Plant Circular RNA Database

Detail information of AT2G31060_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT2G31060_circ_g.4
					
						ID in PlantcircBase
						ath_circ_015815
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 13214951-13216617  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT2G31060						
					
						Parent gene annotation
						
							Elongation factor family protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G31060_circ_g.1 AT2G31060_circ_g.2 AT2G31060_circ_g.3 AT2G31060_circ_g.5 AT2G31060_circ_g.6 AT2G31060_circ_g.7 AT2G31060_circ_g.8 AT2G31060_circ_g.9 						
					
						Support reads
						1
					
						Tissues
						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
						AT2G31060.3:6
AT2G31060.2:6
AT2G31060.1:6

General Information
CircRNA Name	AT2G31060_circ_g.4
ID in PlantcircBase	ath_circ_015815
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 13214951-13216617 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT2G31060
Parent gene annotation	Elongation factor family protein
Parent gene strand	-
Alternative splicing	AT2G31060_circ_g.1 AT2G31060_circ_g.2 AT2G31060_circ_g.3 AT2G31060_circ_g.5 AT2G31060_circ_g.6 AT2G31060_circ_g.7 AT2G31060_circ_g.8 AT2G31060_circ_g.9
Support reads	1
Tissues	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	AT2G31060.3:6 AT2G31060.2:6 AT2G31060.1:6

			
						 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  
						
							TGCGTAGTCCATTGACTCTGTCACCAACACGGACAACTCCAGAAGTTACTCTTCCAGTTAATAT
TCGTCCGAGATAGAAGTCCTTCTCCATCATTGAAACcttgaaggacaagttagtgacagtctcg
tcctaccctcatttccagggacagggcccatgtcaataacttccgcccgcctgtgggagagagc
ttccatca

									
								

					

						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: 728
Transcript exons: 13214951-13215130,13215473-13215536,13215672-13215792,13
216028-13216126,13216265-13216390,13216480-13216617
CTTGAAGGACAAGTTAGTGACAGTCTCGTCCTACCCTCATTTCCAGGGACAGGGCCCATGTCAA
TAACTTCCGCCCGCCTGTGGGAGAGAGCTTCCATCACTAATCCTACGTGTTCATCATTAATCTC
AATAGTCACCTCTTCAATTGGTTCAAGCTTTTGTCCCTTTTCAGTTTTATACATGACTTTAGGT
GGTGAGACTGAGAGCTCAAAACCTTCCCGCCTCATATTCTCAATCAAGATACCAAGTTGAAGTT
CTCCTCTCCCTTGGACTTCATATGACTCTGACAAGCCTGGAATAACGTTTATGGCAAGATTTGT
TTCAGCTTCTGCCATTAACCGGTCCCCGATTCTTCCTCCAGTTAAGTGGGTGCCATCCTGACCA
GCCAACGGAGAGTCATTGACACCAAACGTCATAGAAATTGTTGGTGGATCTAACTCAACAGTAG
GGAGTGCAGTTGTGACCTCTGCACTAGCCACCGTGTGACCTATTGATGGAGCTGTCAAACCAGC
CATACAGATAATATCACCAGCCCCAGCAGCGTCAATTGAAACTATGGTTGTACCTTTCTTTTTC
ATTAGCTTCACAACCTTTGCTTCTTCTATTTTCTCAGAGCCAGAATCAGTTTTGCGTAGTCCAT
TGACTCTGTCACCAACACGGACAACTCCAGAAGTTACTCTTCCAGTTAATATTCGTCCGAGATA
GAAGTCCTTCTCCATCATTGAAAC
						
					

