Plant Circular RNA Database

Detail information of AT1G70410_circ_g.12

			
						 General Information
					
						CircRNA Name
						AT1G70410_circ_g.12
					
						ID in PlantcircBase
						ath_circ_009451
					
						Alias
						AT1G70410_C3
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 26535285-26536517  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder, CIRI2
					
						Parent gene
						
							AT1G70410						
					
						Parent gene annotation
						
							Beta carbonic anhydrase 4
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G70410_circ_g.1 AT1G70410_circ_g.2 AT1G70410_circ_g.3 AT1G70410_circ_g.4 AT1G70410_circ_g.5 AT1G70410_circ_g.6 AT1G70410_circ_g.7 AT1G70410_circ_g.8 AT1G70410_circ_g.9 AT1G70410_circ_g.10 AT1G70410_circ_g.11 AT1G70410_circ_g.13 AT1G70410_circ_g.14 AT1G70410_circ_g.15 						
					
						Support reads
						2
					
						Tissues
						root, whole_plant, 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
						AT1G70410.3:4
AT1G70410.1:4
AT1G70410.2:4

General Information
CircRNA Name	AT1G70410_circ_g.12
ID in PlantcircBase	ath_circ_009451
Alias	AT1G70410_C3
Organism	Arabidpsis thaliana
Position	chr1: 26535285-26536517 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder, CIRI2
Parent gene	AT1G70410
Parent gene annotation	Beta carbonic anhydrase 4
Parent gene strand	-
Alternative splicing	AT1G70410_circ_g.1 AT1G70410_circ_g.2 AT1G70410_circ_g.3 AT1G70410_circ_g.4 AT1G70410_circ_g.5 AT1G70410_circ_g.6 AT1G70410_circ_g.7 AT1G70410_circ_g.8 AT1G70410_circ_g.9 AT1G70410_circ_g.10 AT1G70410_circ_g.11 AT1G70410_circ_g.13 AT1G70410_circ_g.14 AT1G70410_circ_g.15
Support reads	2
Tissues	root, whole_plant, 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	AT1G70410.3:4 AT1G70410.1:4 AT1G70410.2:4

			
						 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  
						
							TAATGATGGTACTATGAGTCAGAGAGAGTGTGTACCTGAGAAGATCATTGAGTCCTTTAATGGC
GGCTTCGTACGATTCCGTTGCCATTTCGTCTTTTTCctggtcaaaaggtggaaccatattggct
atgtttctgacaacaaaagcctcaccaggttggaaattcaagatgtgagatggacaaactcgag
aatcagag

									
								

					

						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: 372
Transcript exons: 26535285-26535401,26535647-26535695,26536042-26536182,26
536453-26536517
CTGGTCAAAAGGTGGAACCATATTGGCTATGTTTCTGACAACAAAAGCCTCACCAGGTTGGAAA
TTCAAGATGTGAGATGGACAAACTCGAGAATCAGAGCAAGCAAACACCAGAAACTTTGGGGTCT
GAGTCTTGGCAAGATGATTGAACAAAGTACTATTCTTCAAATATTTCTCGGTTTTGAATTGAGT
AAAACCGGTCTTGATTCGTTCAATTGCGTCTGAATTGCTTGAGTCAAGCTCCTTTAGCTCCGCC
GTCAACGCTTTGATCTTCGCGGCGGCGACGTTTCCGAGATCCGCTTTCGTACTGAGAAGATCAT
TGAGTCCTTTAATGGCGGCTTCGTACGATTCCGTTGCCATTTCGTCTTTTTC
						
					

