Plant Circular RNA Database

Detail information of AT2G18960_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT2G18960_circ_g.5
					
						ID in PlantcircBase
						ath_circ_013754
					
						Alias
						2:8223178-8225110
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 8223178-8225110  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G18960						
					
						Parent gene annotation
						
							Plasma membrane ATPase
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G18960_circ_g.1 AT2G18960_circ_g.2 AT2G18960_circ_g.3 AT2G18960_circ_g.4 AT2G18960_circ_g.6 AT2G18960_circ_g.7 AT2G18960_circ_g.8 AT2G18960_circ_g.9 AT2G18960_circ_g.10 AT2G18960_circ_g.11 AT2G18960_circ_g.12 AT2G18960_circ_g.13 AT2G18960_circ_g.14 AT2G18960_circ_g.15 AT2G18960_circ_g.16 AT2G18960_circ_g.17 AT2G18960_circ_g.18 AT2G18960_circ_g.19 AT2G18960_circ_g.20 AT2G18960_circ_g.21 AT2G18960_circ_g.22 AT2G18960_circ_g.23 AT2G18960_circ_g.24 						
					
						Support reads
						1/1
					
						Tissues
						root;flower
					
						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
						AT2G18960.3:6
AT2G18960.2:6
AT2G18960.1:6

General Information
CircRNA Name	AT2G18960_circ_g.5
ID in PlantcircBase	ath_circ_013754
Alias	2:8223178-8225110
Organism	Arabidpsis thaliana
Position	chr2: 8223178-8225110 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G18960
Parent gene annotation	Plasma membrane ATPase
Parent gene strand	+
Alternative splicing	AT2G18960_circ_g.1 AT2G18960_circ_g.2 AT2G18960_circ_g.3 AT2G18960_circ_g.4 AT2G18960_circ_g.6 AT2G18960_circ_g.7 AT2G18960_circ_g.8 AT2G18960_circ_g.9 AT2G18960_circ_g.10 AT2G18960_circ_g.11 AT2G18960_circ_g.12 AT2G18960_circ_g.13 AT2G18960_circ_g.14 AT2G18960_circ_g.15 AT2G18960_circ_g.16 AT2G18960_circ_g.17 AT2G18960_circ_g.18 AT2G18960_circ_g.19 AT2G18960_circ_g.20 AT2G18960_circ_g.21 AT2G18960_circ_g.22 AT2G18960_circ_g.23 AT2G18960_circ_g.24
Support reads	1/1
Tissues	root;flower
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	AT2G18960.3:6 AT2G18960.2:6 AT2G18960.1:6

			
						 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  
						
							TTTGTTGGCTTGTTGCCTCTTTTTGACCCTCCAAGACACGACAGTGCCGAAACCATTCGTAGGG
CGTTGAATCTAGGTGTTAATGTGAAGATGATCACTGgaaaaaattccgattgaggaagttttcc
agcagctaaaatgtacaagggaaggattgacaacgcaggaaggggaagacaggattgtgatatt
tggcccca

									
								

					

