Plant Circular RNA Database

Detail information of AT1G10090_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT1G10090_circ_g.4
					
						ID in PlantcircBase
						ath_circ_001800
					
						Alias
						1:3294130-3295380
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 3294130-3295380  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G10090						
					
						Parent gene annotation
						
							Hyperosmolality-gated Ca2+ permeable channel 2.2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G10090_circ_g.1 AT1G10090_circ_g.2 AT1G10090_circ_g.3 						
					
						Support reads
						2/1
					
						Tissues
						seedling;root
					
						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
						AT1G10090.1:4

General Information
CircRNA Name	AT1G10090_circ_g.4
ID in PlantcircBase	ath_circ_001800
Alias	1:3294130-3295380
Organism	Arabidpsis thaliana
Position	chr1: 3294130-3295380 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G10090
Parent gene annotation	Hyperosmolality-gated Ca2+ permeable channel 2.2
Parent gene strand	-
Alternative splicing	AT1G10090_circ_g.1 AT1G10090_circ_g.2 AT1G10090_circ_g.3
Support reads	2/1
Tissues	seedling;root
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	AT1G10090.1:4

			
						 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  
						
							TCACTTTTAGTTCAAACCCTGCCTTAACAGGGTTGGCTAATCAAGCCCAGGCTGATGGCTGTTT
AACAATTCACAGCAGAAACTTAGGTCGTCAAAAGATcatcagtctgtgaatgaagccatcacgg
tagaccattaggtgcgacacatagcttggtgcatagtaatttgtaaagtatttgctcactgtct
cgctgtag

									
								

					

						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: 811
Transcript exons: 3294130-3294339,3294462-3294525,3294676-3294822,3294991-
3295380
CATCAGTCTGTGAATGAAGCCATCACGGTAGACCATTAGGTGCGACACATAGCTTGGTGCATAG
TAATTTGTAAAGTATTTGCTCACTGTCTCGCTGTAGGACTGGTCAGGAGACTGAGGAATAGCAC
GAATAAGAACAGTAAAATGACTTGGCTTTGAGGCAGATCCACTAATATGGGCAAGCCTCTTTTT
GGCTATGTTCTTATACTCAAAGTAAAGAAGAGCACATGCTGCAGAGGATATGATGTACAATGAG
AGACAATGAACCCAGAGCCATCGTGAGCGTGGATTAAGGTTCTCAATTGTGAATACTCCCAATG
ACTCCAAATGGACTTCCTTGTGCTCCATCTTTTGTCCATAATAGTTAACAGGTAACACAAAGGC
AAGGCAAACGACTGCGACGATTGAGAAAATACGAATGCTGCAAATGACCATCCTGATGAAAACC
ACAGCATCCAGACCAGCAGCAGCCAACATCTCTTCCTCAGTGGTTTCCCAAGCTTTCACGAGCC
AACTAGGAGAGGGCGCGAACCTCTCATACCAACGAGGATCATGACGTTTAACTCTTCCGTCAGA
AAGCAATCGACCAAAGTAAACACAATAATTGGCTGGCTGCTTTCGTAGAATGGAATAAAGCGAT
ACAAGCACTACGCATATCGCTATATTAATCCCAGCAGACGTTAAAAGTGCTGAGACATCCATCT
CACTATCTCACTTTTAGTTCAAACCCTGCCTTAACAGGGTTGGCTAATCAAGCCCAGGCTGATG
GCTGTTTAACAATTCACAGCAGAAACTTAGGTCGTCAAAAGAT
						
					

						Genomic sequence
						
							CATCAGTCTGTGAATGAAGCCATCACGGTAGACCATTAGGTGCGACACATAGCTTGGTGCATAG
TAATTTGTAAAGTATTTGCTCACTGTCTCGCTGTAGGACTGGTCAGGAGACTGAGGAATAGCAC
GAATAAGAACAGTAAAATGACTTGGCTTTGAGGCAGATCCACTAATATGGGCAAGCCTCTTTTT
GGCTATGTTCTTATACTCCTACAGTGGTGAAACACGTATAAACAGGGTGAGAGAGAGAGACGAG
AGACCAAAACGATGAGGAAGTGATGGAATAAAGAGAAACAGTAAGCGTGAAATGAACCAAGGTA
TAAGATCCTCACAAAGTAAAGAAGAGCACATGCTGCAGAGGATATGATGTACAATGAGAGACAA
TGAACCCAGAGCCTGGAAATAAAAATAGTAAAACAAGGATCAGCACTTCATTGTACAAAATACT
GGCAATCTATCTTCTCCTGCACAGAGAAACATAATCAGATAGAAAAACAGGCTATGCATATTAT
CTGATAATATTAATATTATATGCCGCCACTTTACCATCGTGAGCGTGGATTAAGGTTCTCAATT
GTGAATACTCCCAATGACTCCAAATGGACTTCCTTGTGCTCCATCTTTTGTCCATAATAGTTAA
CAGGTAACACAAAGGCAAGGCAAACGACTGCGACGATTGAGAAAATACGAATGCTGCAGAGTTT
AAAAAAAACACGATAACCCAACTGTGAGAGTTGTTAAGAACGAAACACACAAATACCACATAGA
AATAAAACAAGTGCTGGAACATAGAAACAGTAGAAAATACCATGCTTGTCTATTCAATTACAGT
AAGCATGTTATAGGTGAAGTATCATTAACCTGCAAATGACCATCCTGATGAAAACCACAGCATC
CAGACCAGCAGCAGCCAACATCTCTTCCTCAGTGGTTTCCCAAGCTTTCACGAGCCAACTAGGA
GAGGGCGCGAACCTCTCATACCAACGAGGATCATGACGTTTAACTCTTCCGTCAGAAAGCAATC
GACCAAAGTAAACACAATAATTGGCTGGCTGCTTTCGTAGAATGGAATAAAGCGATACAAGCAC
TACGCATATCGCTATATTAATCCCAGCAGACGTTAAAAGTGCTGAGACATCCATCTCACTATCT
CACTTTTAGTTCAAACCCTGCCTTAACAGGGTTGGCTAATCAAGCCCAGGCTGATGGCTGTTTA
ACAATTCACAGCAGAAACTTAGGTCGTCAAAAGAT
						
