Plant Circular RNA Database

Detail information of AT1G10130_circ_g.12

			
						 General Information
					
						CircRNA Name
						AT1G10130_circ_g.12
					
						ID in PlantcircBase
						ath_circ_001816
					
						Alias
						Ath_circ_FC0284
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 3316382-3319184  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT1G10130						
					
						Parent gene annotation
						
							Calcium-transporting ATPase 3, endoplasmic reticulum-type
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G10130_circ_g.10 AT1G10130_circ_g.11 AT1G10130_circ_g.13 						
					
						Support reads
						1
					
						Tissues
						whole_plant
					
						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  
						
							GT-AG							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
						AT1G10130.1:9

General Information
CircRNA Name	AT1G10130_circ_g.12
ID in PlantcircBase	ath_circ_001816
Alias	Ath_circ_FC0284
Organism	Arabidpsis thaliana
Position	chr1: 3316382-3319184 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	AT1G10130
Parent gene annotation	Calcium-transporting ATPase 3, endoplasmic reticulum-type
Parent gene strand	+
Alternative splicing	AT1G10130_circ_g.10 AT1G10130_circ_g.11 AT1G10130_circ_g.13
Support reads	1
Tissues	whole_plant
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	GT-AG 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	AT1G10130.1:9

			
						 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  
						
							CTCCTAGGTGGCAATGACTGGTGATGGCGTTAATGATGCCCCTGCATTGAAGAAAGCTGACATT
GGGATTGCCATGGGTTCTGGAACAGCTGTAGCAAAGatatgtgtagtccaatctgcagagcatg
gtcctatgattaatgaattcactgttagtgggacaacttatgcaccagaaggtaccgtctttga
cagcaatg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							ATATGTGTAGTCCAATCTGCAGAGCATGGTCCTATGATTAATGAATTCACTGTTAGTGGGACAA
CTTATGCACCAGAAGGTACCGTCTTTGACAGCAATGGGATGCAGGTAATATTTCTTCTCCTCTG
GACTATGTAAGTAAGCAACTAATTCATATACGGCACTTTTAACTTTTGAGGGTGACTGGTAGTT
GTTTACCTACATACTCAGAAATTGTTACCATGCAACTATTAAAGGACAGGTTGAACTGAAAATT
TCATCTCAGGATTGCTTGATAAAATTGATCTGGATACTTGATGACAGTAGAACCTAAAAAATTG
ACTGTCTACAAGAATCATGATTTCTTTCTTCTTTTATTTTATACATTTGATGTATCTTACATTC
TTCATATTTCAATTGTTTTTAGATTTCGCGGAGTTCTTTCTCAATGATTTAATATTTGTGAAAG
ATAAAAGAGCATAAACTCAATAGCAATCTTCAAACTACTCGCACATGCCTTGTCACAACACACA
