Plant Circular RNA Database

Detail information of Zm00001d027333_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d027333_circ_g.1
					
						ID in PlantcircBase
						zma_circ_000503
					
						Alias
						circ89
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 3107010-3110246  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d027333						
					
						Parent gene annotation
						
							AP-2 complex subunit alpha-2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d027333_circ_g.2 Zm00001d027333_circ_g.3 						
					
						Support reads
						2
					
						Tissues
						seedling leaves
					
						Exon boundary  
						
							No-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-CA							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
						Zm00001d027333_T009:10
Zm00001d027333_T026:9
Zm00001d027333_T025:8
Zm00001d027333_T035:5
Zm00001d027333_T016:9
Zm00001d027333_T014:9
Zm00001d027333_T002:9
Zm00001d027333_T006:9
Zm00001d027333_T010:9
Zm00001d027333_T029:8
Zm00001d027333_T007:9
Zm00001d027333_T008:9
Zm00001d027333_T005:9
Zm00001d027333_T018:9
Zm00001d027333_T019:10
Zm00001d027333_T038:2
Zm00001d027333_T027:7
Zm00001d027333_T015:9
Zm00001d027333_T013:8
Zm00001d027333_T020:9
Zm00001d027333_T001:11
Zm00001d027333_T028:9
Zm00001d027333_T022:9
Zm00001d027333_T037:5
Zm00001d027333_T021:9
Zm00001d027333_T030:8
Zm00001d027333_T023:9
Zm00001d027333_T017:9
Zm00001d027333_T004:9
Zm00001d027333_T012:8
Zm00001d027333_T003:8
Zm00001d027333_T024:9
Zm00001d027333_T011:9
Zm00001d027333_T032:9

General Information
CircRNA Name	Zm00001d027333_circ_g.1
ID in PlantcircBase	zma_circ_000503
Alias	circ89
Organism	Zea mays
Position	chr1: 3107010-3110246 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d027333
Parent gene annotation	AP-2 complex subunit alpha-2
Parent gene strand	+
Alternative splicing	Zm00001d027333_circ_g.2 Zm00001d027333_circ_g.3
Support reads	2
Tissues	seedling leaves
Exon boundary	No-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-CA 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	Zm00001d027333_T009:10 Zm00001d027333_T026:9 Zm00001d027333_T025:8 Zm00001d027333_T035:5 Zm00001d027333_T016:9 Zm00001d027333_T014:9 Zm00001d027333_T002:9 Zm00001d027333_T006:9 Zm00001d027333_T010:9 Zm00001d027333_T029:8 Zm00001d027333_T007:9 Zm00001d027333_T008:9 Zm00001d027333_T005:9 Zm00001d027333_T018:9 Zm00001d027333_T019:10 Zm00001d027333_T038:2 Zm00001d027333_T027:7 Zm00001d027333_T015:9 Zm00001d027333_T013:8 Zm00001d027333_T020:9 Zm00001d027333_T001:11 Zm00001d027333_T028:9 Zm00001d027333_T022:9 Zm00001d027333_T037:5 Zm00001d027333_T021:9 Zm00001d027333_T030:8 Zm00001d027333_T023:9 Zm00001d027333_T017:9 Zm00001d027333_T004:9 Zm00001d027333_T012:8 Zm00001d027333_T003:8 Zm00001d027333_T024:9 Zm00001d027333_T011:9 Zm00001d027333_T032:9

			
						 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  
						
							AGGAAAACATGACTAGGATGCTGTTAGTAACAGATGTGCAGGATATCATTAAAAGGCACCAGGC
TCAGATCATCACATCTTTGAAGGATCCAGATATCAGgggcttatcaccatacgagaagaaaaaa
tatgtatggaaaatgctttacatttatatgctgggttatgatgttgattttgggcatatggaaa
ctgtctcg

									
								

					

