Plant Circular RNA Database

Detail information of AT5G06120_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT5G06120_circ_g.3
					
						ID in PlantcircBase
						ath_circ_036653
					
						Alias
						Ath_circ_FC3174
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 1845292-1848474  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT5G06120						
					
						Parent gene annotation
						
							ARM repeat superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G06120_circ_g.1 AT5G06120_circ_g.2 AT5G06120_circ_g.4 AT5G06120_circ_g.5 AT5G06120_circ_g.6 AT5G06120_circ_g.7 						
					
						Support reads
						11
					
						Tissues
						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  
						
							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
						AT5G06120.8:10
AT5G06120.9:10
AT5G06120.1:10
AT5G06120.2:10
AT5G06120.7:10
AT5G06120.4:10
AT5G06120.10:10
AT5G06120.3:10
AT5G06120.6:10
AT5G06120.5:10

General Information
CircRNA Name	AT5G06120_circ_g.3
ID in PlantcircBase	ath_circ_036653
Alias	Ath_circ_FC3174
Organism	Arabidpsis thaliana
Position	chr5: 1845292-1848474 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT5G06120
Parent gene annotation	ARM repeat superfamily protein
Parent gene strand	+
Alternative splicing	AT5G06120_circ_g.1 AT5G06120_circ_g.2 AT5G06120_circ_g.4 AT5G06120_circ_g.5 AT5G06120_circ_g.6 AT5G06120_circ_g.7
Support reads	11
Tissues	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	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	AT5G06120.8:10 AT5G06120.9:10 AT5G06120.1:10 AT5G06120.2:10 AT5G06120.7:10 AT5G06120.4:10 AT5G06120.10:10 AT5G06120.3:10 AT5G06120.6:10 AT5G06120.5:10

			
						 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  
						
							ATCTGTCCCATACTTGAAGGGTGATTCACCAAGTCTACTTGATGAATTTGTACCTAAAATTACA
GAGGGTTTTATCATCTCCAGATTCAATTCTGTGCAGattctgctttgttaccaatggagagctt
ggcgcaacttgaggcaatgtgcgagagattatacaactcacaggattcagctgagagggctcat
gctgaaaa

									
								

					