						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: 1492
Transcript exons: 8223178-8223297,8223391-8223627,8223712-8224473,8224569-
8224691,8224770-8224874,8224966-8225110
GAAAAAATTCCGATTGAGGAAGTTTTCCAGCAGCTAAAATGTACAAGGGAAGGATTGACAACGC
AGGAAGGGGAAGACAGGATTGTGATATTTGGCCCCAACAAGCTCGAAGAGAAGAAGGAAAGCAA
AATTCTGAAGTTTCTGGGGTTCATGTGGAATCCGCTTTCATGGGTTATGGAAGCTGCAGCTCTC
ATGGCCATTGCTTTGGCTAATGGTGATAATCGACCTCCGGATTGGCAAGATTTTGTGGGTATTA
TCTGTCTGCTTGTTATCAACTCCACAATCAGTTTCATTGAAGAAAACAACGCCGGAAATGCTGC
AGCTGCTCTCATGGCTGGTCTTGCTCCTAAAACCAAGGTTCTTAGGGATGGAAAATGGAGTGAA
CAAGAGGCTGCTATCCTTGTCCCAGGTGATATTGTTAGCATTAAACTTGGAGACATTATCCCAG
CCGATGCCCGTCTTCTTGAAGGAGATCCTTTAAAGGTTGATCAGTCTGCTCTAACTGGAGAGTC
CCTTCCTGTGACCAAGCACCCTGGTCAAGAAGTTTTCTCTGGTTCAACTTGTAAACAAGGAGAA
ATCGAAGCGGTTGTTATAGCCACTGGAGTTCACACCTTCTTTGGTAAAGCTGCTCACCTTGTGG
ACAGCACTAACCAAGTTGGGCACTTCCAGAAAGTTCTTACATCCATTGGAAACTTCTGTATCTG
TTCTATTGCTATTGGTATAGCGATTGAAATAGTCGTCATGTACCCTATCCAACACCGAAAGTAC
AGAGATGGAATTGACAATCTCTTGGTCCTCTTGATCGGTGGTATCCCCATTGCTATGCCCACGG
TCTTGTCTGTGACTATGGCTATCGGGTCTCACAGGTTGTCTCAGCAAGGTGCTATCACCAAACG
TATGACAGCCATTGAAGAAATGGCGGGAATGGATGTCCTTTGCAGTGACAAAACCGGGACACTA
ACCCTTAATAAATTGAGTGTGGATAAAAACTTGGTTGAGGTTTTCTGCAAGGGTGTGGAGAAAG
ATCAAGTTCTACTATTTGCAGCTATGGCTTCTAGGGTGGAGAACCAGGACGCTATTGATGCAGC
CATGGTTGGAATGCTTGCTGATCCGAAAGAGGCCCGAGCTGGAATCAGAGAGGTTCACTTCCTT
CCATTCAACCCTGTGGATAAGAGAACTGCTTTGACTTACATCGACTCTGATGGTAACTGGCACA
GAGTCAGCAAAGGTGCTCCCGAGCAGATCCTTGACCTTGCCAATGCCAGGCCTGACCTTAGGAA
GAAGGTACTCTCTTGTATTGACAAGTACGCTGAGCGCGGTCTTAGGTCGTTGGCAGTAGCTCGT
CAGGTGGTACCCGAGAAAACAAAAGAAAGCCCAGGTGGACCATGGGAATTTGTTGGCTTGTTGC
CTCTTTTTGACCCTCCAAGACACGACAGTGCCGAAACCATTCGTAGGGCGTTGAATCTAGGTGT
TAATGTGAAGATGATCACTG
						
					

