Plant Circular RNA Database

Detail information of AT1G09660_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT1G09660_circ_g.6
					
						ID in PlantcircBase
						ath_circ_001724
					
						Alias
						1:3129044-3130799
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 3129044-3130799  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G09660						
					
						Parent gene annotation
						
							KH domain-containing protein At1g09660/At1g09670
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G09470_circ_g.1 AT1G09470_circ_g.2 AT1G09470_circ_g.3 1_circ_ag.4 AT1G09470_circ_g.5 AT1G09480_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 1_circ_igg.5 AT1G09490_circ_g.1 AT1G09530_circ_g.1 AT1G09560_circ_g.1 AT1G09560_circ_g.2 AT1G09570_circ_g.1 AT1G09570_circ_g.2 AT1G09580_circ_g.1 AT1G09590_circ_g.1 AT1G09590_circ_g.2 AT1G09620_circ_g.1 AT1G09620_circ_g.2 AT1G09620_circ_g.3 AT1G09620_circ_g.4 AT1G09640_circ_g.1 AT1G09640_circ_g.2 AT1G09640_circ_g.3 AT1G09640_circ_g.4 AT1G09640_circ_g.5 AT1G09640_circ_g.6 AT1G09640_circ_g.7 AT1G09640_circ_g.8 AT1G09640_circ_g.9 AT1G09640_circ_g.10 AT1G09660_circ_g.1 AT1G09660_circ_g.2 AT1G09660_circ_g.3 AT1G09660_circ_g.4 AT1G09660_circ_g.5 AT1G09660_circ_g.7 						
					
						Support reads
						1/1
					
						Tissues
						leaf
					
						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
						AT1G09660.2:4
AT1G09660.1:4
AT1G09660.3:4

General Information
CircRNA Name	AT1G09660_circ_g.6
ID in PlantcircBase	ath_circ_001724
Alias	1:3129044-3130799
Organism	Arabidpsis thaliana
Position	chr1: 3129044-3130799 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G09660
Parent gene annotation	KH domain-containing protein At1g09660/At1g09670
Parent gene strand	-
Alternative splicing	AT1G09470_circ_g.1 AT1G09470_circ_g.2 AT1G09470_circ_g.3 1_circ_ag.4 AT1G09470_circ_g.5 AT1G09480_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 1_circ_igg.5 AT1G09490_circ_g.1 AT1G09530_circ_g.1 AT1G09560_circ_g.1 AT1G09560_circ_g.2 AT1G09570_circ_g.1 AT1G09570_circ_g.2 AT1G09580_circ_g.1 AT1G09590_circ_g.1 AT1G09590_circ_g.2 AT1G09620_circ_g.1 AT1G09620_circ_g.2 AT1G09620_circ_g.3 AT1G09620_circ_g.4 AT1G09640_circ_g.1 AT1G09640_circ_g.2 AT1G09640_circ_g.3 AT1G09640_circ_g.4 AT1G09640_circ_g.5 AT1G09640_circ_g.6 AT1G09640_circ_g.7 AT1G09640_circ_g.8 AT1G09640_circ_g.9 AT1G09640_circ_g.10 AT1G09660_circ_g.1 AT1G09660_circ_g.2 AT1G09660_circ_g.3 AT1G09660_circ_g.4 AT1G09660_circ_g.5 AT1G09660_circ_g.7
Support reads	1/1
Tissues	leaf
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	AT1G09660.2:4 AT1G09660.1:4 AT1G09660.3:4

			
						 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  
						
							GAAGCACGGAATCCAGAAAGAGGATACTGGAAGAAACTTCCAGGAGAGATCCTCTCTTCCATGG
CCACGAAACCAGCGCCAGATTCCATCATCTTTAACAgcttggatatttatccactgggacatca
agtctaatcacttttttcacaatgggtgggttagggagtcccggcatcccaatccagcccactg
gggaagga

									
								

					

						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: 488
Transcript exons: 3129044-3129181,3129304-3129428,3130100-3130185,3130661-
3130799
GCTTGGATATTTATCCACTGGGACATCAAGTCTAATCACTTTTTTCACAATGGGTGGGTTAGGG
AGTCCCGGCATCCCAATCCAGCCCACTGGGGAAGGACCGCGAAATGGAGAAGCTCTCTGGAGGT
GACAGTTTTCCTCGGCTTGCATCATCGACCATCCCTCTAAATCAAGCTTTCCATTTGTCGGCTG
ACCAAGCGATCTAAATGGACTGCCATGCTCATATCTATCAAGATCAGGAAAACTAGAGACCCTC
CTGATTTCATGATTAAGCAGTCTGCAGCAATTTGGCATAACTTGCAAAAAGGGACCCAACTTTT
GTCTCTCTTGCAATAATTCAGTCAAGTACCTTTCACGATCAGAGGGAGGACAAGGGGATCGATT
AGGAGAAGCACGGAATCCAGAAAGAGGATACTGGAAGAAACTTCCAGGAGAGATCCTCTCTTCC
ATGGCCACGAAACCAGCGCCAGATTCCATCATCTTTAACA
						
