVADGVEVATIDSFQGREADAV
IISMRNCEALMLLQKNGLQKKNPSISVVATLFGDGEDITWLEQNDYVDWSEAELSDEPVSKLFD
SSQRRAIALGVNKKRPVMIVQGPPGTGKTGMLKEVITLAVQQGERVLVTAPTNAAVDNMVEKLL
HLGLNIVRVGNPARISSAVASKSLGEIVNSKLASFRAELERKKSDLRKDLRQCLRDDVLAAGIR
QLLKQLGKTLKKKEKETVKEILSNAQVVFATNIGAADPLIRRLETFDLVVIDEAGQSIEPSCWI
PILQGKRCILSGDPCQLAPVVLSRKALEGGLGVSLLERAASLHDGVLATKLTTQYRMNDVIAGW
ASKEMYGGWLKSAPSVASHLLIDSPFVKATWITQCPLVLLDTRMPYGSLSVGCEERLDPAGTGS
LYNEGEADIVVNHVISLIYAGVSPMAIAVQSPYVAQVQLLRERLDDFPVADGVEVATIDSFQGR
EADAVIISMRNCEALMLLQKNGLQKKNPSISVVATLFGDGEDITWLEQNDYVDWSEAELSDEPV
SKLFDSSQRRAIALGVNKKRPVMIVQGPPGTGKTGMLKEVITLAVQQGERVLVTAPTNAAVDNM
VEKLLHLGLNIVRVGNPARISSAVASKSLGEIVNSKLASFRAELERKKSDLRKDLRQCLRDDVL
AAGIRQLLKQLGKTLKKKEKETVKEILSNAQVVFATNIGAADPLIRRLETFDLVVIDEAGQSIE
PSCWIPILQGKRCILSGDPCQLAPVVLSRKALEGGLGVSLLERAASLHDGVLATKLTTQYRMND
VIAGWASKEMYGGWLKSAPSVASHLLIDSPFVKATWITQCPLVLLDTRMPYGSLSVGCEERLDP
AGTGSLYNEGEADIVVNHVISLIYAGVSPMAIAVQSPYVAQVQLLRERLDDFPVADGVEVATID
SFQGREADAVIISM(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	14121431-14119523(-)
Potential amino acid sequence	MLLQKNGLQKKNPSISVVATLFGDGEDITWLEQNDYVDWSEAELSDEPVSKLFDSSQRRAIALG VNKKRPVMIVQGPPGTGKTGMLKEVITLAVQQGERVLVTAPTNAAVDNMVEKLLHLGLNIVRVG NPARISSAVASKSLGEIVNSKLASFRAELERKKSDLRKDLRQCLRDDVLAAGIRQLLKQLGKTL KKKEKETVKEILSNAQVVFATNIGAADPLIRRLETFDLVVIDEAGQSIEPSCWIPILQGKRCIL SGDPCQLAPVVLSRKALEGGLGVSLLERAASLHDGVLATKLTTQYRMNDVIAGWASKEMYGGWL KSAPSVASHLLIDSPFVKATWITQCPLVLLDTRMPYGSLSVGCEERLDPAGTGSLYNEGEADIV VNHVISLIYAGVSPMAIAVQSPYVAQVQLLRERLDDFPVADGVEVATIDSFQGREADAVIISMR NCEALMLLQKNGLQKKNPSISVVATLFGDGEDITWLEQNDYVDWSEAELSDEPVSKLFDSSQRR AIALGVNKKRPVMIVQGPPGTGKTGMLKEVITLAVQQGERVLVTAPTNAAVDNMVEKLLHLGLN IVRVGNPARISSAVASKSLGEIVNSKLASFRAELERKKSDLRKDLRQCLRDDVLAAGIRQLLKQ LGKTLKKKEKETVKEILSNAQVVFATNIGAADPLIRRLETFDLVVIDEAGQSIEPSCWIPILQG KRCILSGDPCQLAPVVLSRKALEGGLGVSLLERAASLHDGVLATKLTTQYRMNDVIAGWASKEM YGGWLKSAPSVASHLLIDSPFVKATWITQCPLVLLDTRMPYGSLSVGCEERLDPAGTGSLYNEG EADIVVNHVISLIYAGVSPMAIAVQSPYVAQVQLLRERLDDFPVADGVEVATIDSFQGREADAV IISMRNCEALMLLQKNGLQKKNPSISVVATLFGDGEDITWLEQNDYVDWSEAELSDEPVSKLFD SSQRRAIALGVNKKRPVMIVQGPPGTGKTGMLKEVITLAVQQGERVLVTAPTNAAVDNMVEKLL HLGLNIVRVGNPARISSAVASKSLGEIVNSKLASFRAELERKKSDLRKDLRQCLRDDVLAAGIR QLLKQLGKTLKKKEKETVKEILSNAQVVFATNIGAADPLIRRLETFDLVVIDEAGQSIEPSCWI PILQGKRCILSGDPCQLAPVVLSRKALEGGLGVSLLERAASLHDGVLATKLTTQYRMNDVIAGW ASKEMYGGWLKSAPSVASHLLIDSPFVKATWITQCPLVLLDTRMPYGSLSVGCEERLDPAGTGS LYNEGEADIVVNHVISLIYAGVSPMAIAVQSPYVAQVQLLRERLDDFPVADGVEVATIDSFQGR EADAVIISMRNCEALMLLQKNGLQKKNPSISVVATLFGDGEDITWLEQNDYVDWSEAELSDEPV SKLFDSSQRRAIALGVNKKRPVMIVQGPPGTGKTGMLKEVITLAVQQGERVLVTAPTNAAVDNM VEKLLHLGLNIVRVGNPARISSAVASKSLGEIVNSKLASFRAELERKKSDLRKDLRQCLRDDVL AAGIRQLLKQLGKTLKKKEKETVKEILSNAQVVFATNIGAADPLIRRLETFDLVVIDEAGQSIE PSCWIPILQGKRCILSGDPCQLAPVVLSRKALEGGLGVSLLERAASLHDGVLATKLTTQYRMND VIAGWASKEMYGGWLKSAPSVASHLLIDSPFVKATWITQCPLVLLDTRMPYGSLSVGCEERLDP AGTGSLYNEGEADIVVNHVISLIYAGVSPMAIAVQSPYVAQVQLLRERLDDFPVADGVEVATID SFQGREADAVIISM(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT5G35970_circ_g.2

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