						Genomic sequence
						
							GAAAAAATTCCGATTGAGGAAGTTTTCCAGCAGCTAAAATGTACAAGGGAAGGATTGACAACGC
AGGAAGGGGAAGACAGGATTGTGATATTTGGCCCCAACAAGCTCGAAGAGAAGAAGGTTTGAGT
TTGACTTAGCATTGTTGTTTTATCATCATTGAAAGCTTTGGTTTTGTTTAACTCACGAGGTTGA
TCTTTCGTAAAAAAATATCAGGAAAGCAAAATTCTGAAGTTTCTGGGGTTCATGTGGAATCCGC
TTTCATGGGTTATGGAAGCTGCAGCTCTCATGGCCATTGCTTTGGCTAATGGTGATAATCGACC
TCCGGATTGGCAAGATTTTGTGGGTATTATCTGTCTGCTTGTTATCAACTCCACAATCAGTTTC
ATTGAAGAAAACAACGCCGGAAATGCTGCAGCTGCTCTCATGGCTGGTCTTGCTCCTAAAACCA
AGGTAATATGTTGGTGGATGCTGTGACATTACTGTACAAGATATTTCGAGACTTCTAGAGAGCT
TAACCTGTTTCTCTGTTTTCAGGTTCTTAGGGATGGAAAATGGAGTGAACAAGAGGCTGCTATC
CTTGTCCCAGGTGATATTGTTAGCATTAAACTTGGAGACATTATCCCAGCCGATGCCCGTCTTC
TTGAAGGAGATCCTTTAAAGGTTGATCAGTCTGCTCTAACTGGAGAGTCCCTTCCTGTGACCAA
GCACCCTGGTCAAGAAGTTTTCTCTGGTTCAACTTGTAAACAAGGAGAAATCGAAGCGGTTGTT
ATAGCCACTGGAGTTCACACCTTCTTTGGTAAAGCTGCTCACCTTGTGGACAGCACTAACCAAG
TTGGGCACTTCCAGAAAGTTCTTACATCCATTGGAAACTTCTGTATCTGTTCTATTGCTATTGG
TATAGCGATTGAAATAGTCGTCATGTACCCTATCCAACACCGAAAGTACAGAGATGGAATTGAC
AATCTCTTGGTCCTCTTGATCGGTGGTATCCCCATTGCTATGCCCACGGTCTTGTCTGTGACTA
TGGCTATCGGGTCTCACAGGTTGTCTCAGCAAGGTGCTATCACCAAACGTATGACAGCCATTGA
AGAAATGGCGGGAATGGATGTCCTTTGCAGTGACAAAACCGGGACACTAACCCTTAATAAATTG
AGTGTGGATAAAAACTTGGTTGAGGTTTTCTGCAAGGGTGTGGAGAAAGATCAAGTTCTACTAT
TTGCAGCTATGGCTTCTAGGGTGGAGAACCAGGACGCTATTGATGCAGCCATGGTTGGAATGCT
TGCTGATCCGAAAGAGGTATAACTCTAATCATTTTGAATTACTTCTTTAGTTTAGTGAAAGGTC
GAGAAAACAAGTTCTTAATTTCTTATGTTTCACTTGGATTTTCATAGGCCCGAGCTGGAATCAG
AGAGGTTCACTTCCTTCCATTCAACCCTGTGGATAAGAGAACTGCTTTGACTTACATCGACTCT
GATGGTAACTGGCACAGAGTCAGCAAAGGTGCTCCCGAGCAGGTGATGAATCTTCAACTTTCTC
CTAAAGATGTTGCGTTTTTCCTTTATTCTGTGTACTAATTCGATTCTCCCACACAGATCCTTGA
CCTTGCCAATGCCAGGCCTGACCTTAGGAAGAAGGTACTCTCTTGTATTGACAAGTACGCTGAG
CGCGGTCTTAGGTCGTTGGCAGTAGCTCGTCAGGTACTTTTTTACAAGCAATTTTTACATTGGT
CTTATTTGGGTTTTTTTTTTGGCCTGTAAATCAACTGTTTAATTGCATATTCCTTTTTAGGTGG
TACCCGAGAAAACAAAAGAAAGCCCAGGTGGACCATGGGAATTTGTTGGCTTGTTGCCTCTTTT
TGACCCTCCAAGACACGACAGTGCCGAAACCATTCGTAGGGCGTTGAATCTAGGTGTTAATGTG
AAGATGATCACTG
						
					

			
		