						Genomic sequence
						
							CTGGTCAAAAGGTGGAACCATATTGGCTATGTTTCTGACAACAAAAGCCTCACCAGGTTGGAAA
TTCAAGATGTGAGATGGACAAACTCGAGAATCAGAGCAAGCAAACACCAGAAACTGCCATAATC
AAAAAAAAAAAATCAACATCATTTTCAAATTCATTAACTCTATAATAAGAAAGTGGACCATCTT
TGGTTCCAATAATTGTTTTTGCTAATTCATAAAGTCAAACATCATCGTTGGATTATTAAAAAGC
TTGTCACACTCTTTTGTTCGTATTAACCTATTTTTTAGGTATTAGTCAAAGAAGAAAATAAGTA
AATGAACAGAGAAAAAGAGAGAGATTTGAGAAAAGCTAAAACCTTTGGGGTCTGAGTCTTGGCA
AGATGATTGAACAAAGTACTATTCTTCCTGAAAAAAATTATGAACAGAGAGATTTCATCAAAAT
CCATGAATCAACCTTAAAAAAAATTCAGAATTTCTTTTTAAAAAACCACCTTTTTATGTTTCTG
TTATTGCATATACTAATTGGAATATACCTTCTTAATACAATTTAATTAGCTTTTAATCACCTTT
TTTTAGCACTATCACATGAATAAAAACAGTAATGCTAAGTGAATAAGAAAAAATAAAGGTAGGT
TTATCATTAATGGACCACTCCACCGTCATGAAAATTCTTCTTTACAGAACAAAAACGAATTTAA
TTATATTCTTTTCCTTAAATAACGTTAAAAAGTTTAGTAATTTAAATACTTACAAATATTTCTC
GGTTTTGAATTGAGTAAAACCGGTCTTGATTCGTTCAATTGCGTCTGAATTGCTTGAGTCAAGC
TCCTTTAGCTCCGCCGTCAACGCTTTGATCTTCGCGGCGGCGACGTTTCCGAGATCCGCTTTCG
TACTGTAAAAAAAACGCGGAAATGTGAAACTTTTTTCCCAAGGTAAGTTGATCCAACGGTCAGG
ATCTGTCGTACGTGTACGGATTCCAAAATGTTTGGTCATGAAGAAAACACAAACGCGCAAATCA
AAAGAAAACAAAAAACTCTGATTTTTTTTTCCGATTCAACGCTTTGATTTTGGCGTTGATTATG
GAGAAATTGTGGGAGGAAAAAAAAGAGGAATATGCCGACACTTTCTAATGATGGTACTATGAGT
CAGAGAGAGTGTGTACCTGAGAAGATCATTGAGTCCTTTAATGGCGGCTTCGTACGATTCCGTT
GCCATTTCGTCTTTTTC
						
					

			
		

