Plant Circular RNA Database

Detail information of 3_circ_ig.7

			
						 General Information
					
						CircRNA Name
						3_circ_ig.7
					
						ID in PlantcircBase
						ath_circ_023753
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 9245341-9249219  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							3_circ_ig.3 3_circ_ig.4 3_circ_ig.5 3_circ_ig.6 3_circ_ig.8 						
					
						Support reads
						12
					
						Tissues
						root, aerial, inflorescences, whole_plant
					
						Exon boundary  
						
							No-No							"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
						NA

General Information
CircRNA Name	3_circ_ig.7
ID in PlantcircBase	ath_circ_023753
Alias	NA
Organism	Arabidpsis thaliana
Position	chr3: 9245341-9249219 JBrowse»
Reference genome	TAIR10.38
Type	ig-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	3_circ_ig.3 3_circ_ig.4 3_circ_ig.5 3_circ_ig.6 3_circ_ig.8
Support reads	12
Tissues	root, aerial, inflorescences, whole_plant
Exon boundary	No-No "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	NA

			
						 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  
						
							TTGTTTCTCTACAGTATCACTCTCTGTAATGTCTGGTAATGAAGTGATCTTCAGGAAAGAGTCT
CAAATTGAGGAACGAGAGCTAAGACTTCTCACCGAGctgcccgactgctgtgctgctggtacaa
atctcatgaacctcatcttccaagtgatggagttagatggttctttggatactagcatccatca
tgacgaaa

									
								

					