Sequences
Splice junction sequence	TTTGTTGGCTTGTTGCCTCTTTTTGACCCTCCAAGACACGACAGTGCCGAAACCATTCGTAGGG CGTTGAATCTAGGTGTTAATGTGAAGATGATCACTGgaaaaaattccgattgaggaagttttcc agcagctaaaatgtacaagggaaggattgacaacgcaggaaggggaagacaggattgtgatatt tggcccca
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: 1492 Transcript exons: 8223178-8223297,8223391-8223627,8223712-8224473,8224569- 8224691,8224770-8224874,8224966-8225110 GAAAAAATTCCGATTGAGGAAGTTTTCCAGCAGCTAAAATGTACAAGGGAAGGATTGACAACGC AGGAAGGGGAAGACAGGATTGTGATATTTGGCCCCAACAAGCTCGAAGAGAAGAAGGAAAGCAA AATTCTGAAGTTTCTGGGGTTCATGTGGAATCCGCTTTCATGGGTTATGGAAGCTGCAGCTCTC ATGGCCATTGCTTTGGCTAATGGTGATAATCGACCTCCGGATTGGCAAGATTTTGTGGGTATTA TCTGTCTGCTTGTTATCAACTCCACAATCAGTTTCATTGAAGAAAACAACGCCGGAAATGCTGC AGCTGCTCTCATGGCTGGTCTTGCTCCTAAAACCAAGGTTCTTAGGGATGGAAAATGGAGTGAA CAAGAGGCTGCTATCCTTGTCCCAGGTGATATTGTTAGCATTAAACTTGGAGACATTATCCCAG CCGATGCCCGTCTTCTTGAAGGAGATCCTTTAAAGGTTGATCAGTCTGCTCTAACTGGAGAGTC CCTTCCTGTGACCAAGCACCCTGGTCAAGAAGTTTTCTCTGGTTCAACTTGTAAACAAGGAGAA ATCGAAGCGGTTGTTATAGCCACTGGAGTTCACACCTTCTTTGGTAAAGCTGCTCACCTTGTGG ACAGCACTAACCAAGTTGGGCACTTCCAGAAAGTTCTTACATCCATTGGAAACTTCTGTATCTG TTCTATTGCTATTGGTATAGCGATTGAAATAGTCGTCATGTACCCTATCCAACACCGAAAGTAC AGAGATGGAATTGACAATCTCTTGGTCCTCTTGATCGGTGGTATCCCCATTGCTATGCCCACGG TCTTGTCTGTGACTATGGCTATCGGGTCTCACAGGTTGTCTCAGCAAGGTGCTATCACCAAACG TATGACAGCCATTGAAGAAATGGCGGGAATGGATGTCCTTTGCAGTGACAAAACCGGGACACTA ACCCTTAATAAATTGAGTGTGGATAAAAACTTGGTTGAGGTTTTCTGCAAGGGTGTGGAGAAAG ATCAAGTTCTACTATTTGCAGCTATGGCTTCTAGGGTGGAGAACCAGGACGCTATTGATGCAGC CATGGTTGGAATGCTTGCTGATCCGAAAGAGGCCCGAGCTGGAATCAGAGAGGTTCACTTCCTT CCATTCAACCCTGTGGATAAGAGAACTGCTTTGACTTACATCGACTCTGATGGTAACTGGCACA GAGTCAGCAAAGGTGCTCCCGAGCAGATCCTTGACCTTGCCAATGCCAGGCCTGACCTTAGGAA GAAGGTACTCTCTTGTATTGACAAGTACGCTGAGCGCGGTCTTAGGTCGTTGGCAGTAGCTCGT CAGGTGGTACCCGAGAAAACAAAAGAAAGCCCAGGTGGACCATGGGAATTTGTTGGCTTGTTGC CTCTTTTTGACCCTCCAAGACACGACAGTGCCGAAACCATTCGTAGGGCGTTGAATCTAGGTGT TAATGTGAAGATGATCACTG
