Plant Circular RNA Database

Detail information of AT2G36850_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G36850_circ_g.2
					
						ID in PlantcircBase
						ath_circ_016927
					
						Alias
						At_ciR5301
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 15456481-15457599  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT2G36850						
					
						Parent gene annotation
						
							Callose synthase 10
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G36850_circ_g.3 						
					
						Support reads
						2
					
						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
						AT2G36850.1:4

General Information
CircRNA Name	AT2G36850_circ_g.2
ID in PlantcircBase	ath_circ_016927
Alias	At_ciR5301
Organism	Arabidpsis thaliana
Position	chr2: 15456481-15457599 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ
Parent gene	AT2G36850
Parent gene annotation	Callose synthase 10
Parent gene strand	-
Alternative splicing	AT2G36850_circ_g.3
Support reads	2
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	AT2G36850.1:4

			
						 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  
						
							TGTAGACATCCCTGCTAAGAACTTGTTCTCCATTTCCACCTGCTACCTTCCCTTCAAATAGGGC
AATCTGGTTAAGTCCTACATCTCTTCCTTTACCAACctttgcaccaccgtgaagaatagtacgt
ccaaagtaatgagttcttgtcccgagagaaaatgtgaaaaagacagaacacaactggaattgca
ttgtaatg

									
								

					

						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: 498
Transcript exons: 15456481-15456594,15456688-15456846,15457299-15457346,15
457423-15457599
CTTTGCACCACCGTGAAGAATAGTACGTCCAAAGTAATGAGTTCTTGTCCCGAGAGAAAATGTG
AAAAAGACAGAACACAACTGGAATTGCATTGTAATGAAGCTGAAAATAGCCTTTAGCAACCCAA
GTTCAAGTATGAAACCCATCACCATAGGGACGGCAGTAAAGATTCCAATCTGGACTAAAAACTG
TGCGTTTAGTGCAGCATCCAATGCAGTGTTACCTGACAGTTTGGCTACTCTTGATATTGCACGA
TCAGCACCAGAAAAGGCCAGATAAACTCTTCCATACAAAAAGACGTACACAGTAAGGACGGTCA
TCATTGTGCAGACATAGAATCCAACTGTTGTGAAGTAGAATGACATCATTCTAAAAAAGTCAAA
CAGCTGCCCAATTCTGTAGACATCCCTGCTAAGAACTTGTTCTCCATTTCCACCTGCTACCTTC
CCTTCAAATAGGGCAATCTGGTTAAGTCCTACATCTCTTCCTTTACCAAC
						
					

						Genomic sequence
						
							CTTTGCACCACCGTGAAGAATAGTACGTCCAAAGTAATGAGTTCTTGTCCCGAGAGAAAATGTG
AAAAAGACAGAACACAACTGGAATTGCATTGTAATGAAGCTGAAAATAGCCTGTGATAGAAGAA
AAAACATATGCTTCAGGACACTTTAGTAGAAGAGCTCTCTCGAACTCCAAAAGGAAACGGAGTG
AATAGGTCAACCAACCTTTAGCAACCCAAGTTCAAGTATGAAACCCATCACCATAGGGACGGCA
GTAAAGATTCCAATCTGGACTAAAAACTGTGCGTTTAGTGCAGCATCCAATGCAGTGTTACCTG
ACAGTTTGGCTACTCTTGATATTGCACGATCAGCACCAGAAAAGGCCTGAAAAATACCAAGAAG
TAAATGATATCAAAGGAGGCAAGGGAAGTGTCTTAAGAAATAAAAGACAACAGATGAAAAAGGA
AAGAAATGCATAATACAACCAAGTTGCAAGAATTAGATAACAATACTTTTCCCAAGAACGTTTT
CCATGTAAAAAGGTCAATCAACAAGTTTGATGCCCAGTTGTGTGTGAAAAGTGCAATATGCCTT
TGATATTTGAAAAGGTGGGTCAAATACTACGCATCCATATTGGTATAGGATTACAGAATATAGT
TGACGGCAAATCAATCTTAAACTACTTGAGGTTGTACTCTTAAAAAATTATGCAGTAAGCAACA
CTGATTTTAGAGTACACATCCGCTACTCTACACCTTTCAGAGAGCAATTACTACCCATCATTTT
AAAAGAAGATACAGTGAAAAAATGAAAAGATAGAAGGCTCCGTAACATACCAGATAAACTCTTC
CATACAAAAAGACGTACACAGTAAGGACGGTCATCTGCATCAAAGAATTTTTTTAACTACATGT
GGTTATGGGGGAAACAGACTTACAGAACACAAGAGAATGAAAGTACCATTGTGCAGACATAGAA
TCCAACTGTTGTGAAGTAGAATGACATCATTCTAAAAAAGTCAAACAGCTGCCCAATTCTGTAG
ACATCCCTGCTAAGAACTTGTTCTCCATTTCCACCTGCTACCTTCCCTTCAAATAGGGCAATCT
GGTTAAGTCCTACATCTCTTCCTTTACCAAC
						