						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
						
							CTGCCCGACTGCTGTGCTGCTGGTACAAATCTCATGAACCTCATCTTCCAAGTGATGGAGTTAG
ATGGTTCTTTGGATACTAGCATCCATCATGACGAAAAACCAGGTTGTTTCCATACAATGAGCAT
TGAATCTGATTCAAGCAGCATTGAGAGTGCAATCAGATATGCCTTTGTCCACGGGTCCTGCAAA
GTTTCTTCTCTCTCCCTACCTGAGAACGAGGGTGTCTTTTCGTGCAGGGTGTTCCATTCTCGAT
ATCCCGAGCTGCAGATGAGCGTGAAGGTAGTAATTTTGAATTGGGCATATGTTGCATTATGTTT
CTACTATGGGTAGAATTTTCAGTTCAAGCTCGTGTTAACACACTTTTTCACTCTGATTCTCTGT
TTTTTTATTTTCAGATTCAGGTAACATCTGCTCCCACATCTGAAAGAGAGGAGAGTGGATATTC
TACACCGCATTCAATAACGACTCCACCACCTGAATCAGGGATTCCTTCAATCACAAATCCATGG
CAGACTCCATGTTCACAGTTTGGAGTATTGGCCATTAGGTCATCATCATCATTGGCTCTCAGTA
GCGAAACTAGCCTGATGGATATGCCACAGTACACTGAGGTATAGCCATCACCATTTAAGCGGCA
TATTTTGATATGTCTCTTTCATTTATACTTTAGTGCAGGCAAAAAAACATCTAGAATGAGCTAG
CTTTTGTATTCCGAGTTCATCTCAGCCGCATGCTTATAATGTTCCTTTCTTACTGCAGGATTTA
AAAGAAAAAGGATTATGTATGTTTTGTCAATTTTGGTTTTATGATCTTTTAAATTTAAGTATTC
GTTTTACGTTTAAGCTGCGTGTTTATTAACAAGGTTTAATTGGTTTCAAGAGATTTTTTCAGTT
GAAATGGAACTTTTGACAAAGGTTCTCAAGATGAAGGATTGTTTAGCTGTAAGGAAGCTTTGAA
GACAGTTCAGTAGCCAACAAAGGTATGGTTAAGTAGCTCTTTCTCTCTCTCCCTCCCACTTATC
ATGTCTCTTGCACTATATCAAAAACAGAGAATAAATCCACGAAAACCCACACATAAACGCACAA
AAAAACAGAAAACAGAACATAAATCCACGAAAAACCACACTCAAAACAAAATCACACACCCAAA
ACAAAATTCAAACGCACAAAACGAATTCAAACGCACAAACAAAAAACATAGCACACAACGTCCA
AACGCAACTTCAAGAAATAGAAAACAAACTTTCACGGGATTTTTTTAACAAAAAATGTGAATAA
TCACATTTGATGGCAAGAAATTGCGTTGTGATTATTCCCTTATTTCTTACTTTCTTATCTAGTT
GCTTTATTATAGCTTGTATTAACTTATATATTTGAAAATGCTTTGGTGTACACGAGCATGGTTT
GTAGTTTAAACCAGGTTTTCATAAGAAAGAGCAAAAGTTTCAGATACGTGTCAATATACTCATG
AATGATGAGGTAATCTTGTTATCATCATTTTAAACTCTTATTATAATTAATGTGAATTTATGTA
AACCTAATTATATGTTTTAAGTATTCACAGGTTTCAGCTATGATCTTCCATTTATTCAGAGGAT
AGCTCCGACGGAGTATCCAAATTCTGCCTCAAAATTAGAGAATGGTAGTGCTTAATAGTATAGT
ACTGTGTGTTTTTTCTCATAATTAAGTTGACATTGTTATTTTGTTCATTTTTTTGTGTCTAATG
TCCTTTTAATTGGCATAATTGATGTGTAACTTGCAGAAATAACTTTGTGTGAGTCTGCTGATGT
ATCTATCAAGGAGTTGATAAAGAGACTTAATGAATGTAAGCTTTTTAAACGAGTTGGTGAAGCA
TTACAACTATTTTTCAGGCTCAGAACTACAAAAGAACTTTCGGTTTCATTTGTGCAAGAAAACA
ATAATGAGTAAAGATGCAACCAAAACATATCTTGTCACTTACTTTTTGCTTCTATTTAGGTACA
CCGAGCAAGACTAGGTGGCAAAAGGGATGTCGTTGTAAAAGTGAGAAATAATCAGGAGACAACT
GAAATCTTCCTAGCTTGCTTTCAGTTAGTTTCTTAATGTGCTACTACATGTTTAGGTACAAAGT
CGTGTGGCGTTGACAATTTGATGATGATAGATGTAATAAACTTGCAAATATTTGCATTATACAT
TCAGAAAACGAGAAGCAGGTATTTATCATTTCTATCTGGTGAGAATTTATAGTCCCCCAAGTCA
CACTATAAGTCCTTGTTTTTCATTTTCTAGATTGGGTATGAATTCAATGGAGGCCAATGCTATG
GAAATCCTCCGACGTTTTTTTAATGATATGATAAACAATGGATAGAGTCATGTTCCGTTCCCAG
GGTACTTGTTTTATAAATTGACTTTTTAAGGATTCCTGTTTCACTGATCAAGTGTTTGTTGACA
GAATCTCGTTTTGTTTTTTTCCTATCTTGCTTTCCATTAGTTTCTGAAAGTGCTTTCAGTCCAA
AGTCCTGGCGTTGAGAACTCGATGGTGCAAAAAAAGAGAAGCATGTATTTATCATTTCTGGTAA
GAATTTTACATGTAAATCCTTGTTTTTCATTTTTCATTGCATTGGCCTCGAACCTTGATTTATA
CTGAAACTAACAGTTATCCATTTTCTCTTGTTAATGCAATTCACACCATAGAAAGCATAAAACC
AACGTATAAAGTCAAAAAGGTTTGGACTGGTGATCCTTGCTCTCCAAGACTATTCCCTTGGAAA
GGTACTTCAAATTACCAAATAAAATCCCTGTAAGTCATTCATTTCAACAAGACAATAACTCATT
TTTGTAATTTCCCTTAAGGAATTCTGCTTATGAGCTTAGTTCAAGTGGGTTACAAGGACCAATA
GCCGTCTCATTTAGACATCTTTCCCTTCTTGAGTCACTGTAAGTATACAAATTCAAGCCATACA
CACACACTACCACCCTCTTTATTCACATTATATATAAGAGTCGTGTGCATTGTTTTCCCAATGA
TTCATAAAACAACAACCTAAGAAAGTGACAAACATTTGATAATGTATTTGTCTATGTCACAGGA
ATTTGAAAAGAAATAACTTGACTGGGTTTGTCCCAAGATCTCACAGGAAAAGAACAATTGCTAG
TGAACTTGCACCAAGAGGTATATTTTCTTGTCAAATCCCCGGAACCATAGTTATCTTCTTAAGA
CAATCTTTGTCTGTACCATTTTCTGAAGCTTGTTAAGAACAGAATCGTGTAATTGAATCTTGAT
TACAAATCCTTGTAGTTACGCAAAATAAGGTTAGGAATCACAAACCCCTTTCTTCGTATTTCTT
TGTTGCTCCGTTTATAGTAATCAATCTCTTAGTGATTTAGAAGAATCTGTGAACTTCGTATTTG
TGTGATGATGCCGATGCTGATGATCTTCATTTTGTGTCCGTTTATAGCTAGATTTTCTCTGGTT
TCAATTCAATCATGTAGGTTATTGAAAAACGTTGGTTACACGTGTTTGGATTAAGAAAATCTAT
CCATTTAGACTTCTTGTGATGATTTTTCTCTGTTTACTGATTCAGTTCTTTGGCTCTAGTGTTT
TAGTGTCTCTAAGATATTACATGACGCTTAAAGTTCTTTCATCATTTGATAGGTTGATAGTCAT
GGCTGCATTGATCTCTCTGACATTCTTAAGGTTACAGAAGGCTATGAGAAATCTGGTAACGTGA
TCTTTTCAATTTCTAAATATTTCCGGTGACATTTATTTTTTGATTTTTTGCTGATTGTCTAGCG
TCTTTGTTTCTCTACAGTATCACTCTCTGTAATGTCTGGTAATGAAGTGATCTTCAGGAAAGAG
TCTCAAATTGAGGAACGAGAGCTAAGACTTCTCACCGAG
						