						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
						
							ATTCTGCTTTGTTACCAATGGAGAGCTTGGCGCAACTTGAGGCAATGTGCGAGAGATTATACAA
CTCACAGGATTCAGCTGAGAGGGCTCATGCTGAAAATAGTCTGAGATGCTTTTCTGTGAATACG
GATTATATATCACAATGTCAATACATTCTCGACAATTCATCAAAACCTTATTCCTTAATGCTCG
CTAGCTCGAGTTTGTTAAAGCAAGTAACTGATCATACTCTTCCGCTGAATCTTCGCCTTGACAT
CAGTAAACTTCTTATGTCCTCCTAACCAAATAACTAGAATATCTCTTTTTGGCATTTAATATCT
TACTTGTTTCTGGTGTTCTTTCTGTTGTCTTTAGGGGCTTATATTGTGAACTATCTGGCTACAA
GAGGACCGAAGATGCAATCATTTGTTATCGCTTCTCTCATTCAACTGCTTTGCCGGCTCACAAA
GTTTGGATGGTTAGATGATGATAGATTCAGGGATGTGGTTAAGGAATCTACAAACTTCTTGGAA
CAGGTGATTCATCTTCTGGGGGAATACAGTGCTTTGTGGACATTTTTTTGTAGAATTTTCAGAT
ATTTTTAACAAGGGCTTGCTGAATACGTTGCTTACATCAATTTTATTTCAATAGGGTTCCTCGG
ATCACTATGCTATTGGTTTAAGAATTTTGGATCAACTTGTGCAGGAGATGAATCAGGTTAGTGA
TGTATTGTGGTTGATTTTCCATGTCACAGACATGTCCTAACATAGGCTGGAATAACTCTCTTTT
AAGTTTGAGTTCTTGGCATGTATTGCTAATTGCATTTGAGTCATGTTTTTGTATATTAGCTTTG
AGTTGCCTCATATTTTTGTTTCTTTTCGATCTAGAGTAGCAGTCTGTTATAGATACAAGTGGGA
GGTTTGTGCTGTATCTAAATAATTGTCTGTTTTCACCATTCCTTTATTTTTTTAATTAAAAACA
TTTAAGATGGCTGTTTTGTTAGACTGGCCAGAATTATATGTGCACAGTGTGCATGCTTTTAGAT
AGATAGCGTGTCACAAACTATATTTTTTCGAGGGTATTTATTTCTAACTTTTTGTTTTTCTACT
GTGTTCCAACTTACCAGGGTATTTTTTTTAAATGCTTATTGACATTTTTTCATCCCTTTTTTGC
TCAATTCTTAGCCTAATCCAGGACTGCCATCTACACATCATCGGCGGGTTGCATGCAACTTTAG
GGATCAATCCTTATTTCAAGTTTTCAGAATAGCTTTGACGTCATTAAGCTATCTGAAAAATGAT
GGTAATATGAGTCATCTATGTCAAAATTTTCGTTATATTCCGTCATGCCAAGTATGAAAACTTC
TACATACCAGCTTCATAATTTATGCACATTGGAATGTTTTGTAATCGTTAAGTATGTAACTATC
TTTGTCGATGTATATCTGTTGGTCTTAGCATAGGAGTGGAAATTTTCAATTGTAATGAGTCAGA
TATTTTCTTTTAACCAGCCGCTGGTCGTTTACAAGAATTGGCGCTTTCTCTTGCACTGAGGTGT
GTATCATTTGACTTTGTCGGAACTTCAATTGATGAAAGCACAGAGGAGTTTGGTACAGTTCAGG
TTGAACATTAATGATCTTCTATCTTCAATCTCTTTTCAATGCTTTGTGCCTATGTATTTGTGTA
CTCGTTTTTAAGGGGTGTTAACTTCTAGTGTTACTGATAATGTTTAGATTCCAACTTCCTGGAG
GTCAGTATTGGAGGATTCTTCCACGCTGCAGATATTTTTCGATTATTATGGTAGTACAGAGTCC
CCTCTTTCGAAAGAGGTATGTCTTTATTGTTATTTGTTTTTTTCCGTGCTTGACTAGAAGAAAC
AAAATGGCATCTTTTGCATCAAAGATAGATTTTGACTACCTTTTTTTTGTGAATTTTTTATTCA
CTCTCATTATGAGGACAAATGATTCAATTGCAGTAATGTCACTGATGACGTGATTTATTTCATG
TACAGTTGGGACTCAGTAGGTATTATAGATGACTTACAATTTGTTATTTTTTAATGTTTCTCTG
TTTTAACTTCTAGGCACTTGAGTGCTTGGTGCGATTGGCTTCTGTAAGGCGCTCTCTGTTCACA
AATGATGCTACACGCTCTAATTTTCTAGCTCATTTGATGACGGGAACCAAAGAAATTCTTCAAA
CTGGAAAAGGTATGCTTGATGTTTTTATACTATGGGACTTTCCTATGTCTGACTGTAAATATTG
CGCTTAAGGTGTTGCATTGTATGCAACTTTTAACTCTTCATGACTGACATTCCAGCTTCTCAAT
TACACAGTCTGTTAACATGTTATGTACAGTATTTGTTAATATTTTGTTCTGTTGCAAACTTTAC
ACCTCATTGAACTATAACATCTCACTGATCTTGGTTCGTCAACACAAATTACTTTTGTTGGATC
AGGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAAT
TATCAGGTAAATTTCTCGGTTAGATTCCTTTCTAGTTTACAGATTACGGTTTGTACAATTTTGT
TTGTGTTGTAGCTTGAAATTTATGTTATGATGCCATGTACTTGAGTAAATACACACATGTTCCT
TTTTTCTGTATGTGACAGTTGGACAGTCTTAACTATTCGTAATTTGTGACGCTATCTATGATTG
TCATATACCATTTGGATATAATTTATTGGTTTATATGGCTAAATTCAGACATTATGTAATAGCA
TGTTACGTGTATGAATTCATCTGCAGCTTTCAGAGCTTGTGAAGATGGAAGGTTATGGTGAGTG
GATACAGTTGGTGGCAGAGTTCACACTTAAATCTCTCCAGTCATGGCAGGTTCGCAAGTTTATG
TTAGTGAATGCATTAGCATACCAATTATAGACCCTACTAGTCTTTAAAGTTCTGGTTATCCTCC
AGCATGATCGTTTTTAGTATATAGCTTAAATATTTGGCGGAGATTGTATCTTGTTTGCAAAATC
CATGTGACCTTTTTTCTTACAGTGGGCCAGCAGCAGCGTGTATTACCTTCTTGGGATGTGGTCC
AGATTAGTAGCATCTGTCCCATACTTGAAGGGTGATTCACCAAGTCTACTTGATGAATTTGTAC
CTAAAATTACAGAGGGTTTTATCATCTCCAGATTCAATTCTGTGCAG
						
