Plant Circular RNA Database

Detail information of AT1G10290_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT1G10290_circ_g.5
					
						ID in PlantcircBase
						ath_circ_001847
					
						Alias
						At_ciR2379
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 3372264-3373745  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							AT1G10290						
					
						Parent gene annotation
						
							DRP2A
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G10290_circ_g.4 AT1G10290_circ_g.6 AT1G10290_circ_g.7 AT1G10290_circ_g.8 AT1G10290_circ_g.9 AT1G10290_circ_g.10 AT1G10290_circ_g.11 AT1G10290_circ_g.12 AT1G10290_circ_g.13 AT1G10290_circ_g.14 AT1G10290_circ_g.15 AT1G10290_circ_g.16 AT1G10290_circ_g.17 AT1G10290_circ_g.18 AT1G10290_circ_g.19 AT1G10290_circ_g.20 AT1G10290_circ_g.21 AT1G10290_circ_g.22 AT1G10290_circ_g.23 AT1G10290_circ_g.24 						
					
						Support reads
						3/2
					
						Tissues
						leaf/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  
						
							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
						AT1G10290.1:5

General Information
CircRNA Name	AT1G10290_circ_g.5
ID in PlantcircBase	ath_circ_001847
Alias	At_ciR2379
Organism	Arabidpsis thaliana
Position	chr1: 3372264-3373745 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	AT1G10290
Parent gene annotation	DRP2A
Parent gene strand	+
Alternative splicing	AT1G10290_circ_g.4 AT1G10290_circ_g.6 AT1G10290_circ_g.7 AT1G10290_circ_g.8 AT1G10290_circ_g.9 AT1G10290_circ_g.10 AT1G10290_circ_g.11 AT1G10290_circ_g.12 AT1G10290_circ_g.13 AT1G10290_circ_g.14 AT1G10290_circ_g.15 AT1G10290_circ_g.16 AT1G10290_circ_g.17 AT1G10290_circ_g.18 AT1G10290_circ_g.19 AT1G10290_circ_g.20 AT1G10290_circ_g.21 AT1G10290_circ_g.22 AT1G10290_circ_g.23 AT1G10290_circ_g.24
Support reads	3/2
Tissues	leaf/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	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	AT1G10290.1:5

			
						 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  
						
							TTATCAACCTTATCTTATATCTCCAGAGAAAGGGTTGAGATCGTTGATAAAGATTGTCCTTGAG
TTGGCTAAAGACCCGGCACGCCTTTGTGTTGATGAGattgctgaatacgcgcaacacaatgatg
ccatactgctggttatagtgcctgctagccaggcatctgaaatttcatcatcccgagccctgaa
gattgcaa

									
								

					

						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: 825
Transcript exons: 3372264-3372381,3372528-3372864,3372970-3373117,3373444-
3373545,3373626-3373745
ATTGCTGAATACGCGCAACACAATGATGCCATACTGCTGGTTATAGTGCCTGCTAGCCAGGCAT
CTGAAATTTCATCATCCCGAGCCCTGAAGATTGCAAAGGAGTATGATCCAGAGAGTACTAGGAC
AATAGGCATTATTGGAAAAATTGACCAGGCAGCAGAGAACTCGAAAGCCCTTGCAGCTGTTCAG
GCTCTTCTTTCAAATCAAGGACCTCCAAAAACAACTGACATTCCATGGGTTGCTGTTATTGGCC
AATCCGTTTCAATTGCGTCAGCACAGTCTGGAAGTGGTGAGAACTCCTTAGAAACTGCTTGGCG
TGCTGAGAGTGAAAGTCTTAAGTCCATTTTGACTGGGGCTCCACAAAGCAAGCTTGGCAGAATT
GCGTTGGTGGATACCCTTGCTAGCCAGATTCGTAGCAGAATGAAGCTCAGGCTTCCAAGTGTCC
TGTCTGGGCTCCAGGGTAAGTCTCAAATAGTGCAGGATGAGCTAGCGAGGCTTGGTGAACAACT
AGTTAACAGTGCTGAAGGTACAAGGGCTATAGCTTTGGAGCTTTGCCGTGAGTTTGAAGACAAG
TTTCTTCTGCACTTGGCTGGTGGTGAAGGAAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGAA
ATTTCCCCAACCGTATCAAGCAGCTTCCATTGGATAGACATTTTGACCTGAACAATGTTAAAAG
GGTTGTTTTGGAGGCAGATGGTTATCAACCTTATCTTATATCTCCAGAGAAAGGGTTGAGATCG
TTGATAAAGATTGTCCTTGAGTTGGCTAAAGACCCGGCACGCCTTTGTGTTGATGAG
						