Genomic sequence	GAAAAAATTCCGATTGAGGAAGTTTTCCAGCAGCTAAAATGTACAAGGGAAGGATTGACAACGC AGGAAGGGGAAGACAGGATTGTGATATTTGGCCCCAACAAGCTCGAAGAGAAGAAGGTTTGAGT TTGACTTAGCATTGTTGTTTTATCATCATTGAAAGCTTTGGTTTTGTTTAACTCACGAGGTTGA TCTTTCGTAAAAAAATATCAGGAAAGCAAAATTCTGAAGTTTCTGGGGTTCATGTGGAATCCGC TTTCATGGGTTATGGAAGCTGCAGCTCTCATGGCCATTGCTTTGGCTAATGGTGATAATCGACC TCCGGATTGGCAAGATTTTGTGGGTATTATCTGTCTGCTTGTTATCAACTCCACAATCAGTTTC ATTGAAGAAAACAACGCCGGAAATGCTGCAGCTGCTCTCATGGCTGGTCTTGCTCCTAAAACCA AGGTAATATGTTGGTGGATGCTGTGACATTACTGTACAAGATATTTCGAGACTTCTAGAGAGCT TAACCTGTTTCTCTGTTTTCAGGTTCTTAGGGATGGAAAATGGAGTGAACAAGAGGCTGCTATC CTTGTCCCAGGTGATATTGTTAGCATTAAACTTGGAGACATTATCCCAGCCGATGCCCGTCTTC TTGAAGGAGATCCTTTAAAGGTTGATCAGTCTGCTCTAACTGGAGAGTCCCTTCCTGTGACCAA GCACCCTGGTCAAGAAGTTTTCTCTGGTTCAACTTGTAAACAAGGAGAAATCGAAGCGGTTGTT ATAGCCACTGGAGTTCACACCTTCTTTGGTAAAGCTGCTCACCTTGTGGACAGCACTAACCAAG TTGGGCACTTCCAGAAAGTTCTTACATCCATTGGAAACTTCTGTATCTGTTCTATTGCTATTGG TATAGCGATTGAAATAGTCGTCATGTACCCTATCCAACACCGAAAGTACAGAGATGGAATTGAC AATCTCTTGGTCCTCTTGATCGGTGGTATCCCCATTGCTATGCCCACGGTCTTGTCTGTGACTA TGGCTATCGGGTCTCACAGGTTGTCTCAGCAAGGTGCTATCACCAAACGTATGACAGCCATTGA AGAAATGGCGGGAATGGATGTCCTTTGCAGTGACAAAACCGGGACACTAACCCTTAATAAATTG AGTGTGGATAAAAACTTGGTTGAGGTTTTCTGCAAGGGTGTGGAGAAAGATCAAGTTCTACTAT TTGCAGCTATGGCTTCTAGGGTGGAGAACCAGGACGCTATTGATGCAGCCATGGTTGGAATGCT TGCTGATCCGAAAGAGGTATAACTCTAATCATTTTGAATTACTTCTTTAGTTTAGTGAAAGGTC GAGAAAACAAGTTCTTAATTTCTTATGTTTCACTTGGATTTTCATAGGCCCGAGCTGGAATCAG AGAGGTTCACTTCCTTCCATTCAACCCTGTGGATAAGAGAACTGCTTTGACTTACATCGACTCT GATGGTAACTGGCACAGAGTCAGCAAAGGTGCTCCCGAGCAGGTGATGAATCTTCAACTTTCTC CTAAAGATGTTGCGTTTTTCCTTTATTCTGTGTACTAATTCGATTCTCCCACACAGATCCTTGA CCTTGCCAATGCCAGGCCTGACCTTAGGAAGAAGGTACTCTCTTGTATTGACAAGTACGCTGAG CGCGGTCTTAGGTCGTTGGCAGTAGCTCGTCAGGTACTTTTTTACAAGCAATTTTTACATTGGT CTTATTTGGGTTTTTTTTTTGGCCTGTAAATCAACTGTTTAATTGCATATTCCTTTTTAGGTGG TACCCGAGAAAACAAAAGAAAGCCCAGGTGGACCATGGGAATTTGTTGGCTTGTTGCCTCTTTT TGACCCTCCAAGACACGACAGTGCCGAAACCATTCGTAGGGCGTTGAATCTAGGTGTTAATGTG AAGATGATCACTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.629635392

Conservation Information
Conserved circRNAs	NA
PMCS	0.629635392

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT2G18960_circ_g.5

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