					

			
		

Sequences
Splice junction sequence	TCACTTTTAGTTCAAACCCTGCCTTAACAGGGTTGGCTAATCAAGCCCAGGCTGATGGCTGTTT AACAATTCACAGCAGAAACTTAGGTCGTCAAAAGATcatcagtctgtgaatgaagccatcacgg tagaccattaggtgcgacacatagcttggtgcatagtaatttgtaaagtatttgctcactgtct cgctgtag
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: 811 Transcript exons: 3294130-3294339,3294462-3294525,3294676-3294822,3294991- 3295380 CATCAGTCTGTGAATGAAGCCATCACGGTAGACCATTAGGTGCGACACATAGCTTGGTGCATAG TAATTTGTAAAGTATTTGCTCACTGTCTCGCTGTAGGACTGGTCAGGAGACTGAGGAATAGCAC GAATAAGAACAGTAAAATGACTTGGCTTTGAGGCAGATCCACTAATATGGGCAAGCCTCTTTTT GGCTATGTTCTTATACTCAAAGTAAAGAAGAGCACATGCTGCAGAGGATATGATGTACAATGAG AGACAATGAACCCAGAGCCATCGTGAGCGTGGATTAAGGTTCTCAATTGTGAATACTCCCAATG ACTCCAAATGGACTTCCTTGTGCTCCATCTTTTGTCCATAATAGTTAACAGGTAACACAAAGGC AAGGCAAACGACTGCGACGATTGAGAAAATACGAATGCTGCAAATGACCATCCTGATGAAAACC ACAGCATCCAGACCAGCAGCAGCCAACATCTCTTCCTCAGTGGTTTCCCAAGCTTTCACGAGCC AACTAGGAGAGGGCGCGAACCTCTCATACCAACGAGGATCATGACGTTTAACTCTTCCGTCAGA AAGCAATCGACCAAAGTAAACACAATAATTGGCTGGCTGCTTTCGTAGAATGGAATAAAGCGAT ACAAGCACTACGCATATCGCTATATTAATCCCAGCAGACGTTAAAAGTGCTGAGACATCCATCT CACTATCTCACTTTTAGTTCAAACCCTGCCTTAACAGGGTTGGCTAATCAAGCCCAGGCTGATG GCTGTTTAACAATTCACAGCAGAAACTTAGGTCGTCAAAAGAT
Genomic sequence	CATCAGTCTGTGAATGAAGCCATCACGGTAGACCATTAGGTGCGACACATAGCTTGGTGCATAG TAATTTGTAAAGTATTTGCTCACTGTCTCGCTGTAGGACTGGTCAGGAGACTGAGGAATAGCAC GAATAAGAACAGTAAAATGACTTGGCTTTGAGGCAGATCCACTAATATGGGCAAGCCTCTTTTT GGCTATGTTCTTATACTCCTACAGTGGTGAAACACGTATAAACAGGGTGAGAGAGAGAGACGAG AGACCAAAACGATGAGGAAGTGATGGAATAAAGAGAAACAGTAAGCGTGAAATGAACCAAGGTA TAAGATCCTCACAAAGTAAAGAAGAGCACATGCTGCAGAGGATATGATGTACAATGAGAGACAA TGAACCCAGAGCCTGGAAATAAAAATAGTAAAACAAGGATCAGCACTTCATTGTACAAAATACT GGCAATCTATCTTCTCCTGCACAGAGAAACATAATCAGATAGAAAAACAGGCTATGCATATTAT CTGATAATATTAATATTATATGCCGCCACTTTACCATCGTGAGCGTGGATTAAGGTTCTCAATT GTGAATACTCCCAATGACTCCAAATGGACTTCCTTGTGCTCCATCTTTTGTCCATAATAGTTAA CAGGTAACACAAAGGCAAGGCAAACGACTGCGACGATTGAGAAAATACGAATGCTGCAGAGTTT AAAAAAAACACGATAACCCAACTGTGAGAGTTGTTAAGAACGAAACACACAAATACCACATAGA AATAAAACAAGTGCTGGAACATAGAAACAGTAGAAAATACCATGCTTGTCTATTCAATTACAGT AAGCATGTTATAGGTGAAGTATCATTAACCTGCAAATGACCATCCTGATGAAAACCACAGCATC CAGACCAGCAGCAGCCAACATCTCTTCCTCAGTGGTTTCCCAAGCTTTCACGAGCCAACTAGGA GAGGGCGCGAACCTCTCATACCAACGAGGATCATGACGTTTAACTCTTCCGTCAGAAAGCAATC GACCAAAGTAAACACAATAATTGGCTGGCTGCTTTCGTAGAATGGAATAAAGCGATACAAGCAC TACGCATATCGCTATATTAATCCCAGCAGACGTTAAAAGTGCTGAGACATCCATCTCACTATCT CACTTTTAGTTCAAACCCTGCCTTAACAGGGTTGGCTAATCAAGCCCAGGCTGATGGCTGTTTA ACAATTCACAGCAGAAACTTAGGTCGTCAAAAGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.239692279

Conservation Information
Conserved circRNAs	NA
PMCS	0.239692279

			
						 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 AT1G10090_circ_g.4

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