					

						Genomic sequence
						
							ATTGCTGAATACGCGCAACACAATGATGCCATACTGCTGGTTATAGTGCCTGCTAGCCAGGCAT
CTGAAATTTCATCATCCCGAGCCCTGAAGATTGCAAAGGAGTATGATCCAGAGAGTGAGTACAT
CTGTATTTCCGATCTGTCTTATCTTAATATTGTTTATTATTTGTATACCTGATAAGAACTGTTG
ATTTACCTACCTATTATCACTTCAGTTTGCTTAAAATACTCATTAGCTAACATCACTCCTCCCT
ACTTATAGGTACTAGGACAATAGGCATTATTGGAAAAATTGACCAGGCAGCAGAGAACTCGAAA
GCCCTTGCAGCTGTTCAGGCTCTTCTTTCAAATCAAGGACCTCCAAAAACAACTGACATTCCAT
GGGTTGCTGTTATTGGCCAATCCGTTTCAATTGCGTCAGCACAGTCTGGAAGTGGTGAGAACTC
CTTAGAAACTGCTTGGCGTGCTGAGAGTGAAAGTCTTAAGTCCATTTTGACTGGGGCTCCACAA
AGCAAGCTTGGCAGAATTGCGTTGGTGGATACCCTTGCTAGCCAGATTCGTAGCAGAATGAAGC
TCAGGCTTCCAAGTGTCCTGTCTGGGTATTGCTTCTCTCCATATATGTGCTTTCTTCATGATTT
TTATTATGGTGTTGGCATATGACATTGGTTGCTTGAACGCATATGGCTTTCAAATTCTTTGTAC
AGGCTCCAGGGTAAGTCTCAAATAGTGCAGGATGAGCTAGCGAGGCTTGGTGAACAACTAGTTA
ACAGTGCTGAAGGTACAAGGGCTATAGCTTTGGAGCTTTGCCGTGAGTTTGAAGACAAGTTTCT
TCTGCACTTGGCTGGTGGTGAAGTAAGTACATTCTTACAAAAGTTAACTAGATTTAGTCGAAAA
TTCAAGAATATAGTGAGAGAGAAGAACTCTTCAAATATTAGCAATCAGCCATTTCAGATTTGGT
ACTAGTGTAGTGGAAAGTCTCTTGCTAGCCTACGCTTGGTAAGAGCACATTATATTGTTGGGAA
TCTCATGAATCTGATAGTGGATGTTTATAATATGTGTATAAGCCAACTGAGTGTTTGATATAGA
GTTTTTGTACTTGTCTGTGTTCAGTTTATGGGCTGAAGTCCCTTTTGGAGCTTGGCAAATGTTT
TTCTCAAAACTTTTTGATTCTTGTTCAGGGAAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGA
AATTTCCCCAACCGTATCAAGCAGCTTCCATTGGATAGACATTTTGACCTGAACAATGTTAAAA
GGGTGGGTGTCTTCTTCTGTCCTAAGTTTCTGCACGAGACAAGTTTTGAGACTTGATTTGTCAA
AATATCTTTGATTTTCAGGTTGTTTTGGAGGCAGATGGTTATCAACCTTATCTTATATCTCCAG
AGAAAGGGTTGAGATCGTTGATAAAGATTGTCCTTGAGTTGGCTAAAGACCCGGCACGCCTTTG
TGTTGATGAG
						
					

			
		

