Plant Circular RNA Database

Detail information of 2_circ_igg.17

			
						 General Information
					
						CircRNA Name
						2_circ_igg.17
					
						ID in PlantcircBase
						ath_circ_013173
					
						Alias
						AtciR116
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 4485020-4486252  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI, CIRI-full, circRNA_finder, find_circ, CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							2_circ_igg.7 2_circ_igg.8 2_circ_igg.9 2_circ_igg.10 2_circ_igg.11 2_circ_igg.12 2_circ_igg.13 2_circ_igg.14 2_circ_igg.15 2_circ_igg.16 2_circ_igg.18 2_circ_igg.19 2_circ_igg.20 2_circ_igg.21 2_circ_igg.22 2_circ_igg.23 2_circ_igg.24 2_circ_igg.25 2_circ_igg.26 2_circ_ig.27 2_circ_ig.28 2_circ_ig.29 						
					
						Support reads
						113
					
						Tissues
						root, aerial, inflorescences, whole_plant, leaf
					
						Exon boundary  
						
							No-No							"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
						NA

General Information
CircRNA Name	2_circ_igg.17
ID in PlantcircBase	ath_circ_013173
Alias	AtciR116
Organism	Arabidpsis thaliana
Position	chr2: 4485020-4486252 JBrowse»
Reference genome	TAIR10.38
Type	igg-circRNA
Identification method	CIRI, CIRI-full, circRNA_finder, find_circ, CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	2_circ_igg.7 2_circ_igg.8 2_circ_igg.9 2_circ_igg.10 2_circ_igg.11 2_circ_igg.12 2_circ_igg.13 2_circ_igg.14 2_circ_igg.15 2_circ_igg.16 2_circ_igg.18 2_circ_igg.19 2_circ_igg.20 2_circ_igg.21 2_circ_igg.22 2_circ_igg.23 2_circ_igg.24 2_circ_igg.25 2_circ_igg.26 2_circ_ig.27 2_circ_ig.28 2_circ_ig.29
Support reads	113
Tissues	root, aerial, inflorescences, whole_plant, leaf
Exon boundary	No-No "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	NA

			
						 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  
						
							GTTTGCAGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATA
AATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAGatttcatgtagtgatcaagctcttctct
ctctattctagagaaacttcatacacaaacacaactttcaactttcaggaccgttcgaagaaac
tgaaatta

									
								

					

						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: 195
Transcript exons: 4485020-4485126,4486165-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGGCAAAATTTGAAAGTTTTGA
AAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAG
CAG
Transcript length: 212
Transcript exons: 4485020-4485138,4486160-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGGGACCGGCA
AAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAA
AGATCCGGACAAAAAAGCAG
Transcript length: 212
Transcript exons: 4485020-4485143,4486165-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGGGCA
AAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAA
AGATCCGGACAAAAAAGCAG
Transcript length: 220
Transcript exons: 4485020-4485153,4486167-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA
TCACCGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATT
TGGCCCAAAGATCCGGACAAAAAAGCAG
Transcript length: 222
Transcript exons: 4485020-4485153,4486165-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA
TCACCGGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGA
TTTGGCCCAAAGATCCGGACAAAAAAGCAG
Transcript length: 228
Transcript exons: 4485020-4485153,4486159-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA
TCACCGAGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATA
AATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAG
Transcript length: 231
Transcript exons: 4485020-4485157,4486160-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA
TCACCGTTGAGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGA
ATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAG
Transcript length: 234
Transcript exons: 4485020-4485160,4486160-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA
TCACCGTTGATATGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAG
AGAATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAG
Transcript length: 450
Transcript exons: 4485020-4486252
ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA
TCACCGTTGATATGGTACTTGGTGGAATGAGAGGGATGACCGGATTACACAATCGTAACCTCAT
TGCTTGATGCAGATGAGATTGAAGGCTGAAGAACTGATGGCTTAAAGGACGAGTGAAGGCTGTT
ACCTCCGGAGACTGCTTAGTGATCACGGCTTTGAGCCACAACAGAGCTGGACCTCCACCGGAAA
AGACCATTACTTTTTCTTCTCTTATGGCACCTAAGACGGACCGGCAAAATTTGAAAGTTTTGAA
AGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAGC
AG
						
					

						Genomic sequence
						
							ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT
TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA
TCACCGTTGATATGGTATGGATTCTAATGTTTTTTGTGATTACACAAAGGCTTTATCTTTTAAA
CATACTCGTATATATAGTTTTACATGTGGTATTTGTGAAGGTACTTGGTGGAATGAGAGGGATG
ACCGGATTACACAATCGTAACCTCATTGCTTGATGCAGATGAGGTATGGTTATAAATTTGAATC
ATATAGATAATCACAAGCTTTTGTTTCAAACTGGGAGTAGATAATTAAATCATATTATTTTTTC
AAAATTTCTGTTATATAGATTGAAGGCTGAAGAACTGATGGCTTAAAGGACGAGTGAAGGCTGT
TACCTCCGGAGACTGCTTAGTGATCACGGCTTTGAGCCACAACAGAGCTGGACCTCCACCGGAA
AAGACCATTACTTTTTCTTCTCTTATGGCACCTAAGACGGTGAGTTTTAATCTGTTCTTTTACC
AGATATTAGTGTTTGAAACAAAAGCTTGTGATCATCCCAACCAAATGCTGAAGCTGAAAACTGA
AATGAAAACATGTACATGTGAATCGACTGTTTGCTTGAGAGATAATGGTATGTGTGTGGTGATG
GTAAAAGATTTCGATTGTTTATATAGCACAAAACAAATTAGGTTACGATTGTGAGTCTAGAAGT
AAATAGGCGCTGGAATTTTGAGGATATTCCATATTTTCAAATTTGATTTGATTTGTTTAAATTT
TAATTTAAAAGCTGTTATGGTAGATAATTAGGAATAGTTATTTGATTTAAATGTTATGGAATAT
TAGAAGGAAGATAAGGAATGTAGTTAGGAGGACTTATATTTGGCTTTGCTCATTTTACGGGATC
GCATATAGGAGAGTATAATTTTTGGTTTAATTCATTGCCAAAATTAGGAGGTTATATTCTTGTT
GTGATTAAGACTGATTTAGTATATATTCTTCAATCAAATCGGGTAATTGAATCTCTTTTATGTT
AACTACATTGATTATCTGAATAATCTAACCGAGATTTGTGCGCTTGTTTGCAGGACCGGCAAAA
TTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAAAGA
TCCGGACAAAAAAGCAG
						