ACATTCTTAAGACTAGTGTTTACTTTTTTTGCAGCTTGACTTACCTGCTCAGTCACCTTGCCTT
CATCATTTAGCAATGTGTTCATCACTCTGCAATGACTCCATCTTGCAATACAATCCAGATAAGG
ATTCTTATGAAAAAATTGGAGAGTCAACTGAAGTTGCTCTTCGAGTTCTTGCAGAAAAGGTTTG
TGTTTCTGTGAAATCTTTCTTTAGTAGACTTTGTTACCACAACAACAAAATCCGTGGAACATAC
CAGACGGTTTCTCTATTGACTTGAGTGACCATTTACGGGCTCATATTGTTTAGCACGATGTTTA
GGTGCTGTGAGCATCCATTTCTTGTCATCTTACTATATACCCAGCATAGAGGTTGAACTTACTA
TTTACTAAGTCTGGAATATCTGATTAACTGTCCAAGTTACTTCTGTTACTTATTTTTCAGGTTG
GGCTCCCTGGTTTTGATTCAATGCCTTCTGCTCTAAACATGTTGAGCAAGCATGAACGTGCATC
ATATTGCAACCATTATTGGGAAAACCAATTCAAAAAGGTGTGACTCTAGTAAAACTAAACTATT
CTATTATGTTGACCGTCATTTTACATGCCATTGGATAATGTAATTCTTTTGTTCCTATAGTTTT
CTGAAAACTATGAAATTGAGAAAATACTAGACCTGGAATTTGTAGTAGCCAATGCGATACACAC
TTTTTATCTATGTTGATCTCTGAGAAGAAGCTCATAACTTCCTGAGTAAATCTATATAATGTTT
TCCTTTCGCACTAGATAGCTATTTTAAGAGCTCCACTGCACCAGTATAATTAGAAGTTAATATT
GACCTGGGAACATCATATTTCAAAGAATATAATAGTAATTTAGTATGAGTAACTGATTGCTATC
TTCATCAAGGTTTATGTTTTGGAGTTTACTCGTGACCGAAAAATGATGAGCGTCCTATGTAGCC
ATAAGCAAATGGATGTTATGTTCTCAAAGGGTGCTCCAGAGAGTATAATAGCTAGGTGTAATAA
AATTCTCTGCAACGGTGATGGTTCTGTTGTTCCTCTAACTGCTGCTGGCCGTGCAGAGCTTGAG
TCGAGGTTTTACAGGTTCGACATCAACTTGTTTAATGAATATGATTACATTTTCATATTACTTC
GTGATGGTTATCTTTCGATGCTTGTATTTTCACTTCTTATAGTAATTTTGCTGTTAAAGGTTTG
ACCGAAGTGGGTTTTCCATTTTCTAACCATGTCTTTCTGCAACAGTTTTGGCGATGAAACATTG
AGATGCTTAGCATTAGCATTTAAGACCGTGCCCCACGGTCAACAAACTATTTCCTATGATAATG
AGAACGACCTGACGTTTATTGGGTTGGTACGCCTTTCTTTCAAATATGATGGATTTAATTAAGT
TTACTGGAAGATTCACCATTTTTCTTTTACTGTTGAAGACTAGCTCATCTTGTGTTTCCTTTGA
AGGTGGGAATGCTTGATCCACCAAGAGAAGAAGTGAGAGATGCTATGCTTGCGTGTATGACTGC
TGGGATACGTGTTATAGTTGTTACTGGGGATAACAAGGTACTAGAAAATTGAGCATGCGGTTTG
TTGATTATCTCCATCATTTTTGTACTTATTCTGATTAGCATGAATTTTCAGTCCACAGCAGAGT
CACTATGTAGAAAAATAGGGGCTTTTGACAATCTGGTAGACTTTTCTGGTATGTCCTACACCGC
TTCTGAATTTGAACGGCTTCCAGCAGTGCAGCAAACTCTAGCATTGCGACGGATGACACTTTTT
TCCAGGTATTTGTTCATCTCTTGTTTTAATTGATAGTGTTTTTGGAATCTCGGAACTGAATGTT
TACTTATCACGTGTATTTCTCTTTTCTTCTCCAAAGTTCGAGTTATAGTCATTTATGAGAAAAC
CAAAATTTTCTGTTGTTTCTCTATTTGTGTAGGGTTGAACCTTCCCACAAAAGGATGCTTGTTG
AAGCCCTACAGAAACAAAACGAAGTGGTAATTCCCTGGTCACTAAGTTGTCATCATTACCCATC
TTCGTTTTGTCTGTGTTTCAGTTCACATGCATTCTTATTTTGTATTCATGGCTTTCTTTTTGTC
TGTGTTTAAGTTTCTAATATTTTTACTTATTAGAGAAGAAAAGTTCTTGCCTCTAACTGTAGCA
CTTATGAACCTTATTCTCCTAGGTGGCAATGACTGGTGATGGCGTTAATGATGCCCCTGCATTG
AAGAAAGCTGACATTGGGATTGCCATGGGTTCTGGAACAGCTGTAGCAAAG
						
					

			
		