Sequences
Splice junction sequence	TTATCAACCTTATCTTATATCTCCAGAGAAAGGGTTGAGATCGTTGATAAAGATTGTCCTTGAG TTGGCTAAAGACCCGGCACGCCTTTGTGTTGATGAGattgctgaatacgcgcaacacaatgatg ccatactgctggttatagtgcctgctagccaggcatctgaaatttcatcatcccgagccctgaa gattgcaa
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: 825 Transcript exons: 3372264-3372381,3372528-3372864,3372970-3373117,3373444- 3373545,3373626-3373745 ATTGCTGAATACGCGCAACACAATGATGCCATACTGCTGGTTATAGTGCCTGCTAGCCAGGCAT CTGAAATTTCATCATCCCGAGCCCTGAAGATTGCAAAGGAGTATGATCCAGAGAGTACTAGGAC AATAGGCATTATTGGAAAAATTGACCAGGCAGCAGAGAACTCGAAAGCCCTTGCAGCTGTTCAG GCTCTTCTTTCAAATCAAGGACCTCCAAAAACAACTGACATTCCATGGGTTGCTGTTATTGGCC AATCCGTTTCAATTGCGTCAGCACAGTCTGGAAGTGGTGAGAACTCCTTAGAAACTGCTTGGCG TGCTGAGAGTGAAAGTCTTAAGTCCATTTTGACTGGGGCTCCACAAAGCAAGCTTGGCAGAATT GCGTTGGTGGATACCCTTGCTAGCCAGATTCGTAGCAGAATGAAGCTCAGGCTTCCAAGTGTCC TGTCTGGGCTCCAGGGTAAGTCTCAAATAGTGCAGGATGAGCTAGCGAGGCTTGGTGAACAACT AGTTAACAGTGCTGAAGGTACAAGGGCTATAGCTTTGGAGCTTTGCCGTGAGTTTGAAGACAAG TTTCTTCTGCACTTGGCTGGTGGTGAAGGAAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGAA ATTTCCCCAACCGTATCAAGCAGCTTCCATTGGATAGACATTTTGACCTGAACAATGTTAAAAG GGTTGTTTTGGAGGCAGATGGTTATCAACCTTATCTTATATCTCCAGAGAAAGGGTTGAGATCG TTGATAAAGATTGTCCTTGAGTTGGCTAAAGACCCGGCACGCCTTTGTGTTGATGAG
Genomic sequence	ATTGCTGAATACGCGCAACACAATGATGCCATACTGCTGGTTATAGTGCCTGCTAGCCAGGCAT CTGAAATTTCATCATCCCGAGCCCTGAAGATTGCAAAGGAGTATGATCCAGAGAGTGAGTACAT CTGTATTTCCGATCTGTCTTATCTTAATATTGTTTATTATTTGTATACCTGATAAGAACTGTTG ATTTACCTACCTATTATCACTTCAGTTTGCTTAAAATACTCATTAGCTAACATCACTCCTCCCT ACTTATAGGTACTAGGACAATAGGCATTATTGGAAAAATTGACCAGGCAGCAGAGAACTCGAAA GCCCTTGCAGCTGTTCAGGCTCTTCTTTCAAATCAAGGACCTCCAAAAACAACTGACATTCCAT GGGTTGCTGTTATTGGCCAATCCGTTTCAATTGCGTCAGCACAGTCTGGAAGTGGTGAGAACTC CTTAGAAACTGCTTGGCGTGCTGAGAGTGAAAGTCTTAAGTCCATTTTGACTGGGGCTCCACAA AGCAAGCTTGGCAGAATTGCGTTGGTGGATACCCTTGCTAGCCAGATTCGTAGCAGAATGAAGC TCAGGCTTCCAAGTGTCCTGTCTGGGTATTGCTTCTCTCCATATATGTGCTTTCTTCATGATTT TTATTATGGTGTTGGCATATGACATTGGTTGCTTGAACGCATATGGCTTTCAAATTCTTTGTAC AGGCTCCAGGGTAAGTCTCAAATAGTGCAGGATGAGCTAGCGAGGCTTGGTGAACAACTAGTTA ACAGTGCTGAAGGTACAAGGGCTATAGCTTTGGAGCTTTGCCGTGAGTTTGAAGACAAGTTTCT TCTGCACTTGGCTGGTGGTGAAGTAAGTACATTCTTACAAAAGTTAACTAGATTTAGTCGAAAA TTCAAGAATATAGTGAGAGAGAAGAACTCTTCAAATATTAGCAATCAGCCATTTCAGATTTGGT ACTAGTGTAGTGGAAAGTCTCTTGCTAGCCTACGCTTGGTAAGAGCACATTATATTGTTGGGAA TCTCATGAATCTGATAGTGGATGTTTATAATATGTGTATAAGCCAACTGAGTGTTTGATATAGA GTTTTTGTACTTGTCTGTGTTCAGTTTATGGGCTGAAGTCCCTTTTGGAGCTTGGCAAATGTTT TTCTCAAAACTTTTTGATTCTTGTTCAGGGAAGTGGTTGGAAAGTTGTTGCAAGTTTTGAAGGA AATTTCCCCAACCGTATCAAGCAGCTTCCATTGGATAGACATTTTGACCTGAACAATGTTAAAA GGGTGGGTGTCTTCTTCTGTCCTAAGTTTCTGCACGAGACAAGTTTTGAGACTTGATTTGTCAA AATATCTTTGATTTTCAGGTTGTTTTGGAGGCAGATGGTTATCAACCTTATCTTATATCTCCAG AGAAAGGGTTGAGATCGTTGATAAAGATTGTCCTTGAGTTGGCTAAAGACCCGGCACGCCTTTG TGTTGATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.25719883

Conservation Information
Conserved circRNAs	NA
PMCS	0.25719883

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3372833-3373742(+)
						