						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
						
							GGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGT
TATGATGTTGATTTTGGGCATATGGAAACTGTCTCGTTGATATCTGCACCAAAGTATCCTGAGA
AGCAGGTATAACATTCAGTTATAATATCCTTTGCCACAGGAATTTTGCTCACATGGTATTCTTA
AATTTGATGTAGAATGATCAAGGTTTCTTAGTGGAGCTGTTTACTAAATGCCAGTTTAACGCAT
GCTGCAGGTTGGGTATATTGTGACATCTTGCTTACTGAATGAGAATAATGATTTCTTAAGAATG
GTAATAAATACAGTAAGGAATGACATAATCGGACGAAATGAGACCTTCCAGTGCTTAGCATTGA
CAATGGTACGTCATTCAGTCTTGTCCTTCTCTGTTTTATTTGTGGACTTGGTCCTATCTTCTCT
AACTAAAAAGGACAGACCTAGTGCTGGCGGCTCCCATATGAGTGGGATTTGGGGTAGGAATAAC
CGGGGCAAGCCTTACCCCTGCATTTGTAGAGAGGCTGTGTCGAACATAAGGCCTTTGGCTCAGT
GGGAAGGCTTCTCACCATTGCGCCAGGCTTGTCATTCCTTCCTTCTCTAACTATCACATAAATT
TGATTTAGAAAAGGCACTTTTGTCGTATTAAAACTATCTTGTGGTGCAATAAGTTGTTATGGAC
ATCTAATTAGTACAAACATCATAAAAGAAAATAAACAACTCAAACTTGAAAGCAATGTCTTCAA
AATTGCAGAGCATGTGTTAAGATCTTCACTAGATTTTAGGCATATTCTTGTTATTTAATGGTTT
TTTATTGCTATACCTTATATTGACTTTTATTGTTATTTTTTTTGTTGTAATAATTTTTTTTGTT
TCTACGTCTTGAGCTTCATAATAATTATTTTATGAGATATCATATTGCACACCTCCTACATCTA
CCACACTAAGGGTCTGTTTGGTTCAGCTTTCTGAAACAGATTCGCTGTCAAAAATCTGGAATCC
CAACCAAAGAGGTACCAAAGCTGGATAGATTCCTGAAAATCTACAGATTCTCTAGTTCAATCCA
GAATCTCCTTCTACCCTAGATTTTCTAGATTTCTGTCATCCAGATTTTCAAAAATATTATCCAT
TTGCTACTGTTTATAGGATCGAATCATTTTATTTTTTTATTTAAAGGTCCTCACAGCCGTCAGC
TCGCCGCAACTTTCTCACAACTAGAACCAGATTTTTAGGAATCTACAACTGAACCAAACATACC
CTGAATTTAGTCCATTTCATCTGCTCTAAGACTTGATAGTCTAGCTCTTATATTATCCCCCCTG
CAATTACACTTTTTTCCTGTCTCCTGTGTCCTGTGTCATCTTTTCTTGAAATATTTTTCAGGTA
GGTAACATTGGTGGTAAAGAATTTTCTGAGTCACTAGCCCCAGATGTCCAGAAACTTCTTGTAA
GCGAATGTTCTATTGCTTATGCCCCCCTTTCACTGTTTTCTGCATGATGAAACTGATGAAACAT
CTTATGGTTGTCAGATTTCAAGCAGTTGCCGTCCTGTTGTCAGAAAGAAGGCTGCTCTATGCCT
TCTGCGGCTTTATAGGAAGAATCCTGATGTTGTGAATATTGATGGCTGGTAGTAAAATTATAGA
ATACATTCTATTATAGTATTATACTCTACTTAATCAATAGGCTAATCGAATTCTGTATATCAGG
GCTGACCGAATGGCACAACTTCTAGATGAGCGTGATTTAGGTGTGCTGACATCTGTCACGAGTC
TTTTTGTTTCACTAGTATCCAACAATGTTGAAGCATATTGGAATTGTCTTCCTAAATGTGTGAG
AATATTGGAGAGGTTAGCAAGAAATCAAGATATTCCACAAGAGTACACTTACTATGGAATTCCA
TCTCCTTGGCTTCAGGTACGTACTTCCCTTTCATGTCATCATCCATTCATCCAGCTTGATCTAT
CAGTAAAATTAGGCTAGATATGTATTTAATTACTGGTCATTAGGCCGTTACCTTCTATTAAGCT
TAACCAATAATTTCAGTTAGTCTGTGTTTTGAGGTATGTAAACAGCAACACAAGCAATTAGTCA
TGTACTCGTGTGTATACTGATGACTGTACACGTTAGTTATGTCTATAGTTTAACGGTTGCTATG
TAAACCTTCCATAAGAGTTACTCTAAGCTATTTAGGCAAGTTGTGATGCAGGGCTAGTTTTTTG
AAGTTTACCACAAGCCTGAACCCATCCTACACATTCTGCACTGTGAATAATAAGTAAGCAACCA
TATGAATTAATTACTGAAACTAAACATGTGGAGTTGCTATTGTGAGAATGCTTCTTTTTATCGT
CAGGGAGATCGAATATTTTTCCTGCAGGGGGTAGACTTAGGTAGTGCATTGGCCATGGCAGAGG
CGCAGATCGTTTGATATTAAAGTCTTCCTTCACAGATTTGAATAATTTTACATCTTTGGTTCTA
TGTTGGTGTGTTGAAGGAAAACATACATGCACATTGGATGGAAATGGTCCATGTTTTCAACTAA
GAATAACATTTTATTTTCACATCACAGGTTAAGACAATGAGAGCTCTTCAGTACTTCCCTACCA
TTGAAGATCCCAACGCAAGACGAGCTTTGTTTGAGGTACTACCTTTTTTTACTTCTCTACTGAA
CCTGTACTAAAATGTGTGGATTATAATGATATTATTGTCATCCTTCAGGTTTTACAGCGCATTT
TGATGGGTACTGATGTTGTTAAAAACGTTAACAAGAACAATGCCTCACATGCTGTTCTCTTTGA
AGCTCTTGCTCTGGTGAGTTTGTACTTATGTTTCGCAAAATTACAGTTTGGTATATTGTCTTTT
TAATTAAGTCTTTGCACGTATAATGCTTCATATAGGTCATGCATCTGGATGCTGAAAAGGAGAT
GATGTCACAGTGTGTGGCTCTTCTTGGGAAGTTTATTGCAGTCCGGGAGCCAAACATTCGGTAC
CTTGGTCTGGTAATTGCATTTCTTATTAATGTTTACTTGATTAACACCTTTTGCTGGCAGTCTT
GCTTTCACATCAAGTTGTGCAAGTGTACAATTTATCATATTGAAACAGTAATCGATCCATCTTT
CAGGAAAACATGACTAGGATGCTGTTAGTAACAGATGTGCAGGATATCATTAAAAGGCACCAGG
CTCAGATCATCACATCTTTGAAGGATCCAGATATCAG
						