					

						Genomic sequence
						
							GCTTGGATATTTATCCACTGGGACATCAAGTCTAATCACTTTTTTCACAATGGGTGGGTTAGGG
AGTCCCGGCATCCCAATCCAGCCCACTGGGGAAGGACCGCGAAATGGAGAAGCTCTCTGGAGGT
GACAGTTTTCCTGAAGAAAGCAAAAGCAATCAATATCGGTAAAGCCCACTCTTGATTATAAAAA
TTATTAGTATCACCATTACAATTCAACATGAATCAGTTAATTGACTACAACTATCAGCAGTGGC
TTACCTCGGCTTGCATCATCGACCATCCCTCTAAATCAAGCTTTCCATTTGTCGGCTGACCAAG
CGATCTAAATGGACTGCCATGCTCATATCTATCAAGATCAGGAAAACTAGAGACCCTCCTGATT
TCTGCACAGACGTCAGCAATGTTGGCAGTTAAGCAAACGTATAAAAGAAACTGTAAGAGTTATA
CATCAGGGGCATCTTCAGTCTCTTATCTTTAATGCCAATAATGAAACAAAAGGCTCGGGTTCTA
ATAGGTTAGAATGATGAAAACTTCAAACACATCTTTGTCTTTTAAGGTTCACACATCCCTTAAG
GGCATGATGGACAACTAAAAGCTAGGTAAACAAGTCTGGAAACAAGCTTCTAATCACCATATGC
ATATTTACGGACAAATAGGCTTCCTAGTATAAATTAGTTGGTGATCATTTGCTTAACGATCATT
ATCATTTGCAAACACATAGACTTAATTCATTTTCACATAACATAACTCATCAAGGATGATCATT
TAGCAATAAGTTGCAATTAAAAACTGTTTCTAAATGCTAAAAGTAACATAGACTTTGATTGGCT
ATATATATATTAAGAAGGCCATAACAAAGAGAATAAAAAGTTGCATGTAGATACATTTTTGTTA
CTCAACTATCCTTACCCAATTTCTGTAAACCTTTAACTGGAAAAAAGCCAGGGTGATGCGCACT
AAGGCTTTGTTCACGTGGGAAATTTCTTAAGTTCGTGTGCACACACTCTAAGGAAATACTAAAT
TCAAAATCACATAGCTTAATAAGATAGCTCACCATGATTAAGCAGTCTGCAGCAATTTGGCATA
ACTTGCAAAAAGGGACCCAACTTTTGTCTCTCTTGCAATAATTCAGTCAAGTACCTGCACAAGG
TTAAGAACAAAAAAAACTTAAGTTTCAGTGGATGTTGCGTGTGAATCGAGTGGGTGACATTGGA
ATCAGCACTCAGTCACATGTAAACTAAGCTTCTAAAAATACATCAGTACGTTCATTTCTAAAAC
ATTGATAAAATATAGCTATCTTGTTAAAATCCTTAAGAGTACATTGTATAGAATCCAATAATAA
GTGAGCTAATTGTGAAAAAGGCGACATGTTGAGGTGAGAGAGTATGATCGAGAATTTGGATCTG
TGTAAGCAGTTCATGAAAATACAAACTTGACAGAATCATTTTTAAACACTGATCCAATCAAAGG
CAACAATACCCACCAATCACAAAGAGACACACTTGAAGTTGTGCTAAAGCAACAAGTCCAGAAG
AAGAAACGGGTCCACAACAATCAAGCTAACACAGATTCACAAATAGCAAAAAGGTTGAGAAAGA
AGAGAGAAAATAGAAACCTTTCACGATCAGAGGGAGGACAAGGGGATCGATTAGGAGAAGCACG
GAATCCAGAAAGAGGATACTGGAAGAAACTTCCAGGAGAGATCCTCTCTTCCATGGCCACGAAA
CCAGCGCCAGATTCCATCATCTTTAACA
						
					

			
		

