Plant Circular RNA Database

Detail information of Zm00001d041179_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d041179_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007611
					
						Alias
						zma_circ_0001126
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 102871544-102875347  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ie-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d041179						
					
						Parent gene annotation
						
							Outer envelope pore protein 37 chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						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
						Zm00001d041179_T002:1
Zm00001d041179_T003:1

General Information
CircRNA Name	Zm00001d041179_circ_g.1
ID in PlantcircBase	zma_circ_007611
Alias	zma_circ_0001126
Organism	Zea mays
Position	chr3: 102871544-102875347 JBrowse»
Reference genome	AGPv4.38
Type	ie-circRNA
Identification method	find_circ
Parent gene	Zm00001d041179
Parent gene annotation	Outer envelope pore protein 37 chloroplastic
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, root
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	Zm00001d041179_T002:1 Zm00001d041179_T003:1

			
						 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  
						
							TGATACCACTGTAACGCCTCCCCGTGCCCACGGCGTCGCCATCGCGACGTGAGGTTAACTCCGG
CGAGGAGAGTTGCCACGAACAACCTGAAGGACTCAGgtacgcacgcgaggtacggatattttga
tttctgttatttcttagctgtttacaaagtaacaaatctagcctttataggcactctactgggc
cagcccaa

									
								

					

