Plant Circular RNA Database

Detail information of AT2G27900_circ_g.9

			
						 General Information
					
						CircRNA Name
						AT2G27900_circ_g.9
					
						ID in PlantcircBase
						ath_circ_015254
					
						Alias
						Ath_circ_FC1366
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 11881287-11882842  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT2G27900						
					
						Parent gene annotation
						
							At2g27890
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G27900_circ_g.10 AT2G27900_circ_g.11 						
					
						Support reads
						4
					
						Tissues
						whole_plant
					
						Exon boundary  
						
							No-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-CA							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
						AT2G27900.1:4
AT2G27900.2:4

General Information
CircRNA Name	AT2G27900_circ_g.9
ID in PlantcircBase	ath_circ_015254
Alias	Ath_circ_FC1366
Organism	Arabidpsis thaliana
Position	chr2: 11881287-11882842 JBrowse»
Reference genome	TAIR10.38
Type	ei-circRNA
Identification method	find_circ
Parent gene	AT2G27900
Parent gene annotation	At2g27890
Parent gene strand	+
Alternative splicing	AT2G27900_circ_g.10 AT2G27900_circ_g.11
Support reads	4
Tissues	whole_plant
Exon boundary	No-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-CA 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	AT2G27900.1:4 AT2G27900.2:4

			
						 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  
						
							ATATGCCAATTGTTTGGAGTCTTTTTCTATTTCGTGTTTCAAGTATTTGGTCAAGAAAATACTA
ATTCAGGTGGAAAAGGAGTTTCCGACTCTTTCAATCggcagaaattttggtctcacccagtctt
gcaacaactcaaatggttgattcagtgaccggaagttcatgtgacccacaggatggtggtctat
tgccggga

									
								

					

						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
						
							GGCAGAAATTTTGGTCTCACCCAGTCTTGCAACAACTCAAATGGTTGATTCAGTGACCGGAAGT
TCATGTGACCCACAGGATGGTGGTCTATTGCCGGGAAGCATACCTCCTTGTACCATTTCCGCTG
AAGAGTCGGATGGAAGTGGAACATCCAGTTCAGTGCAGCTGGCGTCTAATATTGCAATAGATGA
GTCTAGGAATTCTGAAGATAGAGTATCAAGTAGCGAGTCACCATGGTACTATTTACGAAAAGAA
AGTGCAGCTTTTGTTTCAGAAACTCTTCAGAGAGGACGCAGAAATCTTTGGCAACTTACAACAA
GCCGTGTGTCAGTTTTGCTCTCTTCCCCAGGTGCTTCTTCAACAAGTATACATCAGTTCCTAAA
AAATTATGAAGACCTGAGCATCTTTATCCTTGCTGGGGAAGCGTTCTGTGGATTTGAAGTTGTT
GATTTTAGGGAGAAGCTAAAGGGTGTATGCGAAAATTATTTCACTGCATTTCATAGGCAAAGCA
TGCATGTAAGTTCCGTTTTACAATGCCTATTGGGCTGACATTGCCAATACCACATAGCTAGTTA
ATTTCATGCATCACCTCTCCTACATGATAACGTGAAAATAAAGTCTTTGTTTGGTTTTTCTCCC
TTACAGGCGCTTAAAATGGTCCTGGAGAAGGAGACATGGACGAAATTGTCACCAGATACTGTGC
AAGCTATTAATTTTGCTGGTCTTGTGGGGGATGGGGCTCCCCTAATTATTTCTTCCCGCAGTGC
CTCAGGTTCTTCCAGATTCCCTCACTCTGATAAGCCAAGTAACTCAATTGATCCAAGTGGCAAC
AGGAGTGGATTTTCATATTGGCTGAAAAGTGGGAACCCGTTCTCAGCAAAGTTAACTCACTATA
GAGAAGATCAAGACTACTCCTCGATCAATGGAGAAGATCATGAAGGGAATGATAGTATTCATGA
TGATGTTGTGAATCCCAAGATAAGAGACATAAAACGCATCAACGGAGGTAGTCCTGTTTCAGAA
GATGAAAACGAAGACCTTCTTGCTGACTTTATTGATGAGGATAGCCAGCTTCCAAGACGAAGTT
TTACACGTAGTCAATCAAGGACTTCTTCTTCACATTTTAGTACTAATGATGATTTGACAGCTCA
AACAGGATCATCCCTTTGTCTTCTAAGGTAATATATGCGGTTTAGGAAATGTTTGAAATTATAA
TGACAGCCTTCCGATCGCATATTTTCCCTGGCACTTTTATGACATGGAATTGCATTAATTGTGT
TCGATGTCTTAGATCTATGGATAAGTACGCGAGGCTTATGCAGAAGCTAGAAATTGTTAATGCT
GAATTCTTTAAGGTACAAATCCTAATACTTGGAAATTCGTAGATTTCTCTACTCTGCTCCCTCG
ATTTCATTTCTAACTTTTCTCTTACGTCTGTTTGAAATTTTGTAGGGAATATGCCAATTGTTTG
GAGTCTTTTTCTATTTCGTGTTTCAAGTATTTGGTCAAGAAAATACTAATTCAGGTGGAAAAGG
AGTTTCCGACTCTTTCAATC
						