						Genomic sequence
						
							CTTGAAGGACAAGTTAGTGACAGTCTCGTCCTACCCTCATTTCCAGGGACAGGGCCCATGTCAA
TAACTTCCGCCCGCCTGTGGGAGAGAGCTTCCATCACTAATCCTACGTGTTCATCATTAATCTC
AATAGTCACCTCTTCAATTGGTTCAAGCTTTTGTCCCTTTTCAGTTTTATACCTGAACATAAAG
GACAAACGCTCAGAAGTCAGACGAAGAAGTACAACAAAGTTTGTAGAAATAAAGACACTATAAA
GGAGTTTTTCTAGGCTAAAAAGTAATCCATAGTCGAACAAACAATAACCAAGTAATGTTTAGTG
TAATAGTAACAGCATAGAAATCAGGTAACTTGGTAAAAAATAAAAGAATTCTTCTATTGCTTTA
TGACACAAACTGGTAAGACCCTTTTCTTCAAAAGCCCACTAAGAACCTCTACAACTACCAACAT
CTAATAACCTCAACAACTAACTCTGATTATACGACGAATATAGTATGTAGTGTAAACAAAGAGA
TGTGACTAACATGACTTTAGGTGGTGAGACTGAGAGCTCAAAACCTTCCCGCCTCATATTCTCA
ATCAAGATACCTGTTAGACACGACAGAAATTAATTTACCTGGCATAGAGAAATAAATACAGTTA
CGTGTTTTCTGGCGTGTGTCATACTTTATATCCGTCTTTACAGGTGAACAAACACTAAACACAA
ACTGGAAAAGAACAAACCAAGTTGAAGTTCTCCTCTCCCTTGGACTTCATATGACTCTGACAAG
CCTGGAATAACGTTTATGGCAAGATTTGTTTCAGCTTCTGCCATTAACCGGTCCCCGATTCTTC
CTCCAGTTAACTGCATGCAGATTAGCAAAGGCCTATCAACATGTGCCAGAACGAGTGGTCTACC
ACCTAACACAACATATTTCTTCAAATATCGCTAAGGGGGACACATTAACTTTAATGCCAGCAAC
ATATAGGTGAATTAAGATGAAAAAGAAATGCAGTGACCCGAAGGTAAATCTGAGGATGTAAAAG
TTTAATGCAGAGTAATGACTAGAGCTATATCTTGTCACTATAATTAAACATACGTGGGTGCCAT
CCTGACCAGCCAACGGAGAGTCATTGACACCAAACGTCATAGAAATTGTTGGTGGATCTAACTC
AACAGTAGGGAGTGCAGTTGTGACCTGAAAGACAATAAAAATGAAGCATTTATTCAAGCGTCTT
AATATTCAAATAGGGATCAATGGAAGAAGTTATGTTAAAAGCAGAATTCAATTATATATCTAAG
AATAAAACAGGGAAGTAGTCCATTCGGATATTACCTCTGCACTAGCCACCGTGTGACCTATTGA
TGGAGCTGTCAAACCAGCCATACAGATAATATCACCAGCCCCAGCAGCGTCAATTGAAACTATG
GTTGTACCTTTCTTTTTCATTAGCTTCACAACCTATATGAAAGATGTTTATGTCTGCTTAGATG
AGAACATCACACTTCGTAAACACGGCTGACCAAGTACAAAGCAATATGCACACAAACCTTTGCT
TCTTCTATTTTCTCAGAGCCAGAATCAGTTTTGCGTAGTCCATTGACTCTGTCACCAACACGGA
CAACTCCAGAAGTTACTCTTCCAGTTAATATTCGTCCGAGATAGAAGTCCTTCTCCATCATTGA
AAC
						
					

			
		