						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
						
							GTACGCACGCGAGGTACGGATATTTTGATTTCTGTTATTTCTTAGCTGTTTACAAAGTAACAAA
TCTAGCCTTTATAGGCACTCTACTGGGCCAGCCCAAGCTACAGGGCCCACACGCCCTAATGCCA
TTACATTCAAACACACACTCTACCGCTAGCTACTTGCTTCAGGGTTCTCCCGCTGCATCACTGA
TTCAGGCCATGAAATCTGCCCCTTCGCCAGAACTTGCTTGCCCCCAAGCAAGTGCAGTAAGAAA
ATGACTCTTCACAACATTGAAGTCCGCCAGGTAGAAAACTCAAGTGCCATACCCGACCATGGAT
CAAAACTCGCTTTAGAGTAACCCCTGACCTCTGTGCAACGCTGATGAGCTCTGGACAGCTGTTC
CTGCAACATTGTGCTGTAGACAGTCCTCTGCTGCTCCCAATCAGTTGACACTAGAACCTCATTG
CCTTTAAAATTTGGAGCAGCCAAACATACTTTGGCAAGAGACAACCAAATATTCCACTCGTGAG
AATTATCATTGACATCACACCTAAGATACATTTCCAAATATTGGTTAATCCTCCCACTTTGGCC
AACCGTTTGTGAATGATATGCCATGTTCAAAGACAATTTGCCATCCATCAATGTGAAAAGGTGC
TTCCAAAATAAGCTAGTATCATAGCCTTTCGACTTAGGTAGCTTTTCCACAAAATCTATTGTAA
TGTCCTCCAAAATGCCCTCTGGTACTTAAAGAGGCTGTAGGAGTCCAGAGGGAAAGGACTGCTA
TCCTTTAGCCTGCTGACTAGTTGCACAATGCCTAAATAATTGCTCCACATCAGAATTCATACCC
TTCCACCAAAACACCCTCTTCACTATATGGTAAGATTAGGGATGGCAATGGGTATATACCCGTC
GGATAGTAGCATTCCATACCCATACCGATCACAAAAAATTATACCCGTCGAGTTACCCATATAC
GCTCGCGAGTATAAAATCTTACCCATACCCGTACCCGCGCGGGTAATTTTACCCGTCGGGTAAC
CCGTACCCGCTAAGATCTCAAATTATAATACTCCGATCACTCAAAATGTCAAATAAATACACAA
AAATAATTTCAACTTGAAGTATAAAAAACCATATGATTACATAATTCGATAGTTTAATAAACAA
TAGCCGAAAAAAGGTTTTATTTTAACTAAGATTGACTTTATTAGATAATAATAGTGGTATTATA
TGGGTATATTTATGCAGGTATGGGTAGTACCCACCCATACCCATCTACCTAACGGGTAGAGGTT
GTTGCCCATTAACATACCCGCAGATATAGAAATCATTCCATACCTACCTACATACCGGGTACCC
ATTGCCATCTCAAGGTAAGATGCAACCCCTCTAGAATGCCCCCAAACAGTTGAATCATGAAAGG
TTGAAATCAACACAGTGCTGAGTGCTGAAATTCTGCCCACCCAAAGCTGATGGAGTCTTCTAAT
ATTGCCCTGCTGTACTGAGAACACAACTCCATGTGGACTGTGAATGGTCACTCTTGGCAACAGA
TTCTGAGCATAAGAGTCAGTCATCGAAGAGTTGGGTACCTCTTGTATCCAAACTGGTTGGAAAC
GAATGCCACAATACAGAGCCATAAACGGACCCACTCGTGACAATGCATCAGCCAATATATTCTC
CTTGCCTTTCTCATACACCATTATGAATTGTAAGCCCATTAACTTGTTCATGGCTTTTCTTTGG
ATATCAGGTTGTAACTGAACTTCCATATCATTGTTTCCTAGACTAGCAGCATTGAGCCACCATT
GTGTTAGTTCAAGTATCACCTCTCGAACACTGCCCTTGTTCTGCATCCCATCAAAGAGCAACCC
AAACTTGCATTCACATCTCATCTTCTGTCCAGTACATACTTCATATAGGATAATGCTGAAACTA
TCTTCACCCTGTTGGTTAAGACTTTGTGGGGATAAGCATCATGCCACGCACTCAGCAGTTGACA
AGACAATACCAAAATCAGCCCCATGTTCTTTCAGCAGCAAGTTACTGTTGACCTGCAAGAACAT
CGCAGTGCATAATCTGGCACTATCTACCAAACTGAGATCTAGTAAGCCATGATCACAGCCGAAT
ATTATATCCACCATGCCACCAAGTTCCAGAAGAGAGCTATTCACATTTGTTGGCATATTTTTGC
TAACCAAATCCACATTAGAATTTCCCTTCATAGCTTCAATAAATGGAGGATAATTGTTGAGTGT
AGCCTCACCTTCAGCATAATCCATAGCATCCATTACAGATTGAACATCTGGAACAACTTCAGAG
GCTACCACCTTCCCTCTGTGTGGTCCAGCCATAATAACTGCATGCACTTCAGATAGTTCCACGA
TCCAAATGCTAGTCCCATTGGATTGTTTGTTGTAGCCAACAAGTCTGGTCCTCCTAGGAAGTAA
CCTACTTGGTCTGACAGCAGAACCTTTGCTTCTAGGGAGCAGCAATGGCTGGAAAGGTGGAAAG
GAGTAGGAATCCGCTAATGCCACAACCTTCTTCTCTGACTCGAACAGCACAACTTCAACACAGT
GCATGTTGTATCTTCCCTCAGGAGTTCTTCCAGTAGTTCTTACTTCTTACAGTTACTATAACAA
CTGCAATTTCAGCAGTATATAATGGATCTAAAGGGTGGCACCTCTGGGCTTGTGTCATGACCGG
TATCACTTCTCCTTGATTGAAACCAATTAGACATCCCATTCCCACAACTGTGTGCTGAAGTAAG
CCTCTATGTCAGATGAAAACTCCTCATCCCACTGAACTTCACCATCTGTCAACTCAACCTGCAG
CACCTCATCCTCAGCCCCTTCTTTAGATTCAGCGAGGTAATCTTCCACATCTTCTTCACTGGTT
TCATCCGCCTGTGGCATCTCCCTATCAGCCCCATCTTTGCCTCCAGTGAGTATGAATTCATCTT
CCTCAATGATCTTGACATCTGAGACAACAGCATCATGGTTTTGGAACAAATCTTCAGACCCATC
GGTATTGGCAGGCATCTCGAAACAGCCCTGATTGAGCCCATACTGCAACTGCTTGTCCACAATG
ATGGTATGTACAGTTGGTTTCATCGCGGCAACAACTAAGTAATCCTCATCTTGTGCTAGCTGAT
CCAACAAGTCACGCTGCCCAGATTCCTCATCCCAAATCACATTCTCCAATGGCATTTCATCGAA
CACTGAGGAATCAGAACCTTCAGAGAACAGGGCAATCACCTCCTCGCTGCCATTGTGAGGCGTT
TCATCAAACACAGGAAGAACCATACCTCCATCAACCTGTGCATCAAGTCCACAACGACACCCTC
GTTCTCCAGATCGTGGATCCCCCCAACCCCGTTCCTCAGGCTCCACCTCCATGTCCATGGCCAT
GGCTGCCAACCTCAACCGCGACACCTCCAGTTCTGTCTCCATCCTTGGACAAGCCAACAGAGTC
AAACGATCCAACCGATTCATCACCTGGTTCCATCTCACCTCGTTCTCCTTCCTCCATTCCACCA
TCGCCTCTAGCAGGAGCCGCGACTGAACCGAAGGTGTGGTAGTGGGCACCGTAGCGATAAAGCC
GGAGCCGCTCCTCCACCCAGGGATGTATGCAACCTCTGCAGCACACGACTCCAACCTCTGCGCC
CTCGCCGAGAATTGCCGGGACCAAACACGACCCACGCCAAGGAAGGGAAGAGGCTTTGATACCA
CTGTAACGCCTCCCCGTGCCCACGGCGTCGCCATCGCGACGTGAGGTTAACTCCGGCGAGGAGA
GTTGCCACGAACAACCTGAAGGACTCAG
						
