Plant Circular RNA Database

Detail information of AT1G50200_circ_g.22

			
						 General Information
					
						CircRNA Name
						AT1G50200_circ_g.22
					
						ID in PlantcircBase
						ath_circ_006620
					
						Alias
						1:18595340-18596714
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 18595340-18596714  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G50200						
					
						Parent gene annotation
						
							Alanyl-tRNA synthetase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							1_circ_igg.3 AT1G50200_circ_g.1 AT1G50200_circ_g.2 AT1G50200_circ_g.3 AT1G50200_circ_g.4 AT1G50200_circ_g.5 AT1G50200_circ_g.6 AT1G50200_circ_g.7 AT1G50200_circ_g.8 AT1G50200_circ_g.9 AT1G50200_circ_g.10 AT1G50200_circ_g.11 AT1G50200_circ_g.12 AT1G50200_circ_g.13 AT1G50200_circ_g.14 AT1G50200_circ_g.15 AT1G50200_circ_g.16 AT1G50200_circ_g.17 AT1G50200_circ_g.18 AT1G50200_circ_g.19 AT1G50200_circ_g.20 AT1G50200_circ_g.21 AT1G50200_circ_g.23 AT1G50200_circ_g.24 AT1G50200_circ_g.25 AT1G50200_circ_g.26 AT1G50200_circ_g.27 AT1G50200_circ_g.28 AT1G50200_circ_g.29 						
					
						Support reads
						1/1
					
						Tissues
						root;flower
					
						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
						AT1G50200.1:4
AT1G50200.2:4

General Information
CircRNA Name	AT1G50200_circ_g.22
ID in PlantcircBase	ath_circ_006620
Alias	1:18595340-18596714
Organism	Arabidpsis thaliana
Position	chr1: 18595340-18596714 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G50200
Parent gene annotation	Alanyl-tRNA synthetase
Parent gene strand	-
Alternative splicing	1_circ_igg.3 AT1G50200_circ_g.1 AT1G50200_circ_g.2 AT1G50200_circ_g.3 AT1G50200_circ_g.4 AT1G50200_circ_g.5 AT1G50200_circ_g.6 AT1G50200_circ_g.7 AT1G50200_circ_g.8 AT1G50200_circ_g.9 AT1G50200_circ_g.10 AT1G50200_circ_g.11 AT1G50200_circ_g.12 AT1G50200_circ_g.13 AT1G50200_circ_g.14 AT1G50200_circ_g.15 AT1G50200_circ_g.16 AT1G50200_circ_g.17 AT1G50200_circ_g.18 AT1G50200_circ_g.19 AT1G50200_circ_g.20 AT1G50200_circ_g.21 AT1G50200_circ_g.23 AT1G50200_circ_g.24 AT1G50200_circ_g.25 AT1G50200_circ_g.26 AT1G50200_circ_g.27 AT1G50200_circ_g.28 AT1G50200_circ_g.29
Support reads	1/1
Tissues	root;flower
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	AT1G50200.1:4 AT1G50200.2:4

			
						 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  
						
							TGTTAACTAAGGATGCAGCATCACGGTTACCAATGCGATCATAATGTATTTCAGTACAAGGTCC
ACACGGACCTGTGTCGCCCATTTCCCAGAAATTGTCccgttgaaaaatccttcttcagctttta
ggatctcctttccatagcgaaccgctcgacgaagaatacgccgcagaacatactcacggccctc
attacctg

									
								

					

						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: 527
Transcript exons: 18595340-18595436,18595688-18595817,18596208-18596360,18
596568-18596714
CCGTTGAAAAATCCTTCTTCAGCTTTTAGGATCTCCTTTCCATAGCGAACCGCTCGACGAAGAA
TACGCCGCAGAACATACTCACGGCCCTCATTACCAGGACGAGAGCCATCCGCAATTGCAAATGA
TAGGGTTCTAATATGATCAGCAACCACTCTATATGCCATGTCAACTCTGTCAACATCTTCCGGA
CCAACTTTTCCAGAATATGGCCTAGCTCCCGTTGCCTTTTGGATGTCATCAAAGATAGGCATGA
ACACATCTGTATCATAGTTGCTCATTTTGTTTTGAAGAACAGAAGTCAACCTCTCGAAGCCCAT
CCCGGTATCAACATGCTTAGCAGGCAGAGGTTTTAGCGAGCCATCACTTTCTCGGTTGAACTGA
ATAAAGACAAGATTCCATATTTCTAAACATGTTGGATCGTCATTGTTAACTAAGGATGCAGCAT
CACGGTTACCAATGCGATCATAATGTATTTCAGTACAAGGTCCACACGGACCTGTGTCGCCCAT
TTCCCAGAAATTGTC
						