Sequences
Splice junction sequence	CTCCTAGGTGGCAATGACTGGTGATGGCGTTAATGATGCCCCTGCATTGAAGAAAGCTGACATT GGGATTGCCATGGGTTCTGGAACAGCTGTAGCAAAGatatgtgtagtccaatctgcagagcatg gtcctatgattaatgaattcactgttagtgggacaacttatgcaccagaaggtaccgtctttga cagcaatg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	ATATGTGTAGTCCAATCTGCAGAGCATGGTCCTATGATTAATGAATTCACTGTTAGTGGGACAA CTTATGCACCAGAAGGTACCGTCTTTGACAGCAATGGGATGCAGGTAATATTTCTTCTCCTCTG GACTATGTAAGTAAGCAACTAATTCATATACGGCACTTTTAACTTTTGAGGGTGACTGGTAGTT GTTTACCTACATACTCAGAAATTGTTACCATGCAACTATTAAAGGACAGGTTGAACTGAAAATT TCATCTCAGGATTGCTTGATAAAATTGATCTGGATACTTGATGACAGTAGAACCTAAAAAATTG ACTGTCTACAAGAATCATGATTTCTTTCTTCTTTTATTTTATACATTTGATGTATCTTACATTC TTCATATTTCAATTGTTTTTAGATTTCGCGGAGTTCTTTCTCAATGATTTAATATTTGTGAAAG ATAAAAGAGCATAAACTCAATAGCAATCTTCAAACTACTCGCACATGCCTTGTCACAACACACA ACATTCTTAAGACTAGTGTTTACTTTTTTTGCAGCTTGACTTACCTGCTCAGTCACCTTGCCTT CATCATTTAGCAATGTGTTCATCACTCTGCAATGACTCCATCTTGCAATACAATCCAGATAAGG ATTCTTATGAAAAAATTGGAGAGTCAACTGAAGTTGCTCTTCGAGTTCTTGCAGAAAAGGTTTG TGTTTCTGTGAAATCTTTCTTTAGTAGACTTTGTTACCACAACAACAAAATCCGTGGAACATAC CAGACGGTTTCTCTATTGACTTGAGTGACCATTTACGGGCTCATATTGTTTAGCACGATGTTTA GGTGCTGTGAGCATCCATTTCTTGTCATCTTACTATATACCCAGCATAGAGGTTGAACTTACTA TTTACTAAGTCTGGAATATCTGATTAACTGTCCAAGTTACTTCTGTTACTTATTTTTCAGGTTG GGCTCCCTGGTTTTGATTCAATGCCTTCTGCTCTAAACATGTTGAGCAAGCATGAACGTGCATC ATATTGCAACCATTATTGGGAAAACCAATTCAAAAAGGTGTGACTCTAGTAAAACTAAACTATT CTATTATGTTGACCGTCATTTTACATGCCATTGGATAATGTAATTCTTTTGTTCCTATAGTTTT CTGAAAACTATGAAATTGAGAAAATACTAGACCTGGAATTTGTAGTAGCCAATGCGATACACAC TTTTTATCTATGTTGATCTCTGAGAAGAAGCTCATAACTTCCTGAGTAAATCTATATAATGTTT TCCTTTCGCACTAGATAGCTATTTTAAGAGCTCCACTGCACCAGTATAATTAGAAGTTAATATT GACCTGGGAACATCATATTTCAAAGAATATAATAGTAATTTAGTATGAGTAACTGATTGCTATC TTCATCAAGGTTTATGTTTTGGAGTTTACTCGTGACCGAAAAATGATGAGCGTCCTATGTAGCC ATAAGCAAATGGATGTTATGTTCTCAAAGGGTGCTCCAGAGAGTATAATAGCTAGGTGTAATAA AATTCTCTGCAACGGTGATGGTTCTGTTGTTCCTCTAACTGCTGCTGGCCGTGCAGAGCTTGAG TCGAGGTTTTACAGGTTCGACATCAACTTGTTTAATGAATATGATTACATTTTCATATTACTTC GTGATGGTTATCTTTCGATGCTTGTATTTTCACTTCTTATAGTAATTTTGCTGTTAAAGGTTTG ACCGAAGTGGGTTTTCCATTTTCTAACCATGTCTTTCTGCAACAGTTTTGGCGATGAAACATTG AGATGCTTAGCATTAGCATTTAAGACCGTGCCCCACGGTCAACAAACTATTTCCTATGATAATG AGAACGACCTGACGTTTATTGGGTTGGTACGCCTTTCTTTCAAATATGATGGATTTAATTAAGT TTACTGGAAGATTCACCATTTTTCTTTTACTGTTGAAGACTAGCTCATCTTGTGTTTCCTTTGA AGGTGGGAATGCTTGATCCACCAAGAGAAGAAGTGAGAGATGCTATGCTTGCGTGTATGACTGC TGGGATACGTGTTATAGTTGTTACTGGGGATAACAAGGTACTAGAAAATTGAGCATGCGGTTTG TTGATTATCTCCATCATTTTTGTACTTATTCTGATTAGCATGAATTTTCAGTCCACAGCAGAGT CACTATGTAGAAAAATAGGGGCTTTTGACAATCTGGTAGACTTTTCTGGTATGTCCTACACCGC TTCTGAATTTGAACGGCTTCCAGCAGTGCAGCAAACTCTAGCATTGCGACGGATGACACTTTTT TCCAGGTATTTGTTCATCTCTTGTTTTAATTGATAGTGTTTTTGGAATCTCGGAACTGAATGTT TACTTATCACGTGTATTTCTCTTTTCTTCTCCAAAGTTCGAGTTATAGTCATTTATGAGAAAAC CAAAATTTTCTGTTGTTTCTCTATTTGTGTAGGGTTGAACCTTCCCACAAAAGGATGCTTGTTG AAGCCCTACAGAAACAAAACGAAGTGGTAATTCCCTGGTCACTAAGTTGTCATCATTACCCATC TTCGTTTTGTCTGTGTTTCAGTTCACATGCATTCTTATTTTGTATTCATGGCTTTCTTTTTGTC TGTGTTTAAGTTTCTAATATTTTTACTTATTAGAGAAGAAAAGTTCTTGCCTCTAACTGTAGCA CTTATGAACCTTATTCTCCTAGGTGGCAATGACTGGTGATGGCGTTAATGATGCCCCTGCATTG AAGAAAGCTGACATTGGGATTGCCATGGGTTCTGGAACAGCTGTAGCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.136255901