					

			
		

Sequences
Splice junction sequence	TGATACCACTGTAACGCCTCCCCGTGCCCACGGCGTCGCCATCGCGACGTGAGGTTAACTCCGG CGAGGAGAGTTGCCACGAACAACCTGAAGGACTCAGgtacgcacgcgaggtacggatattttga tttctgttatttcttagctgtttacaaagtaacaaatctagcctttataggcactctactgggc cagcccaa
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	GTACGCACGCGAGGTACGGATATTTTGATTTCTGTTATTTCTTAGCTGTTTACAAAGTAACAAA TCTAGCCTTTATAGGCACTCTACTGGGCCAGCCCAAGCTACAGGGCCCACACGCCCTAATGCCA TTACATTCAAACACACACTCTACCGCTAGCTACTTGCTTCAGGGTTCTCCCGCTGCATCACTGA TTCAGGCCATGAAATCTGCCCCTTCGCCAGAACTTGCTTGCCCCCAAGCAAGTGCAGTAAGAAA ATGACTCTTCACAACATTGAAGTCCGCCAGGTAGAAAACTCAAGTGCCATACCCGACCATGGAT CAAAACTCGCTTTAGAGTAACCCCTGACCTCTGTGCAACGCTGATGAGCTCTGGACAGCTGTTC CTGCAACATTGTGCTGTAGACAGTCCTCTGCTGCTCCCAATCAGTTGACACTAGAACCTCATTG CCTTTAAAATTTGGAGCAGCCAAACATACTTTGGCAAGAGACAACCAAATATTCCACTCGTGAG AATTATCATTGACATCACACCTAAGATACATTTCCAAATATTGGTTAATCCTCCCACTTTGGCC AACCGTTTGTGAATGATATGCCATGTTCAAAGACAATTTGCCATCCATCAATGTGAAAAGGTGC TTCCAAAATAAGCTAGTATCATAGCCTTTCGACTTAGGTAGCTTTTCCACAAAATCTATTGTAA TGTCCTCCAAAATGCCCTCTGGTACTTAAAGAGGCTGTAGGAGTCCAGAGGGAAAGGACTGCTA TCCTTTAGCCTGCTGACTAGTTGCACAATGCCTAAATAATTGCTCCACATCAGAATTCATACCC TTCCACCAAAACACCCTCTTCACTATATGGTAAGATTAGGGATGGCAATGGGTATATACCCGTC GGATAGTAGCATTCCATACCCATACCGATCACAAAAAATTATACCCGTCGAGTTACCCATATAC GCTCGCGAGTATAAAATCTTACCCATACCCGTACCCGCGCGGGTAATTTTACCCGTCGGGTAAC CCGTACCCGCTAAGATCTCAAATTATAATACTCCGATCACTCAAAATGTCAAATAAATACACAA AAATAATTTCAACTTGAAGTATAAAAAACCATATGATTACATAATTCGATAGTTTAATAAACAA TAGCCGAAAAAAGGTTTTATTTTAACTAAGATTGACTTTATTAGATAATAATAGTGGTATTATA TGGGTATATTTATGCAGGTATGGGTAGTACCCACCCATACCCATCTACCTAACGGGTAGAGGTT GTTGCCCATTAACATACCCGCAGATATAGAAATCATTCCATACCTACCTACATACCGGGTACCC ATTGCCATCTCAAGGTAAGATGCAACCCCTCTAGAATGCCCCCAAACAGTTGAATCATGAAAGG TTGAAATCAACACAGTGCTGAGTGCTGAAATTCTGCCCACCCAAAGCTGATGGAGTCTTCTAAT ATTGCCCTGCTGTACTGAGAACACAACTCCATGTGGACTGTGAATGGTCACTCTTGGCAACAGA TTCTGAGCATAAGAGTCAGTCATCGAAGAGTTGGGTACCTCTTGTATCCAAACTGGTTGGAAAC GAATGCCACAATACAGAGCCATAAACGGACCCACTCGTGACAATGCATCAGCCAATATATTCTC CTTGCCTTTCTCATACACCATTATGAATTGTAAGCCCATTAACTTGTTCATGGCTTTTCTTTGG ATATCAGGTTGTAACTGAACTTCCATATCATTGTTTCCTAGACTAGCAGCATTGAGCCACCATT GTGTTAGTTCAAGTATCACCTCTCGAACACTGCCCTTGTTCTGCATCCCATCAAAGAGCAACCC AAACTTGCATTCACATCTCATCTTCTGTCCAGTACATACTTCATATAGGATAATGCTGAAACTA