Plant Circular RNA Database

Detail information of AT1G33970_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT1G33970_circ_g.4
					
						ID in PlantcircBase
						ath_circ_005612
					
						Alias
						At_ciR1708, Ath_circ_FC0620
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 12350354-12350628  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ, CIRI-full
					
						Parent gene
						
							AT1G33970						
					
						Parent gene annotation
						
							Immune-associated nucleotide-binding protein 9
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G33615_circ_g.1 1_circ_igg.2 AT1G33615_circ_g.3 AT1G33615_circ_g.4 AT1G33615_circ_g.5 AT1G33615_circ_g.6 AT1G33615_circ_g.7 AT1G33615_circ_g.8 AT1G33615_circ_g.9 AT1G33615_circ_g.10 AT1G33615_circ_g.11 1_circ_igg.12 1_circ_ag.13 AT1G33615_circ_g.14 AT1G33615_circ_g.15 AT1G33615_circ_g.16 1_circ_igg.17 AT1G33615_circ_g.18 1_circ_igg.19 1_circ_igg.20 1_circ_ig.21 1_circ_ig.22 1_circ_ig.23 1_circ_ig.24 1_circ_ig.25 1_circ_ig.26 1_circ_ig.27 1_circ_ig.28 1_circ_ig.29 1_circ_igg.30 AT1G33680_circ_g.1 AT1G33680_circ_g.2 AT1G33680_circ_g.3 AT1G33680_circ_g.4 AT1G33680_circ_g.5 AT1G33680_circ_g.6 AT1G33680_circ_g.7 AT1G33680_circ_g.8 AT1G33680_circ_g.9 AT1G33700_circ_g.1 AT1G33700_circ_g.2 AT1G33700_circ_g.3 AT1G33700_circ_g.4 AT1G33700_circ_g.5 AT1G33790_circ_g.1 AT1G33810_circ_g.1 AT1G33930_circ_g.1 AT1G33960_circ_g.1 AT1G33970_circ_g.1 AT1G33970_circ_g.2 AT1G33970_circ_g.3 AT1G33970_circ_g.5 AT1G33980_circ_g.1 AT1G33980_circ_g.2 AT1G33980_circ_g.3 AT1G33980_circ_g.4 AT1G33980_circ_g.5 AT1G33980_circ_g.6 AT1G33980_circ_g.7 AT1G33980_circ_g.8 AT1G33980_circ_g.9 AT1G33990_circ_g.1 AT1G33990_circ_g.2 AT1G34020_circ_g.1 AT1G34020_circ_g.2 AT1G34020_circ_g.3 1_circ_ig.4 1_circ_ig.5 1_circ_ig.6 1_circ_ig.7 1_circ_igg.8 1_circ_igg.9 1_circ_igg.10 1_circ_ig.11 1_circ_igg.12 1_circ_igg.13 1_circ_igg.14 1_circ_igg.15 1_circ_ig.16 						
					
						Support reads
						5
					
						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
						AT1G33970.5:1
AT1G33970.1:1
AT1G33970.2:1
AT1G33970.3:1
AT1G33970.4:1

General Information
CircRNA Name	AT1G33970_circ_g.4
ID in PlantcircBase	ath_circ_005612
Alias	At_ciR1708, Ath_circ_FC0620
Organism	Arabidpsis thaliana
Position	chr1: 12350354-12350628 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ, CIRI-full
Parent gene	AT1G33970
Parent gene annotation	Immune-associated nucleotide-binding protein 9
Parent gene strand	-
Alternative splicing	AT1G33615_circ_g.1 1_circ_igg.2 AT1G33615_circ_g.3 AT1G33615_circ_g.4 AT1G33615_circ_g.5 AT1G33615_circ_g.6 AT1G33615_circ_g.7 AT1G33615_circ_g.8 AT1G33615_circ_g.9 AT1G33615_circ_g.10 AT1G33615_circ_g.11 1_circ_igg.12 1_circ_ag.13 AT1G33615_circ_g.14 AT1G33615_circ_g.15 AT1G33615_circ_g.16 1_circ_igg.17 AT1G33615_circ_g.18 1_circ_igg.19 1_circ_igg.20 1_circ_ig.21 1_circ_ig.22 1_circ_ig.23 1_circ_ig.24 1_circ_ig.25 1_circ_ig.26 1_circ_ig.27 1_circ_ig.28 1_circ_ig.29 1_circ_igg.30 AT1G33680_circ_g.1 AT1G33680_circ_g.2 AT1G33680_circ_g.3 AT1G33680_circ_g.4 AT1G33680_circ_g.5 AT1G33680_circ_g.6 AT1G33680_circ_g.7 AT1G33680_circ_g.8 AT1G33680_circ_g.9 AT1G33700_circ_g.1 AT1G33700_circ_g.2 AT1G33700_circ_g.3 AT1G33700_circ_g.4 AT1G33700_circ_g.5 AT1G33790_circ_g.1 AT1G33810_circ_g.1 AT1G33930_circ_g.1 AT1G33960_circ_g.1 AT1G33970_circ_g.1 AT1G33970_circ_g.2 AT1G33970_circ_g.3 AT1G33970_circ_g.5 AT1G33980_circ_g.1 AT1G33980_circ_g.2 AT1G33980_circ_g.3 AT1G33980_circ_g.4 AT1G33980_circ_g.5 AT1G33980_circ_g.6 AT1G33980_circ_g.7 AT1G33980_circ_g.8 AT1G33980_circ_g.9 AT1G33990_circ_g.1 AT1G33990_circ_g.2 AT1G34020_circ_g.1 AT1G34020_circ_g.2 AT1G34020_circ_g.3 1_circ_ig.4 1_circ_ig.5 1_circ_ig.6 1_circ_ig.7 1_circ_igg.8 1_circ_igg.9 1_circ_igg.10 1_circ_ig.11 1_circ_igg.12 1_circ_igg.13 1_circ_igg.14 1_circ_igg.15 1_circ_ig.16
Support reads	5
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	AT1G33970.5:1 AT1G33970.1:1 AT1G33970.2:1 AT1G33970.3:1 AT1G33970.4:1