					

			
		

Sequences
Splice junction sequence	TGTAGACATCCCTGCTAAGAACTTGTTCTCCATTTCCACCTGCTACCTTCCCTTCAAATAGGGC AATCTGGTTAAGTCCTACATCTCTTCCTTTACCAACctttgcaccaccgtgaagaatagtacgt ccaaagtaatgagttcttgtcccgagagaaaatgtgaaaaagacagaacacaactggaattgca ttgtaatg
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: 498 Transcript exons: 15456481-15456594,15456688-15456846,15457299-15457346,15 457423-15457599 CTTTGCACCACCGTGAAGAATAGTACGTCCAAAGTAATGAGTTCTTGTCCCGAGAGAAAATGTG AAAAAGACAGAACACAACTGGAATTGCATTGTAATGAAGCTGAAAATAGCCTTTAGCAACCCAA GTTCAAGTATGAAACCCATCACCATAGGGACGGCAGTAAAGATTCCAATCTGGACTAAAAACTG TGCGTTTAGTGCAGCATCCAATGCAGTGTTACCTGACAGTTTGGCTACTCTTGATATTGCACGA TCAGCACCAGAAAAGGCCAGATAAACTCTTCCATACAAAAAGACGTACACAGTAAGGACGGTCA TCATTGTGCAGACATAGAATCCAACTGTTGTGAAGTAGAATGACATCATTCTAAAAAAGTCAAA CAGCTGCCCAATTCTGTAGACATCCCTGCTAAGAACTTGTTCTCCATTTCCACCTGCTACCTTC CCTTCAAATAGGGCAATCTGGTTAAGTCCTACATCTCTTCCTTTACCAAC
Genomic sequence	CTTTGCACCACCGTGAAGAATAGTACGTCCAAAGTAATGAGTTCTTGTCCCGAGAGAAAATGTG AAAAAGACAGAACACAACTGGAATTGCATTGTAATGAAGCTGAAAATAGCCTGTGATAGAAGAA AAAACATATGCTTCAGGACACTTTAGTAGAAGAGCTCTCTCGAACTCCAAAAGGAAACGGAGTG AATAGGTCAACCAACCTTTAGCAACCCAAGTTCAAGTATGAAACCCATCACCATAGGGACGGCA GTAAAGATTCCAATCTGGACTAAAAACTGTGCGTTTAGTGCAGCATCCAATGCAGTGTTACCTG ACAGTTTGGCTACTCTTGATATTGCACGATCAGCACCAGAAAAGGCCTGAAAAATACCAAGAAG TAAATGATATCAAAGGAGGCAAGGGAAGTGTCTTAAGAAATAAAAGACAACAGATGAAAAAGGA AAGAAATGCATAATACAACCAAGTTGCAAGAATTAGATAACAATACTTTTCCCAAGAACGTTTT CCATGTAAAAAGGTCAATCAACAAGTTTGATGCCCAGTTGTGTGTGAAAAGTGCAATATGCCTT TGATATTTGAAAAGGTGGGTCAAATACTACGCATCCATATTGGTATAGGATTACAGAATATAGT TGACGGCAAATCAATCTTAAACTACTTGAGGTTGTACTCTTAAAAAATTATGCAGTAAGCAACA CTGATTTTAGAGTACACATCCGCTACTCTACACCTTTCAGAGAGCAATTACTACCCATCATTTT AAAAGAAGATACAGTGAAAAAATGAAAAGATAGAAGGCTCCGTAACATACCAGATAAACTCTTC CATACAAAAAGACGTACACAGTAAGGACGGTCATCTGCATCAAAGAATTTTTTTAACTACATGT GGTTATGGGGGAAACAGACTTACAGAACACAAGAGAATGAAAGTACCATTGTGCAGACATAGAA TCCAACTGTTGTGAAGTAGAATGACATCATTCTAAAAAAGTCAAACAGCTGCCCAATTCTGTAG ACATCCCTGCTAAGAACTTGTTCTCCATTTCCACCTGCTACCTTCCCTTCAAATAGGGCAATCT GGTTAAGTCCTACATCTCTTCCTTTACCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.300108688