					

			
		

Sequences
Splice junction sequence	GTTTGCAGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATA AATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAGatttcatgtagtgatcaagctcttctct ctctattctagagaaacttcatacacaaacacaactttcaactttcaggaccgttcgaagaaac tgaaatta
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: 195 Transcript exons: 4485020-4485126,4486165-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGGCAAAATTTGAAAGTTTTGA AAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAG CAG Transcript length: 212 Transcript exons: 4485020-4485138,4486160-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGGGACCGGCA AAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAA AGATCCGGACAAAAAAGCAG Transcript length: 212 Transcript exons: 4485020-4485143,4486165-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGGGCA AAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAA AGATCCGGACAAAAAAGCAG Transcript length: 220 Transcript exons: 4485020-4485153,4486167-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA TCACCGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATT TGGCCCAAAGATCCGGACAAAAAAGCAG Transcript length: 222 Transcript exons: 4485020-4485153,4486165-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA TCACCGGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGA TTTGGCCCAAAGATCCGGACAAAAAAGCAG Transcript length: 228 Transcript exons: 4485020-4485153,4486159-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA TCACCGAGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATA AATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAG Transcript length: 231 Transcript exons: 4485020-4485157,4486160-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA TCACCGTTGAGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGA ATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAG Transcript length: 234 Transcript exons: 4485020-4485160,4486160-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA TCACCGTTGATATGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAG AGAATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAG Transcript length: 450 Transcript exons: 4485020-4486252 ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA TCACCGTTGATATGGTACTTGGTGGAATGAGAGGGATGACCGGATTACACAATCGTAACCTCAT TGCTTGATGCAGATGAGATTGAAGGCTGAAGAACTGATGGCTTAAAGGACGAGTGAAGGCTGTT ACCTCCGGAGACTGCTTAGTGATCACGGCTTTGAGCCACAACAGAGCTGGACCTCCACCGGAAA AGACCATTACTTTTTCTTCTCTTATGGCACCTAAGACGGACCGGCAAAATTTGAAAGTTTTGAA AGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAGC AG
Genomic sequence	ATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACACAACT TTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGGGAACA TCACCGTTGATATGGTATGGATTCTAATGTTTTTTGTGATTACACAAAGGCTTTATCTTTTAAA CATACTCGTATATATAGTTTTACATGTGGTATTTGTGAAGGTACTTGGTGGAATGAGAGGGATG ACCGGATTACACAATCGTAACCTCATTGCTTGATGCAGATGAGGTATGGTTATAAATTTGAATC ATATAGATAATCACAAGCTTTTGTTTCAAACTGGGAGTAGATAATTAAATCATATTATTTTTTC AAAATTTCTGTTATATAGATTGAAGGCTGAAGAACTGATGGCTTAAAGGACGAGTGAAGGCTGT TACCTCCGGAGACTGCTTAGTGATCACGGCTTTGAGCCACAACAGAGCTGGACCTCCACCGGAA AAGACCATTACTTTTTCTTCTCTTATGGCACCTAAGACGGTGAGTTTTAATCTGTTCTTTTACC AGATATTAGTGTTTGAAACAAAAGCTTGTGATCATCCCAACCAAATGCTGAAGCTGAAAACTGA AATGAAAACATGTACATGTGAATCGACTGTTTGCTTGAGAGATAATGGTATGTGTGTGGTGATG GTAAAAGATTTCGATTGTTTATATAGCACAAAACAAATTAGGTTACGATTGTGAGTCTAGAAGT AAATAGGCGCTGGAATTTTGAGGATATTCCATATTTTCAAATTTGATTTGATTTGTTTAAATTT TAATTTAAAAGCTGTTATGGTAGATAATTAGGAATAGTTATTTGATTTAAATGTTATGGAATAT TAGAAGGAAGATAAGGAATGTAGTTAGGAGGACTTATATTTGGCTTTGCTCATTTTACGGGATC GCATATAGGAGAGTATAATTTTTGGTTTAATTCATTGCCAAAATTAGGAGGTTATATTCTTGTT GTGATTAAGACTGATTTAGTATATATTCTTCAATCAAATCGGGTAATTGAATCTCTTTTATGTT AACTACATTGATTATCTGAATAATCTAACCGAGATTTGTGCGCTTGTTTGCAGGACCGGCAAAA TTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAATCGATTTGGCCCAAAGA TCCGGACAAAAAAGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.697765065

Conservation Information
Conserved circRNAs	NA
PMCS	0.697765065

			
						 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
						Chu et al., 2017;Zhang et al., 2019

circRNA

Detail information of 2_circ_igg.17

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