					

			
		

Sequences
Splice junction sequence	TTGTTTCTCTACAGTATCACTCTCTGTAATGTCTGGTAATGAAGTGATCTTCAGGAAAGAGTCT CAAATTGAGGAACGAGAGCTAAGACTTCTCACCGAGctgcccgactgctgtgctgctggtacaa atctcatgaacctcatcttccaagtgatggagttagatggttctttggatactagcatccatca tgacgaaa
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	CTGCCCGACTGCTGTGCTGCTGGTACAAATCTCATGAACCTCATCTTCCAAGTGATGGAGTTAG ATGGTTCTTTGGATACTAGCATCCATCATGACGAAAAACCAGGTTGTTTCCATACAATGAGCAT TGAATCTGATTCAAGCAGCATTGAGAGTGCAATCAGATATGCCTTTGTCCACGGGTCCTGCAAA GTTTCTTCTCTCTCCCTACCTGAGAACGAGGGTGTCTTTTCGTGCAGGGTGTTCCATTCTCGAT ATCCCGAGCTGCAGATGAGCGTGAAGGTAGTAATTTTGAATTGGGCATATGTTGCATTATGTTT CTACTATGGGTAGAATTTTCAGTTCAAGCTCGTGTTAACACACTTTTTCACTCTGATTCTCTGT TTTTTTATTTTCAGATTCAGGTAACATCTGCTCCCACATCTGAAAGAGAGGAGAGTGGATATTC TACACCGCATTCAATAACGACTCCACCACCTGAATCAGGGATTCCTTCAATCACAAATCCATGG CAGACTCCATGTTCACAGTTTGGAGTATTGGCCATTAGGTCATCATCATCATTGGCTCTCAGTA GCGAAACTAGCCTGATGGATATGCCACAGTACACTGAGGTATAGCCATCACCATTTAAGCGGCA TATTTTGATATGTCTCTTTCATTTATACTTTAGTGCAGGCAAAAAAACATCTAGAATGAGCTAG CTTTTGTATTCCGAGTTCATCTCAGCCGCATGCTTATAATGTTCCTTTCTTACTGCAGGATTTA AAAGAAAAAGGATTATGTATGTTTTGTCAATTTTGGTTTTATGATCTTTTAAATTTAAGTATTC GTTTTACGTTTAAGCTGCGTGTTTATTAACAAGGTTTAATTGGTTTCAAGAGATTTTTTCAGTT GAAATGGAACTTTTGACAAAGGTTCTCAAGATGAAGGATTGTTTAGCTGTAAGGAAGCTTTGAA GACAGTTCAGTAGCCAACAAAGGTATGGTTAAGTAGCTCTTTCTCTCTCTCCCTCCCACTTATC ATGTCTCTTGCACTATATCAAAAACAGAGAATAAATCCACGAAAACCCACACATAAACGCACAA AAAAACAGAAAACAGAACATAAATCCACGAAAAACCACACTCAAAACAAAATCACACACCCAAA ACAAAATTCAAACGCACAAAACGAATTCAAACGCACAAACAAAAAACATAGCACACAACGTCCA AACGCAACTTCAAGAAATAGAAAACAAACTTTCACGGGATTTTTTTAACAAAAAATGTGAATAA TCACATTTGATGGCAAGAAATTGCGTTGTGATTATTCCCTTATTTCTTACTTTCTTATCTAGTT GCTTTATTATAGCTTGTATTAACTTATATATTTGAAAATGCTTTGGTGTACACGAGCATGGTTT GTAGTTTAAACCAGGTTTTCATAAGAAAGAGCAAAAGTTTCAGATACGTGTCAATATACTCATG AATGATGAGGTAATCTTGTTATCATCATTTTAAACTCTTATTATAATTAATGTGAATTTATGTA AACCTAATTATATGTTTTAAGTATTCACAGGTTTCAGCTATGATCTTCCATTTATTCAGAGGAT AGCTCCGACGGAGTATCCAAATTCTGCCTCAAAATTAGAGAATGGTAGTGCTTAATAGTATAGT ACTGTGTGTTTTTTCTCATAATTAAGTTGACATTGTTATTTTGTTCATTTTTTTGTGTCTAATG TCCTTTTAATTGGCATAATTGATGTGTAACTTGCAGAAATAACTTTGTGTGAGTCTGCTGATGT ATCTATCAAGGAGTTGATAAAGAGACTTAATGAATGTAAGCTTTTTAAACGAGTTGGTGAAGCA TTACAACTATTTTTCAGGCTCAGAACTACAAAAGAACTTTCGGTTTCATTTGTGCAAGAAAACA