						Potential amino acid sequence
						
							MKLRLPSVLSGLQGKSQIVQDELARLGEQLVNSAEGTRAIALELCREFEDKFLLHLAGGEGSGW
KVVASFEGNFPNRIKQLPLDRHFDLNNVKRVVLEADGYQPYLISPEKGLRSLIKIVLELAKDPA
RLCVDEIAEYAQHNDAILLVIVPASQASEISSSRALKIAKEYDPESTRTIGIIGKIDQAAENSK
ALAAVQALLSNQGPPKTTDIPWVAVIGQSVSIASAQSGSGENSLETAWRAESESLKSILTGAPQ
SKLGRIALVDTLASQIRSRMKLRLPSVLSGLQGKSQIVQDELARLGEQLVNSAEGTRAIALELC
REFEDKFLLHLAGGEGSGWKVVASFEGNFPNRIKQLPLDRHFDLNNVKRVVLEADGYQPYLISP
EKGLRSLIKIVLELAKDPARLCVDEIAEYAQHNDAILLVIVPASQASEISSSRALKIAKEYDPE
STRTIGIIGKIDQAAENSKALAAVQALLSNQGPPKTTDIPWVAVIGQSVSIASAQSGSGENSLE
TAWRAESESLKSILTGAPQSKLGRIALVDTLASQIRSRMKLRLPSVLSGLQGKSQIVQDELARL
GEQLVNSAEGTRAIALELCREFEDKFLLHLAGGEGSGWKVVASFEGNFPNRIKQLPLDRHFDLN
NVKRVVLEADGYQPYLISPEKGLRSLIKIVLELAKDPARLCVDEIAEYAQHNDAILLVIVPASQ
ASEISSSRALKIAKEYDPESTRTIGIIGKIDQAAENSKALAAVQALLSNQGPPKTTDIPWVAVI
GQSVSIASAQSGSGENSLETAWRAESESLKSILTGAPQSKLGRIALVDTLASQIRSRMKLRLPS
VLSGLQGKSQIVQDELARLGEQLVNSAEGTRAIALELCREFEDKFLLHLAGGEGSGWKVVASFE
GNFPNRIKQLPLDRHFDLNNVKRVVLEADGYQPYLISPEKGLRSLIKIVLELAKDPARLCVDE(
+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3372833-3373742(+)
Potential amino acid sequence	MKLRLPSVLSGLQGKSQIVQDELARLGEQLVNSAEGTRAIALELCREFEDKFLLHLAGGEGSGW KVVASFEGNFPNRIKQLPLDRHFDLNNVKRVVLEADGYQPYLISPEKGLRSLIKIVLELAKDPA RLCVDEIAEYAQHNDAILLVIVPASQASEISSSRALKIAKEYDPESTRTIGIIGKIDQAAENSK ALAAVQALLSNQGPPKTTDIPWVAVIGQSVSIASAQSGSGENSLETAWRAESESLKSILTGAPQ SKLGRIALVDTLASQIRSRMKLRLPSVLSGLQGKSQIVQDELARLGEQLVNSAEGTRAIALELC REFEDKFLLHLAGGEGSGWKVVASFEGNFPNRIKQLPLDRHFDLNNVKRVVLEADGYQPYLISP EKGLRSLIKIVLELAKDPARLCVDEIAEYAQHNDAILLVIVPASQASEISSSRALKIAKEYDPE STRTIGIIGKIDQAAENSKALAAVQALLSNQGPPKTTDIPWVAVIGQSVSIASAQSGSGENSLE TAWRAESESLKSILTGAPQSKLGRIALVDTLASQIRSRMKLRLPSVLSGLQGKSQIVQDELARL GEQLVNSAEGTRAIALELCREFEDKFLLHLAGGEGSGWKVVASFEGNFPNRIKQLPLDRHFDLN NVKRVVLEADGYQPYLISPEKGLRSLIKIVLELAKDPARLCVDEIAEYAQHNDAILLVIVPASQ ASEISSSRALKIAKEYDPESTRTIGIIGKIDQAAENSKALAAVQALLSNQGPPKTTDIPWVAVI GQSVSIASAQSGSGENSLETAWRAESESLKSILTGAPQSKLGRIALVDTLASQIRSRMKLRLPS VLSGLQGKSQIVQDELARLGEQLVNSAEGTRAIALELCREFEDKFLLHLAGGEGSGWKVVASFE GNFPNRIKQLPLDRHFDLNNVKRVVLEADGYQPYLISPEKGLRSLIKIVLELAKDPARLCVDE( +)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of AT1G10290_circ_g.5

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