Conservation Information
Conserved circRNAs	NA
PMCS	0.136255901

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							3316415-3319181(+)
						
					

						Potential amino acid sequence
						
							MINEFTVSGTTYAPEGTVFDSNGMQLDLPAQSPCLHHLAMCSSLCNDSILQYNPDKDSYEKIGE
STEVALRVLAEKVGLPGFDSMPSALNMLSKHERASYCNHYWENQFKKVYVLEFTRDRKMMSVLC
SHKQMDVMFSKGAPESIIARCNKILCNGDGSVVPLTAAGRAELESRFYSFGDETLRCLALAFKT
VPHGQQTISYDNENDLTFIGLVGMLDPPREEVRDAMLACMTAGIRVIVVTGDNKSTAESLCRKI
GAFDNLVDFSGMSYTASEFERLPAVQQTLALRRMTLFSRVEPSHKRMLVEALQKQNEVVAMTGD
GVNDAPALKKADIGIAMGSGTAVAKICVVQSAEHGPMINEFTVSGTTYAPEGTVFDSNGMQLDL
PAQSPCLHHLAMCSSLCNDSILQYNPDKDSYEKIGESTEVALRVLAEKVGLPGFDSMPSALNML
SKHERASYCNHYWENQFKKVYVLEFTRDRKMMSVLCSHKQMDVMFSKGAPESIIARCNKILCNG
DGSVVPLTAAGRAELESRFYSFGDETLRCLALAFKTVPHGQQTISYDNENDLTFIGLVGMLDPP
REEVRDAMLACMTAGIRVIVVTGDNKSTAESLCRKIGAFDNLVDFSGMSYTASEFERLPAVQQT
LALRRMTLFSRVEPSHKRMLVEALQKQNEVVAMTGDGVNDAPALKKADIGIAMGSGTAVAKICV
VQSAEHGPMINEFTVSGTTYAPEGTVFDSNGMQLDLPAQSPCLHHLAMCSSLCNDSILQYNPDK
DSYEKIGESTEVALRVLAEKVGLPGFDSMPSALNMLSKHERASYCNHYWENQFKKVYVLEFTRD
RKMMSVLCSHKQMDVMFSKGAPESIIARCNKILCNGDGSVVPLTAAGRAELESRFYSFGDETLR
CLALAFKTVPHGQQTISYDNENDLTFIGLVGMLDPPREEVRDAMLACMTAGIRVIVVTGDNKST
AESLCRKIGAFDNLVDFSGMSYTASEFERLPAVQQTLALRRMTLFSRVEPSHKRMLVEALQKQN
EVVAMTGDGVNDAPALKKADIGIAMGSGTAVAKICVVQSAEHGPMINEFTVSGTTYAPEGTVFD
SNGMQLDLPAQSPCLHHLAMCSSLCNDSILQYNPDKDSYEKIGESTEVALRVLAEKVGLPGFDS
MPSALNMLSKHERASYCNHYWENQFKKVYVLEFTRDRKMMSVLCSHKQMDVMFSKGAPESIIAR
CNKILCNGDGSVVPLTAAGRAELESRFYSFGDETLRCLALAFKTVPHGQQTISYDNENDLTFIG
LVGMLDPPREEVRDAMLACMTAGIRVIVVTGDNKSTAESLCRKIGAFDNLVDFSGMSYTASEFE
RLPAVQQTLALRRMTLFSRVEPSHKRMLVEALQKQNEVVAMTGDGVNDAPALKKADIGIAMGSG