TCTTCACCCTGTTGGTTAAGACTTTGTGGGGATAAGCATCATGCCACGCACTCAGCAGTTGACA AGACAATACCAAAATCAGCCCCATGTTCTTTCAGCAGCAAGTTACTGTTGACCTGCAAGAACAT CGCAGTGCATAATCTGGCACTATCTACCAAACTGAGATCTAGTAAGCCATGATCACAGCCGAAT ATTATATCCACCATGCCACCAAGTTCCAGAAGAGAGCTATTCACATTTGTTGGCATATTTTTGC TAACCAAATCCACATTAGAATTTCCCTTCATAGCTTCAATAAATGGAGGATAATTGTTGAGTGT AGCCTCACCTTCAGCATAATCCATAGCATCCATTACAGATTGAACATCTGGAACAACTTCAGAG GCTACCACCTTCCCTCTGTGTGGTCCAGCCATAATAACTGCATGCACTTCAGATAGTTCCACGA TCCAAATGCTAGTCCCATTGGATTGTTTGTTGTAGCCAACAAGTCTGGTCCTCCTAGGAAGTAA CCTACTTGGTCTGACAGCAGAACCTTTGCTTCTAGGGAGCAGCAATGGCTGGAAAGGTGGAAAG GAGTAGGAATCCGCTAATGCCACAACCTTCTTCTCTGACTCGAACAGCACAACTTCAACACAGT GCATGTTGTATCTTCCCTCAGGAGTTCTTCCAGTAGTTCTTACTTCTTACAGTTACTATAACAA CTGCAATTTCAGCAGTATATAATGGATCTAAAGGGTGGCACCTCTGGGCTTGTGTCATGACCGG TATCACTTCTCCTTGATTGAAACCAATTAGACATCCCATTCCCACAACTGTGTGCTGAAGTAAG CCTCTATGTCAGATGAAAACTCCTCATCCCACTGAACTTCACCATCTGTCAACTCAACCTGCAG CACCTCATCCTCAGCCCCTTCTTTAGATTCAGCGAGGTAATCTTCCACATCTTCTTCACTGGTT TCATCCGCCTGTGGCATCTCCCTATCAGCCCCATCTTTGCCTCCAGTGAGTATGAATTCATCTT CCTCAATGATCTTGACATCTGAGACAACAGCATCATGGTTTTGGAACAAATCTTCAGACCCATC GGTATTGGCAGGCATCTCGAAACAGCCCTGATTGAGCCCATACTGCAACTGCTTGTCCACAATG ATGGTATGTACAGTTGGTTTCATCGCGGCAACAACTAAGTAATCCTCATCTTGTGCTAGCTGAT CCAACAAGTCACGCTGCCCAGATTCCTCATCCCAAATCACATTCTCCAATGGCATTTCATCGAA CACTGAGGAATCAGAACCTTCAGAGAACAGGGCAATCACCTCCTCGCTGCCATTGTGAGGCGTT TCATCAAACACAGGAAGAACCATACCTCCATCAACCTGTGCATCAAGTCCACAACGACACCCTC GTTCTCCAGATCGTGGATCCCCCCAACCCCGTTCCTCAGGCTCCACCTCCATGTCCATGGCCAT GGCTGCCAACCTCAACCGCGACACCTCCAGTTCTGTCTCCATCCTTGGACAAGCCAACAGAGTC AAACGATCCAACCGATTCATCACCTGGTTCCATCTCACCTCGTTCTCCTTCCTCCATTCCACCA TCGCCTCTAGCAGGAGCCGCGACTGAACCGAAGGTGTGGTAGTGGGCACCGTAGCGATAAAGCC GGAGCCGCTCCTCCACCCAGGGATGTATGCAACCTCTGCAGCACACGACTCCAACCTCTGCGCC CTCGCCGAGAATTGCCGGGACCAAACACGACCCACGCCAAGGAAGGGAAGAGGCTTTGATACCA CTGTAACGCCTCCCCGTGCCCACGGCGTCGCCATCGCGACGTGAGGTTAACTCCGGCGAGGAGA GTTGCCACGAACAACCTGAAGGACTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.297492192

Conservation Information
Conserved circRNAs	NA
PMCS	0.297492192

			
						 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
						Ma et al., 2021b

circRNA

Detail information of Zm00001d041179_circ_g.1

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