					

			
		

Sequences
Splice junction sequence	ATCTGTCCCATACTTGAAGGGTGATTCACCAAGTCTACTTGATGAATTTGTACCTAAAATTACA GAGGGTTTTATCATCTCCAGATTCAATTCTGTGCAGattctgctttgttaccaatggagagctt ggcgcaacttgaggcaatgtgcgagagattatacaactcacaggattcagctgagagggctcat gctgaaaa
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	ATTCTGCTTTGTTACCAATGGAGAGCTTGGCGCAACTTGAGGCAATGTGCGAGAGATTATACAA CTCACAGGATTCAGCTGAGAGGGCTCATGCTGAAAATAGTCTGAGATGCTTTTCTGTGAATACG GATTATATATCACAATGTCAATACATTCTCGACAATTCATCAAAACCTTATTCCTTAATGCTCG CTAGCTCGAGTTTGTTAAAGCAAGTAACTGATCATACTCTTCCGCTGAATCTTCGCCTTGACAT CAGTAAACTTCTTATGTCCTCCTAACCAAATAACTAGAATATCTCTTTTTGGCATTTAATATCT TACTTGTTTCTGGTGTTCTTTCTGTTGTCTTTAGGGGCTTATATTGTGAACTATCTGGCTACAA GAGGACCGAAGATGCAATCATTTGTTATCGCTTCTCTCATTCAACTGCTTTGCCGGCTCACAAA GTTTGGATGGTTAGATGATGATAGATTCAGGGATGTGGTTAAGGAATCTACAAACTTCTTGGAA CAGGTGATTCATCTTCTGGGGGAATACAGTGCTTTGTGGACATTTTTTTGTAGAATTTTCAGAT ATTTTTAACAAGGGCTTGCTGAATACGTTGCTTACATCAATTTTATTTCAATAGGGTTCCTCGG ATCACTATGCTATTGGTTTAAGAATTTTGGATCAACTTGTGCAGGAGATGAATCAGGTTAGTGA TGTATTGTGGTTGATTTTCCATGTCACAGACATGTCCTAACATAGGCTGGAATAACTCTCTTTT AAGTTTGAGTTCTTGGCATGTATTGCTAATTGCATTTGAGTCATGTTTTTGTATATTAGCTTTG AGTTGCCTCATATTTTTGTTTCTTTTCGATCTAGAGTAGCAGTCTGTTATAGATACAAGTGGGA GGTTTGTGCTGTATCTAAATAATTGTCTGTTTTCACCATTCCTTTATTTTTTTAATTAAAAACA TTTAAGATGGCTGTTTTGTTAGACTGGCCAGAATTATATGTGCACAGTGTGCATGCTTTTAGAT AGATAGCGTGTCACAAACTATATTTTTTCGAGGGTATTTATTTCTAACTTTTTGTTTTTCTACT GTGTTCCAACTTACCAGGGTATTTTTTTTAAATGCTTATTGACATTTTTTCATCCCTTTTTTGC TCAATTCTTAGCCTAATCCAGGACTGCCATCTACACATCATCGGCGGGTTGCATGCAACTTTAG GGATCAATCCTTATTTCAAGTTTTCAGAATAGCTTTGACGTCATTAAGCTATCTGAAAAATGAT GGTAATATGAGTCATCTATGTCAAAATTTTCGTTATATTCCGTCATGCCAAGTATGAAAACTTC TACATACCAGCTTCATAATTTATGCACATTGGAATGTTTTGTAATCGTTAAGTATGTAACTATC TTTGTCGATGTATATCTGTTGGTCTTAGCATAGGAGTGGAAATTTTCAATTGTAATGAGTCAGA TATTTTCTTTTAACCAGCCGCTGGTCGTTTACAAGAATTGGCGCTTTCTCTTGCACTGAGGTGT GTATCATTTGACTTTGTCGGAACTTCAATTGATGAAAGCACAGAGGAGTTTGGTACAGTTCAGG