ATAATGAGTAAAGATGCAACCAAAACATATCTTGTCACTTACTTTTTGCTTCTATTTAGGTACA CCGAGCAAGACTAGGTGGCAAAAGGGATGTCGTTGTAAAAGTGAGAAATAATCAGGAGACAACT GAAATCTTCCTAGCTTGCTTTCAGTTAGTTTCTTAATGTGCTACTACATGTTTAGGTACAAAGT CGTGTGGCGTTGACAATTTGATGATGATAGATGTAATAAACTTGCAAATATTTGCATTATACAT TCAGAAAACGAGAAGCAGGTATTTATCATTTCTATCTGGTGAGAATTTATAGTCCCCCAAGTCA CACTATAAGTCCTTGTTTTTCATTTTCTAGATTGGGTATGAATTCAATGGAGGCCAATGCTATG GAAATCCTCCGACGTTTTTTTAATGATATGATAAACAATGGATAGAGTCATGTTCCGTTCCCAG GGTACTTGTTTTATAAATTGACTTTTTAAGGATTCCTGTTTCACTGATCAAGTGTTTGTTGACA GAATCTCGTTTTGTTTTTTTCCTATCTTGCTTTCCATTAGTTTCTGAAAGTGCTTTCAGTCCAA AGTCCTGGCGTTGAGAACTCGATGGTGCAAAAAAAGAGAAGCATGTATTTATCATTTCTGGTAA GAATTTTACATGTAAATCCTTGTTTTTCATTTTTCATTGCATTGGCCTCGAACCTTGATTTATA CTGAAACTAACAGTTATCCATTTTCTCTTGTTAATGCAATTCACACCATAGAAAGCATAAAACC AACGTATAAAGTCAAAAAGGTTTGGACTGGTGATCCTTGCTCTCCAAGACTATTCCCTTGGAAA GGTACTTCAAATTACCAAATAAAATCCCTGTAAGTCATTCATTTCAACAAGACAATAACTCATT TTTGTAATTTCCCTTAAGGAATTCTGCTTATGAGCTTAGTTCAAGTGGGTTACAAGGACCAATA GCCGTCTCATTTAGACATCTTTCCCTTCTTGAGTCACTGTAAGTATACAAATTCAAGCCATACA CACACACTACCACCCTCTTTATTCACATTATATATAAGAGTCGTGTGCATTGTTTTCCCAATGA TTCATAAAACAACAACCTAAGAAAGTGACAAACATTTGATAATGTATTTGTCTATGTCACAGGA ATTTGAAAAGAAATAACTTGACTGGGTTTGTCCCAAGATCTCACAGGAAAAGAACAATTGCTAG TGAACTTGCACCAAGAGGTATATTTTCTTGTCAAATCCCCGGAACCATAGTTATCTTCTTAAGA CAATCTTTGTCTGTACCATTTTCTGAAGCTTGTTAAGAACAGAATCGTGTAATTGAATCTTGAT TACAAATCCTTGTAGTTACGCAAAATAAGGTTAGGAATCACAAACCCCTTTCTTCGTATTTCTT TGTTGCTCCGTTTATAGTAATCAATCTCTTAGTGATTTAGAAGAATCTGTGAACTTCGTATTTG TGTGATGATGCCGATGCTGATGATCTTCATTTTGTGTCCGTTTATAGCTAGATTTTCTCTGGTT TCAATTCAATCATGTAGGTTATTGAAAAACGTTGGTTACACGTGTTTGGATTAAGAAAATCTAT CCATTTAGACTTCTTGTGATGATTTTTCTCTGTTTACTGATTCAGTTCTTTGGCTCTAGTGTTT TAGTGTCTCTAAGATATTACATGACGCTTAAAGTTCTTTCATCATTTGATAGGTTGATAGTCAT GGCTGCATTGATCTCTCTGACATTCTTAAGGTTACAGAAGGCTATGAGAAATCTGGTAACGTGA TCTTTTCAATTTCTAAATATTTCCGGTGACATTTATTTTTTGATTTTTTGCTGATTGTCTAGCG TCTTTGTTTCTCTACAGTATCACTCTCTGTAATGTCTGGTAATGAAGTGATCTTCAGGAAAGAG TCTCAAATTGAGGAACGAGAGCTAAGACTTCTCACCGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.65735823

Conservation Information
Conserved circRNAs	NA
PMCS	0.65735823

			
						 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

circRNA

Detail information of 3_circ_ig.7

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