Conservation Information
Conserved circRNAs	NA
PMCS	0.300108688

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15457471-15456483(-)
						
						Potential amino acid sequence
						
							MMSFYFTTVGFYVCTMMTVLTVYVFLYGRVYLAFSGADRAISRVAKLSGNTALDAALNAQFLVQ
IGIFTAVPMVMGFILELGLLKAIFSFITMQFQLCSVFFTFSLGTRTHYFGRTILHGGAKVGKGR
DVGLNQIALFEGKVAGGNGEQVLSRDVYRIGQLFDFFRMMSFYFTTVGFYVCTMMTVLTVYVFL
YGRVYLAFSGADRAISRVAKLSGNTALDAALNAQFLVQIGIFTAVPMVMGFILELGLLKAIFSF
ITMQFQLCSVFFTFSLGTRTHYFGRTILHGGAKVGKGRDVGLNQIALFEGKVAGGNGEQVLSRD
VYRIGQLFDFFRMMSFYFTTVGFYVCTMMTVLTVYVFLYGRVYLAFSGADRAISRVAKLSGNTA
LDAALNAQFLVQIGIFTAVPMVMGFILELGLLKAIFSFITMQFQLCSVFFTFSLGTRTHYFGRT
ILHGGAKVGKGRDVGLNQIALFEGKVAGGNGEQVLSRDVYRIGQLFDFFRMMSFYFTTVGFYVC
TMMTVLTVYVFLYGRVYLAFSGADRAISRVAKLSGNTALDAALNAQFLVQIGIFTAVPMVMGFI
LELGLLKAIFSFITMQFQLCSVFFTFSLGTRTHYFGRTILHGGAK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15457471-15456483(-)
Potential amino acid sequence	MMSFYFTTVGFYVCTMMTVLTVYVFLYGRVYLAFSGADRAISRVAKLSGNTALDAALNAQFLVQ IGIFTAVPMVMGFILELGLLKAIFSFITMQFQLCSVFFTFSLGTRTHYFGRTILHGGAKVGKGR DVGLNQIALFEGKVAGGNGEQVLSRDVYRIGQLFDFFRMMSFYFTTVGFYVCTMMTVLTVYVFL YGRVYLAFSGADRAISRVAKLSGNTALDAALNAQFLVQIGIFTAVPMVMGFILELGLLKAIFSF ITMQFQLCSVFFTFSLGTRTHYFGRTILHGGAKVGKGRDVGLNQIALFEGKVAGGNGEQVLSRD VYRIGQLFDFFRMMSFYFTTVGFYVCTMMTVLTVYVFLYGRVYLAFSGADRAISRVAKLSGNTA LDAALNAQFLVQIGIFTAVPMVMGFILELGLLKAIFSFITMQFQLCSVFFTFSLGTRTHYFGRT ILHGGAKVGKGRDVGLNQIALFEGKVAGGNGEQVLSRDVYRIGQLFDFFRMMSFYFTTVGFYVC TMMTVLTVYVFLYGRVYLAFSGADRAISRVAKLSGNTALDAALNAQFLVQIGIFTAVPMVMGFI LELGLLKAIFSFITMQFQLCSVFFTFSLGTRTHYFGRTILHGGAK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of AT2G36850_circ_g.2

Address

Any questions?

Supported by