					

						Genomic sequence
						
							CCGTTGAAAAATCCTTCTTCAGCTTTTAGGATCTCCTTTCCATAGCGAACCGCTCGACGAAGAA
TACGCCGCAGAACATACTCACGGCCCTCATTACCTGCAAGAGATAGTATATTAATTGGTACTTG
TTAGACTACAAGAAATAACAAACCTCTATTTGTATAACATAACAGATTGTCTGAGGAAGAAAAT
TGACAAACTCATCATGCCCAACTTAGAATAAATGAACCAAAAACACTTTTTCTGAGAACATATA
AGTATGAACTCAAATAAATGATTGAATACTAAGACGATTGTATTTTCTGTAACCACCACAATTG
TGATTGAGACAAGAAACCAAGTATATACCAGGACGAGAGCCATCCGCAATTGCAAATGATAGGG
TTCTAATATGATCAGCAACCACTCTATATGCCATGTCAACTCTGTCAACATCTTCCGGACCAAC
TTTTCCAGAATATGGCCTAGCTCCCGTTGCCTAAAAAAGTGAAAGCATCAACACCTAAACTTAA
GATTCGCAACAACTAGGGTAAACAGAGCAATTTGAAGATTTTTTCAATCCTCTCACTAAGAAAA
ATACATGAAAAGTGACACAGCTAACAACGAATAATCTCCAGGATACCCATAGTAGAATGCCTTT
ATCATGAAATCCAAATTCAATAAACCAGAAATATTCAAAAACAATTGACGGAGTCTCGACGTAA
AGCATAGAACCCATGATCCACTTCAAAATTGATGAACTAAAATGATGATAGTACTAATTAAGGT
GACAAATGCGTCCCTAAGAGGAGGCCAAACAAAAATAACTCAATGAAACCATCATTAAACAGCT
GTCATGAAACCATCAACAGAAGTTTTCACAAATTACCTTTTGGATGTCATCAAAGATAGGCATG
AACACATCTGTATCATAGTTGCTCATTTTGTTTTGAAGAACAGAAGTCAACCTCTCGAAGCCCA
TCCCGGTATCAACATGCTTAGCAGGCAGAGGTTTTAGCGAGCCATCACTTTCTCGGTTGAACTA
TTTTGAAGACATAAGTAACATCCCAGTCAGAGGAAACAATTGGGAATATGATAGCACAGCTAAA
GGAGCAATAACAATCTAGCTAACTGCACAATATAGAGTTTTCAGTAACACAATCTACAAAATCA
TTAAAACAATTGTGATATTGAGATAAAGATTAGTAAAATGGAACTAAATAACAATTGGGACAGA
GAGGGTTTGTACCTGAATAAAGACAAGATTCCATATTTCTAAACATGTTGGATCGTCATTGTTA
ACTAAGGATGCAGCATCACGGTTACCAATGCGATCATAATGTATTTCAGTACAAGGTCCACACG
GACCTGTGTCGCCCATTTCCCAGAAATTGTC
						
					

			
		