Sequences
Splice junction sequence	GAAGCACGGAATCCAGAAAGAGGATACTGGAAGAAACTTCCAGGAGAGATCCTCTCTTCCATGG CCACGAAACCAGCGCCAGATTCCATCATCTTTAACAgcttggatatttatccactgggacatca agtctaatcacttttttcacaatgggtgggttagggagtcccggcatcccaatccagcccactg gggaagga
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: 488 Transcript exons: 3129044-3129181,3129304-3129428,3130100-3130185,3130661- 3130799 GCTTGGATATTTATCCACTGGGACATCAAGTCTAATCACTTTTTTCACAATGGGTGGGTTAGGG AGTCCCGGCATCCCAATCCAGCCCACTGGGGAAGGACCGCGAAATGGAGAAGCTCTCTGGAGGT GACAGTTTTCCTCGGCTTGCATCATCGACCATCCCTCTAAATCAAGCTTTCCATTTGTCGGCTG ACCAAGCGATCTAAATGGACTGCCATGCTCATATCTATCAAGATCAGGAAAACTAGAGACCCTC CTGATTTCATGATTAAGCAGTCTGCAGCAATTTGGCATAACTTGCAAAAAGGGACCCAACTTTT GTCTCTCTTGCAATAATTCAGTCAAGTACCTTTCACGATCAGAGGGAGGACAAGGGGATCGATT AGGAGAAGCACGGAATCCAGAAAGAGGATACTGGAAGAAACTTCCAGGAGAGATCCTCTCTTCC ATGGCCACGAAACCAGCGCCAGATTCCATCATCTTTAACA
Genomic sequence	GCTTGGATATTTATCCACTGGGACATCAAGTCTAATCACTTTTTTCACAATGGGTGGGTTAGGG AGTCCCGGCATCCCAATCCAGCCCACTGGGGAAGGACCGCGAAATGGAGAAGCTCTCTGGAGGT GACAGTTTTCCTGAAGAAAGCAAAAGCAATCAATATCGGTAAAGCCCACTCTTGATTATAAAAA TTATTAGTATCACCATTACAATTCAACATGAATCAGTTAATTGACTACAACTATCAGCAGTGGC TTACCTCGGCTTGCATCATCGACCATCCCTCTAAATCAAGCTTTCCATTTGTCGGCTGACCAAG CGATCTAAATGGACTGCCATGCTCATATCTATCAAGATCAGGAAAACTAGAGACCCTCCTGATT TCTGCACAGACGTCAGCAATGTTGGCAGTTAAGCAAACGTATAAAAGAAACTGTAAGAGTTATA CATCAGGGGCATCTTCAGTCTCTTATCTTTAATGCCAATAATGAAACAAAAGGCTCGGGTTCTA ATAGGTTAGAATGATGAAAACTTCAAACACATCTTTGTCTTTTAAGGTTCACACATCCCTTAAG GGCATGATGGACAACTAAAAGCTAGGTAAACAAGTCTGGAAACAAGCTTCTAATCACCATATGC ATATTTACGGACAAATAGGCTTCCTAGTATAAATTAGTTGGTGATCATTTGCTTAACGATCATT ATCATTTGCAAACACATAGACTTAATTCATTTTCACATAACATAACTCATCAAGGATGATCATT TAGCAATAAGTTGCAATTAAAAACTGTTTCTAAATGCTAAAAGTAACATAGACTTTGATTGGCT ATATATATATTAAGAAGGCCATAACAAAGAGAATAAAAAGTTGCATGTAGATACATTTTTGTTA CTCAACTATCCTTACCCAATTTCTGTAAACCTTTAACTGGAAAAAAGCCAGGGTGATGCGCACT AAGGCTTTGTTCACGTGGGAAATTTCTTAAGTTCGTGTGCACACACTCTAAGGAAATACTAAAT TCAAAATCACATAGCTTAATAAGATAGCTCACCATGATTAAGCAGTCTGCAGCAATTTGGCATA ACTTGCAAAAAGGGACCCAACTTTTGTCTCTCTTGCAATAATTCAGTCAAGTACCTGCACAAGG TTAAGAACAAAAAAAACTTAAGTTTCAGTGGATGTTGCGTGTGAATCGAGTGGGTGACATTGGA ATCAGCACTCAGTCACATGTAAACTAAGCTTCTAAAAATACATCAGTACGTTCATTTCTAAAAC ATTGATAAAATATAGCTATCTTGTTAAAATCCTTAAGAGTACATTGTATAGAATCCAATAATAA GTGAGCTAATTGTGAAAAAGGCGACATGTTGAGGTGAGAGAGTATGATCGAGAATTTGGATCTG TGTAAGCAGTTCATGAAAATACAAACTTGACAGAATCATTTTTAAACACTGATCCAATCAAAGG CAACAATACCCACCAATCACAAAGAGACACACTTGAAGTTGTGCTAAAGCAACAAGTCCAGAAG AAGAAACGGGTCCACAACAATCAAGCTAACACAGATTCACAAATAGCAAAAAGGTTGAGAAAGA AGAGAGAAAATAGAAACCTTTCACGATCAGAGGGAGGACAAGGGGATCGATTAGGAGAAGCACG GAATCCAGAAAGAGGATACTGGAAGAAACTTCCAGGAGAGATCCTCTCTTCCATGGCCACGAAA CCAGCGCCAGATTCCATCATCTTTAACA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.158771802

Conservation Information
Conserved circRNAs	NA
PMCS	0.158771802

			
						 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 AT1G09660_circ_g.6

Address

Any questions?

Supported by