Sequences
Splice junction sequence	TGCGTAGTCCATTGACTCTGTCACCAACACGGACAACTCCAGAAGTTACTCTTCCAGTTAATAT TCGTCCGAGATAGAAGTCCTTCTCCATCATTGAAACcttgaaggacaagttagtgacagtctcg tcctaccctcatttccagggacagggcccatgtcaataacttccgcccgcctgtgggagagagc ttccatca
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: 728 Transcript exons: 13214951-13215130,13215473-13215536,13215672-13215792,13 216028-13216126,13216265-13216390,13216480-13216617 CTTGAAGGACAAGTTAGTGACAGTCTCGTCCTACCCTCATTTCCAGGGACAGGGCCCATGTCAA TAACTTCCGCCCGCCTGTGGGAGAGAGCTTCCATCACTAATCCTACGTGTTCATCATTAATCTC AATAGTCACCTCTTCAATTGGTTCAAGCTTTTGTCCCTTTTCAGTTTTATACATGACTTTAGGT GGTGAGACTGAGAGCTCAAAACCTTCCCGCCTCATATTCTCAATCAAGATACCAAGTTGAAGTT CTCCTCTCCCTTGGACTTCATATGACTCTGACAAGCCTGGAATAACGTTTATGGCAAGATTTGT TTCAGCTTCTGCCATTAACCGGTCCCCGATTCTTCCTCCAGTTAAGTGGGTGCCATCCTGACCA GCCAACGGAGAGTCATTGACACCAAACGTCATAGAAATTGTTGGTGGATCTAACTCAACAGTAG GGAGTGCAGTTGTGACCTCTGCACTAGCCACCGTGTGACCTATTGATGGAGCTGTCAAACCAGC CATACAGATAATATCACCAGCCCCAGCAGCGTCAATTGAAACTATGGTTGTACCTTTCTTTTTC ATTAGCTTCACAACCTTTGCTTCTTCTATTTTCTCAGAGCCAGAATCAGTTTTGCGTAGTCCAT TGACTCTGTCACCAACACGGACAACTCCAGAAGTTACTCTTCCAGTTAATATTCGTCCGAGATA GAAGTCCTTCTCCATCATTGAAAC
Genomic sequence	CTTGAAGGACAAGTTAGTGACAGTCTCGTCCTACCCTCATTTCCAGGGACAGGGCCCATGTCAA TAACTTCCGCCCGCCTGTGGGAGAGAGCTTCCATCACTAATCCTACGTGTTCATCATTAATCTC AATAGTCACCTCTTCAATTGGTTCAAGCTTTTGTCCCTTTTCAGTTTTATACCTGAACATAAAG GACAAACGCTCAGAAGTCAGACGAAGAAGTACAACAAAGTTTGTAGAAATAAAGACACTATAAA GGAGTTTTTCTAGGCTAAAAAGTAATCCATAGTCGAACAAACAATAACCAAGTAATGTTTAGTG TAATAGTAACAGCATAGAAATCAGGTAACTTGGTAAAAAATAAAAGAATTCTTCTATTGCTTTA TGACACAAACTGGTAAGACCCTTTTCTTCAAAAGCCCACTAAGAACCTCTACAACTACCAACAT CTAATAACCTCAACAACTAACTCTGATTATACGACGAATATAGTATGTAGTGTAAACAAAGAGA TGTGACTAACATGACTTTAGGTGGTGAGACTGAGAGCTCAAAACCTTCCCGCCTCATATTCTCA ATCAAGATACCTGTTAGACACGACAGAAATTAATTTACCTGGCATAGAGAAATAAATACAGTTA CGTGTTTTCTGGCGTGTGTCATACTTTATATCCGTCTTTACAGGTGAACAAACACTAAACACAA ACTGGAAAAGAACAAACCAAGTTGAAGTTCTCCTCTCCCTTGGACTTCATATGACTCTGACAAG CCTGGAATAACGTTTATGGCAAGATTTGTTTCAGCTTCTGCCATTAACCGGTCCCCGATTCTTC CTCCAGTTAACTGCATGCAGATTAGCAAAGGCCTATCAACATGTGCCAGAACGAGTGGTCTACC ACCTAACACAACATATTTCTTCAAATATCGCTAAGGGGGACACATTAACTTTAATGCCAGCAAC ATATAGGTGAATTAAGATGAAAAAGAAATGCAGTGACCCGAAGGTAAATCTGAGGATGTAAAAG TTTAATGCAGAGTAATGACTAGAGCTATATCTTGTCACTATAATTAAACATACGTGGGTGCCAT CCTGACCAGCCAACGGAGAGTCATTGACACCAAACGTCATAGAAATTGTTGGTGGATCTAACTC AACAGTAGGGAGTGCAGTTGTGACCTGAAAGACAATAAAAATGAAGCATTTATTCAAGCGTCTT AATATTCAAATAGGGATCAATGGAAGAAGTTATGTTAAAAGCAGAATTCAATTATATATCTAAG AATAAAACAGGGAAGTAGTCCATTCGGATATTACCTCTGCACTAGCCACCGTGTGACCTATTGA TGGAGCTGTCAAACCAGCCATACAGATAATATCACCAGCCCCAGCAGCGTCAATTGAAACTATG GTTGTACCTTTCTTTTTCATTAGCTTCACAACCTATATGAAAGATGTTTATGTCTGCTTAGATG AGAACATCACACTTCGTAAACACGGCTGACCAAGTACAAAGCAATATGCACACAAACCTTTGCT TCTTCTATTTTCTCAGAGCCAGAATCAGTTTTGCGTAGTCCATTGACTCTGTCACCAACACGGA CAACTCCAGAAGTTACTCTTCCAGTTAATATTCGTCCGAGATAGAAGTCCTTCTCCATCATTGA AAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.198192311

Conservation Information
Conserved circRNAs	NA
PMCS	0.198192311

			
						 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 AT2G31060_circ_g.4

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