Sequences
Splice junction sequence	TAATGATGGTACTATGAGTCAGAGAGAGTGTGTACCTGAGAAGATCATTGAGTCCTTTAATGGC GGCTTCGTACGATTCCGTTGCCATTTCGTCTTTTTCctggtcaaaaggtggaaccatattggct atgtttctgacaacaaaagcctcaccaggttggaaattcaagatgtgagatggacaaactcgag aatcagag
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: 372 Transcript exons: 26535285-26535401,26535647-26535695,26536042-26536182,26 536453-26536517 CTGGTCAAAAGGTGGAACCATATTGGCTATGTTTCTGACAACAAAAGCCTCACCAGGTTGGAAA TTCAAGATGTGAGATGGACAAACTCGAGAATCAGAGCAAGCAAACACCAGAAACTTTGGGGTCT GAGTCTTGGCAAGATGATTGAACAAAGTACTATTCTTCAAATATTTCTCGGTTTTGAATTGAGT AAAACCGGTCTTGATTCGTTCAATTGCGTCTGAATTGCTTGAGTCAAGCTCCTTTAGCTCCGCC GTCAACGCTTTGATCTTCGCGGCGGCGACGTTTCCGAGATCCGCTTTCGTACTGAGAAGATCAT TGAGTCCTTTAATGGCGGCTTCGTACGATTCCGTTGCCATTTCGTCTTTTTC
Genomic sequence	CTGGTCAAAAGGTGGAACCATATTGGCTATGTTTCTGACAACAAAAGCCTCACCAGGTTGGAAA TTCAAGATGTGAGATGGACAAACTCGAGAATCAGAGCAAGCAAACACCAGAAACTGCCATAATC AAAAAAAAAAAATCAACATCATTTTCAAATTCATTAACTCTATAATAAGAAAGTGGACCATCTT TGGTTCCAATAATTGTTTTTGCTAATTCATAAAGTCAAACATCATCGTTGGATTATTAAAAAGC TTGTCACACTCTTTTGTTCGTATTAACCTATTTTTTAGGTATTAGTCAAAGAAGAAAATAAGTA AATGAACAGAGAAAAAGAGAGAGATTTGAGAAAAGCTAAAACCTTTGGGGTCTGAGTCTTGGCA AGATGATTGAACAAAGTACTATTCTTCCTGAAAAAAATTATGAACAGAGAGATTTCATCAAAAT CCATGAATCAACCTTAAAAAAAATTCAGAATTTCTTTTTAAAAAACCACCTTTTTATGTTTCTG TTATTGCATATACTAATTGGAATATACCTTCTTAATACAATTTAATTAGCTTTTAATCACCTTT TTTTAGCACTATCACATGAATAAAAACAGTAATGCTAAGTGAATAAGAAAAAATAAAGGTAGGT TTATCATTAATGGACCACTCCACCGTCATGAAAATTCTTCTTTACAGAACAAAAACGAATTTAA TTATATTCTTTTCCTTAAATAACGTTAAAAAGTTTAGTAATTTAAATACTTACAAATATTTCTC GGTTTTGAATTGAGTAAAACCGGTCTTGATTCGTTCAATTGCGTCTGAATTGCTTGAGTCAAGC TCCTTTAGCTCCGCCGTCAACGCTTTGATCTTCGCGGCGGCGACGTTTCCGAGATCCGCTTTCG TACTGTAAAAAAAACGCGGAAATGTGAAACTTTTTTCCCAAGGTAAGTTGATCCAACGGTCAGG ATCTGTCGTACGTGTACGGATTCCAAAATGTTTGGTCATGAAGAAAACACAAACGCGCAAATCA AAAGAAAACAAAAAACTCTGATTTTTTTTTCCGATTCAACGCTTTGATTTTGGCGTTGATTATG GAGAAATTGTGGGAGGAAAAAAAAGAGGAATATGCCGACACTTTCTAATGATGGTACTATGAGT CAGAGAGAGTGTGTACCTGAGAAGATCATTGAGTCCTTTAATGGCGGCTTCGTACGATTCCGTT GCCATTTCGTCTTTTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.183259587

Conservation Information
Conserved circRNAs	NA
PMCS	0.183259587

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26536506-26535287(-)
						
						Potential amino acid sequence
						
							MATESYEAAIKGLNDLLSTKADLGNVAAAKIKALTAELKELDSSNSDAIERIKTGFTQFKTEKY
LKNSTLFNHLAKTQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQEKDEMATE
SYEAAIKGLNDLLSTKADLGNVAAAKIKALTAELKELDSSNSDAIERIKTGFTQFKTEKYLKNS
TLFNHLAKTQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQEKDEMATESYEA
AIKGLNDLLSTKADLGNVAAAKIKALTAELKELDSSNSDAIERIKTGFTQFKTEKYLKNSTLFN
HLAKTQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQEKDEMATESYEAAIKG
LNDLLSTKADLGNVAAAKIKALTAELKELDSSNSDAIERIKTGFTQFKTEKYLKNSTLFNHLAK
TQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQ(-)
						
						Sponge-miRNAs
						
							ath-miR865-3p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	26536506-26535287(-)
Potential amino acid sequence	MATESYEAAIKGLNDLLSTKADLGNVAAAKIKALTAELKELDSSNSDAIERIKTGFTQFKTEKY LKNSTLFNHLAKTQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQEKDEMATE SYEAAIKGLNDLLSTKADLGNVAAAKIKALTAELKELDSSNSDAIERIKTGFTQFKTEKYLKNS TLFNHLAKTQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQEKDEMATESYEA AIKGLNDLLSTKADLGNVAAAKIKALTAELKELDSSNSDAIERIKTGFTQFKTEKYLKNSTLFN HLAKTQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQEKDEMATESYEAAIKG LNDLLSTKADLGNVAAAKIKALTAELKELDSSNSDAIERIKTGFTQFKTEKYLKNSTLFNHLAK TQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQ(-)
Sponge-miRNAs	ath-miR865-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Chu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT1G70410_circ_g.12

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