TAVAK(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	3316415-3319181(+)
Potential amino acid sequence	MINEFTVSGTTYAPEGTVFDSNGMQLDLPAQSPCLHHLAMCSSLCNDSILQYNPDKDSYEKIGE STEVALRVLAEKVGLPGFDSMPSALNMLSKHERASYCNHYWENQFKKVYVLEFTRDRKMMSVLC SHKQMDVMFSKGAPESIIARCNKILCNGDGSVVPLTAAGRAELESRFYSFGDETLRCLALAFKT VPHGQQTISYDNENDLTFIGLVGMLDPPREEVRDAMLACMTAGIRVIVVTGDNKSTAESLCRKI GAFDNLVDFSGMSYTASEFERLPAVQQTLALRRMTLFSRVEPSHKRMLVEALQKQNEVVAMTGD GVNDAPALKKADIGIAMGSGTAVAKICVVQSAEHGPMINEFTVSGTTYAPEGTVFDSNGMQLDL PAQSPCLHHLAMCSSLCNDSILQYNPDKDSYEKIGESTEVALRVLAEKVGLPGFDSMPSALNML SKHERASYCNHYWENQFKKVYVLEFTRDRKMMSVLCSHKQMDVMFSKGAPESIIARCNKILCNG DGSVVPLTAAGRAELESRFYSFGDETLRCLALAFKTVPHGQQTISYDNENDLTFIGLVGMLDPP REEVRDAMLACMTAGIRVIVVTGDNKSTAESLCRKIGAFDNLVDFSGMSYTASEFERLPAVQQT LALRRMTLFSRVEPSHKRMLVEALQKQNEVVAMTGDGVNDAPALKKADIGIAMGSGTAVAKICV VQSAEHGPMINEFTVSGTTYAPEGTVFDSNGMQLDLPAQSPCLHHLAMCSSLCNDSILQYNPDK DSYEKIGESTEVALRVLAEKVGLPGFDSMPSALNMLSKHERASYCNHYWENQFKKVYVLEFTRD RKMMSVLCSHKQMDVMFSKGAPESIIARCNKILCNGDGSVVPLTAAGRAELESRFYSFGDETLR CLALAFKTVPHGQQTISYDNENDLTFIGLVGMLDPPREEVRDAMLACMTAGIRVIVVTGDNKST AESLCRKIGAFDNLVDFSGMSYTASEFERLPAVQQTLALRRMTLFSRVEPSHKRMLVEALQKQN EVVAMTGDGVNDAPALKKADIGIAMGSGTAVAKICVVQSAEHGPMINEFTVSGTTYAPEGTVFD SNGMQLDLPAQSPCLHHLAMCSSLCNDSILQYNPDKDSYEKIGESTEVALRVLAEKVGLPGFDS MPSALNMLSKHERASYCNHYWENQFKKVYVLEFTRDRKMMSVLCSHKQMDVMFSKGAPESIIAR CNKILCNGDGSVVPLTAAGRAELESRFYSFGDETLRCLALAFKTVPHGQQTISYDNENDLTFIG LVGMLDPPREEVRDAMLACMTAGIRVIVVTGDNKSTAESLCRKIGAFDNLVDFSGMSYTASEFE RLPAVQQTLALRRMTLFSRVEPSHKRMLVEALQKQNEVVAMTGDGVNDAPALKKADIGIAMGSG TAVAK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT1G10130_circ_g.12

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