TTGAACATTAATGATCTTCTATCTTCAATCTCTTTTCAATGCTTTGTGCCTATGTATTTGTGTA CTCGTTTTTAAGGGGTGTTAACTTCTAGTGTTACTGATAATGTTTAGATTCCAACTTCCTGGAG GTCAGTATTGGAGGATTCTTCCACGCTGCAGATATTTTTCGATTATTATGGTAGTACAGAGTCC CCTCTTTCGAAAGAGGTATGTCTTTATTGTTATTTGTTTTTTTCCGTGCTTGACTAGAAGAAAC AAAATGGCATCTTTTGCATCAAAGATAGATTTTGACTACCTTTTTTTTGTGAATTTTTTATTCA CTCTCATTATGAGGACAAATGATTCAATTGCAGTAATGTCACTGATGACGTGATTTATTTCATG TACAGTTGGGACTCAGTAGGTATTATAGATGACTTACAATTTGTTATTTTTTAATGTTTCTCTG TTTTAACTTCTAGGCACTTGAGTGCTTGGTGCGATTGGCTTCTGTAAGGCGCTCTCTGTTCACA AATGATGCTACACGCTCTAATTTTCTAGCTCATTTGATGACGGGAACCAAAGAAATTCTTCAAA CTGGAAAAGGTATGCTTGATGTTTTTATACTATGGGACTTTCCTATGTCTGACTGTAAATATTG CGCTTAAGGTGTTGCATTGTATGCAACTTTTAACTCTTCATGACTGACATTCCAGCTTCTCAAT TACACAGTCTGTTAACATGTTATGTACAGTATTTGTTAATATTTTGTTCTGTTGCAAACTTTAC ACCTCATTGAACTATAACATCTCACTGATCTTGGTTCGTCAACACAAATTACTTTTGTTGGATC AGGTCTTGCTGATCATGATAATTACCACGTGTTCTGCCGTCTACTTGGGCGTTTTAGGCTGAAT TATCAGGTAAATTTCTCGGTTAGATTCCTTTCTAGTTTACAGATTACGGTTTGTACAATTTTGT TTGTGTTGTAGCTTGAAATTTATGTTATGATGCCATGTACTTGAGTAAATACACACATGTTCCT TTTTTCTGTATGTGACAGTTGGACAGTCTTAACTATTCGTAATTTGTGACGCTATCTATGATTG TCATATACCATTTGGATATAATTTATTGGTTTATATGGCTAAATTCAGACATTATGTAATAGCA TGTTACGTGTATGAATTCATCTGCAGCTTTCAGAGCTTGTGAAGATGGAAGGTTATGGTGAGTG GATACAGTTGGTGGCAGAGTTCACACTTAAATCTCTCCAGTCATGGCAGGTTCGCAAGTTTATG TTAGTGAATGCATTAGCATACCAATTATAGACCCTACTAGTCTTTAAAGTTCTGGTTATCCTCC AGCATGATCGTTTTTAGTATATAGCTTAAATATTTGGCGGAGATTGTATCTTGTTTGCAAAATC CATGTGACCTTTTTTCTTACAGTGGGCCAGCAGCAGCGTGTATTACCTTCTTGGGATGTGGTCC AGATTAGTAGCATCTGTCCCATACTTGAAGGGTGATTCACCAAGTCTACTTGATGAATTTGTAC CTAAAATTACAGAGGGTTTTATCATCTCCAGATTCAATTCTGTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.112121434

Conservation Information
Conserved circRNAs	NA
PMCS	0.112121434

			
						 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
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT5G06120_circ_g.3

Address

Any questions?

Supported by