			
						 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  
						
							AATACCAACAAGATCGCATGAATCCCATCTTCTGCCAAACTTATACACCTCACAATCTCTTTAC
CAATAAAATCAGCTGCAGTAGACAAATCAAACAAACtttaagaaactcagggcaatagtcagcc
aaatactcctccaatgtctcctcattctcttccaactcatcgccaccggtaaaaacaacgatca
tatagtca

						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: 275
Transcript exons: 12350354-12350628
TTTAAGAAACTCAGGGCAATAGTCAGCCAAATACTCCTCCAATGTCTCCTCATTCTCTTCCAAC
TCATCGCCACCGGTAAAAACAACGATCATATAGTCAGCGATCTTACTGCCGAATAGCGCTTGCA
AGAAACTAAGCACAGTTTGCTCCTCTTCAGCAAGCCGCCTCACAGAGAATACCAACAAGATCGC
ATGAATCCCATCTTCTGCCAAACTTATACACCTCACAATCTCTTTACCAATAAAATCAGCTGCA
GTAGACAAATCAAACAAAC
						
						Genomic sequence
						
							TTTAAGAAACTCAGGGCAATAGTCAGCCAAATACTCCTCCAATGTCTCCTCATTCTCTTCCAAC
TCATCGCCACCGGTAAAAACAACGATCATATAGTCAGCGATCTTACTGCCGAATAGCGCTTGCA
AGAAACTAAGCACAGTTTGCTCCTCTTCAGCAAGCCGCCTCACAGAGAATACCAACAAGATCGC
ATGAATCCCATCTTCTGCCAAACTTATACACCTCACAATCTCTTTACCAATAAAATCAGCTGCA
GTAGACAAATCAAACAAAC

Sequences
Splice junction sequence	AATACCAACAAGATCGCATGAATCCCATCTTCTGCCAAACTTATACACCTCACAATCTCTTTAC CAATAAAATCAGCTGCAGTAGACAAATCAAACAAACtttaagaaactcagggcaatagtcagcc aaatactcctccaatgtctcctcattctcttccaactcatcgccaccggtaaaaacaacgatca tatagtca
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: 275 Transcript exons: 12350354-12350628 TTTAAGAAACTCAGGGCAATAGTCAGCCAAATACTCCTCCAATGTCTCCTCATTCTCTTCCAAC TCATCGCCACCGGTAAAAACAACGATCATATAGTCAGCGATCTTACTGCCGAATAGCGCTTGCA AGAAACTAAGCACAGTTTGCTCCTCTTCAGCAAGCCGCCTCACAGAGAATACCAACAAGATCGC ATGAATCCCATCTTCTGCCAAACTTATACACCTCACAATCTCTTTACCAATAAAATCAGCTGCA GTAGACAAATCAAACAAAC
Genomic sequence	TTTAAGAAACTCAGGGCAATAGTCAGCCAAATACTCCTCCAATGTCTCCTCATTCTCTTCCAAC TCATCGCCACCGGTAAAAACAACGATCATATAGTCAGCGATCTTACTGCCGAATAGCGCTTGCA AGAAACTAAGCACAGTTTGCTCCTCTTCAGCAAGCCGCCTCACAGAGAATACCAACAAGATCGC ATGAATCCCATCTTCTGCCAAACTTATACACCTCACAATCTCTTTACCAATAAAATCAGCTGCA GTAGACAAATCAAACAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.09787903

Conservation Information
Conserved circRNAs	NA
PMCS	0.09787903

			
						 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
						Ye et al., 2015;Chen et al., 2017a

circRNA

Detail information of AT1G33970_circ_g.4

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