					

			
		

Sequences
Splice junction sequence	ATATGCCAATTGTTTGGAGTCTTTTTCTATTTCGTGTTTCAAGTATTTGGTCAAGAAAATACTA ATTCAGGTGGAAAAGGAGTTTCCGACTCTTTCAATCggcagaaattttggtctcacccagtctt gcaacaactcaaatggttgattcagtgaccggaagttcatgtgacccacaggatggtggtctat tgccggga
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	GGCAGAAATTTTGGTCTCACCCAGTCTTGCAACAACTCAAATGGTTGATTCAGTGACCGGAAGT TCATGTGACCCACAGGATGGTGGTCTATTGCCGGGAAGCATACCTCCTTGTACCATTTCCGCTG AAGAGTCGGATGGAAGTGGAACATCCAGTTCAGTGCAGCTGGCGTCTAATATTGCAATAGATGA GTCTAGGAATTCTGAAGATAGAGTATCAAGTAGCGAGTCACCATGGTACTATTTACGAAAAGAA AGTGCAGCTTTTGTTTCAGAAACTCTTCAGAGAGGACGCAGAAATCTTTGGCAACTTACAACAA GCCGTGTGTCAGTTTTGCTCTCTTCCCCAGGTGCTTCTTCAACAAGTATACATCAGTTCCTAAA AAATTATGAAGACCTGAGCATCTTTATCCTTGCTGGGGAAGCGTTCTGTGGATTTGAAGTTGTT GATTTTAGGGAGAAGCTAAAGGGTGTATGCGAAAATTATTTCACTGCATTTCATAGGCAAAGCA TGCATGTAAGTTCCGTTTTACAATGCCTATTGGGCTGACATTGCCAATACCACATAGCTAGTTA ATTTCATGCATCACCTCTCCTACATGATAACGTGAAAATAAAGTCTTTGTTTGGTTTTTCTCCC TTACAGGCGCTTAAAATGGTCCTGGAGAAGGAGACATGGACGAAATTGTCACCAGATACTGTGC AAGCTATTAATTTTGCTGGTCTTGTGGGGGATGGGGCTCCCCTAATTATTTCTTCCCGCAGTGC CTCAGGTTCTTCCAGATTCCCTCACTCTGATAAGCCAAGTAACTCAATTGATCCAAGTGGCAAC AGGAGTGGATTTTCATATTGGCTGAAAAGTGGGAACCCGTTCTCAGCAAAGTTAACTCACTATA GAGAAGATCAAGACTACTCCTCGATCAATGGAGAAGATCATGAAGGGAATGATAGTATTCATGA TGATGTTGTGAATCCCAAGATAAGAGACATAAAACGCATCAACGGAGGTAGTCCTGTTTCAGAA GATGAAAACGAAGACCTTCTTGCTGACTTTATTGATGAGGATAGCCAGCTTCCAAGACGAAGTT TTACACGTAGTCAATCAAGGACTTCTTCTTCACATTTTAGTACTAATGATGATTTGACAGCTCA AACAGGATCATCCCTTTGTCTTCTAAGGTAATATATGCGGTTTAGGAAATGTTTGAAATTATAA TGACAGCCTTCCGATCGCATATTTTCCCTGGCACTTTTATGACATGGAATTGCATTAATTGTGT TCGATGTCTTAGATCTATGGATAAGTACGCGAGGCTTATGCAGAAGCTAGAAATTGTTAATGCT GAATTCTTTAAGGTACAAATCCTAATACTTGGAAATTCGTAGATTTCTCTACTCTGCTCCCTCG ATTTCATTTCTAACTTTTCTCTTACGTCTGTTTGAAATTTTGTAGGGAATATGCCAATTGTTTG GAGTCTTTTTCTATTTCGTGTTTCAAGTATTTGGTCAAGAAAATACTAATTCAGGTGGAAAAGG AGTTTCCGACTCTTTCAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.190775926

Conservation Information
Conserved circRNAs	NA
PMCS	0.190775926

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

			
						 Other Information
					
						References
						Chen et al., 2017a

circRNA

Detail information of AT2G27900_circ_g.9

Address

Any questions?

Supported by