Sequences
Splice junction sequence	TGTTAACTAAGGATGCAGCATCACGGTTACCAATGCGATCATAATGTATTTCAGTACAAGGTCC ACACGGACCTGTGTCGCCCATTTCCCAGAAATTGTCccgttgaaaaatccttcttcagctttta ggatctcctttccatagcgaaccgctcgacgaagaatacgccgcagaacatactcacggccctc attacctg
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: 527 Transcript exons: 18595340-18595436,18595688-18595817,18596208-18596360,18 596568-18596714 CCGTTGAAAAATCCTTCTTCAGCTTTTAGGATCTCCTTTCCATAGCGAACCGCTCGACGAAGAA TACGCCGCAGAACATACTCACGGCCCTCATTACCAGGACGAGAGCCATCCGCAATTGCAAATGA TAGGGTTCTAATATGATCAGCAACCACTCTATATGCCATGTCAACTCTGTCAACATCTTCCGGA CCAACTTTTCCAGAATATGGCCTAGCTCCCGTTGCCTTTTGGATGTCATCAAAGATAGGCATGA ACACATCTGTATCATAGTTGCTCATTTTGTTTTGAAGAACAGAAGTCAACCTCTCGAAGCCCAT CCCGGTATCAACATGCTTAGCAGGCAGAGGTTTTAGCGAGCCATCACTTTCTCGGTTGAACTGA ATAAAGACAAGATTCCATATTTCTAAACATGTTGGATCGTCATTGTTAACTAAGGATGCAGCAT CACGGTTACCAATGCGATCATAATGTATTTCAGTACAAGGTCCACACGGACCTGTGTCGCCCAT TTCCCAGAAATTGTC
Genomic sequence	CCGTTGAAAAATCCTTCTTCAGCTTTTAGGATCTCCTTTCCATAGCGAACCGCTCGACGAAGAA TACGCCGCAGAACATACTCACGGCCCTCATTACCTGCAAGAGATAGTATATTAATTGGTACTTG TTAGACTACAAGAAATAACAAACCTCTATTTGTATAACATAACAGATTGTCTGAGGAAGAAAAT TGACAAACTCATCATGCCCAACTTAGAATAAATGAACCAAAAACACTTTTTCTGAGAACATATA AGTATGAACTCAAATAAATGATTGAATACTAAGACGATTGTATTTTCTGTAACCACCACAATTG TGATTGAGACAAGAAACCAAGTATATACCAGGACGAGAGCCATCCGCAATTGCAAATGATAGGG TTCTAATATGATCAGCAACCACTCTATATGCCATGTCAACTCTGTCAACATCTTCCGGACCAAC TTTTCCAGAATATGGCCTAGCTCCCGTTGCCTAAAAAAGTGAAAGCATCAACACCTAAACTTAA GATTCGCAACAACTAGGGTAAACAGAGCAATTTGAAGATTTTTTCAATCCTCTCACTAAGAAAA ATACATGAAAAGTGACACAGCTAACAACGAATAATCTCCAGGATACCCATAGTAGAATGCCTTT ATCATGAAATCCAAATTCAATAAACCAGAAATATTCAAAAACAATTGACGGAGTCTCGACGTAA AGCATAGAACCCATGATCCACTTCAAAATTGATGAACTAAAATGATGATAGTACTAATTAAGGT GACAAATGCGTCCCTAAGAGGAGGCCAAACAAAAATAACTCAATGAAACCATCATTAAACAGCT GTCATGAAACCATCAACAGAAGTTTTCACAAATTACCTTTTGGATGTCATCAAAGATAGGCATG AACACATCTGTATCATAGTTGCTCATTTTGTTTTGAAGAACAGAAGTCAACCTCTCGAAGCCCA TCCCGGTATCAACATGCTTAGCAGGCAGAGGTTTTAGCGAGCCATCACTTTCTCGGTTGAACTA TTTTGAAGACATAAGTAACATCCCAGTCAGAGGAAACAATTGGGAATATGATAGCACAGCTAAA GGAGCAATAACAATCTAGCTAACTGCACAATATAGAGTTTTCAGTAACACAATCTACAAAATCA TTAAAACAATTGTGATATTGAGATAAAGATTAGTAAAATGGAACTAAATAACAATTGGGACAGA GAGGGTTTGTACCTGAATAAAGACAAGATTCCATATTTCTAAACATGTTGGATCGTCATTGTTA ACTAAGGATGCAGCATCACGGTTACCAATGCGATCATAATGTATTTCAGTACAAGGTCCACACG GACCTGTGTCGCCCATTTCCCAGAAATTGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.268687294

Conservation Information
Conserved circRNAs	NA
PMCS	0.268687294

			
						 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 AT1G50200_circ_g.22

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