					

			
		

Sequences
Splice junction sequence	AGGAAAACATGACTAGGATGCTGTTAGTAACAGATGTGCAGGATATCATTAAAAGGCACCAGGC TCAGATCATCACATCTTTGAAGGATCCAGATATCAGgggcttatcaccatacgagaagaaaaaa tatgtatggaaaatgctttacatttatatgctgggttatgatgttgattttgggcatatggaaa ctgtctcg
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	GGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGT TATGATGTTGATTTTGGGCATATGGAAACTGTCTCGTTGATATCTGCACCAAAGTATCCTGAGA AGCAGGTATAACATTCAGTTATAATATCCTTTGCCACAGGAATTTTGCTCACATGGTATTCTTA AATTTGATGTAGAATGATCAAGGTTTCTTAGTGGAGCTGTTTACTAAATGCCAGTTTAACGCAT GCTGCAGGTTGGGTATATTGTGACATCTTGCTTACTGAATGAGAATAATGATTTCTTAAGAATG GTAATAAATACAGTAAGGAATGACATAATCGGACGAAATGAGACCTTCCAGTGCTTAGCATTGA CAATGGTACGTCATTCAGTCTTGTCCTTCTCTGTTTTATTTGTGGACTTGGTCCTATCTTCTCT AACTAAAAAGGACAGACCTAGTGCTGGCGGCTCCCATATGAGTGGGATTTGGGGTAGGAATAAC CGGGGCAAGCCTTACCCCTGCATTTGTAGAGAGGCTGTGTCGAACATAAGGCCTTTGGCTCAGT GGGAAGGCTTCTCACCATTGCGCCAGGCTTGTCATTCCTTCCTTCTCTAACTATCACATAAATT TGATTTAGAAAAGGCACTTTTGTCGTATTAAAACTATCTTGTGGTGCAATAAGTTGTTATGGAC ATCTAATTAGTACAAACATCATAAAAGAAAATAAACAACTCAAACTTGAAAGCAATGTCTTCAA AATTGCAGAGCATGTGTTAAGATCTTCACTAGATTTTAGGCATATTCTTGTTATTTAATGGTTT TTTATTGCTATACCTTATATTGACTTTTATTGTTATTTTTTTTGTTGTAATAATTTTTTTTGTT TCTACGTCTTGAGCTTCATAATAATTATTTTATGAGATATCATATTGCACACCTCCTACATCTA CCACACTAAGGGTCTGTTTGGTTCAGCTTTCTGAAACAGATTCGCTGTCAAAAATCTGGAATCC CAACCAAAGAGGTACCAAAGCTGGATAGATTCCTGAAAATCTACAGATTCTCTAGTTCAATCCA GAATCTCCTTCTACCCTAGATTTTCTAGATTTCTGTCATCCAGATTTTCAAAAATATTATCCAT TTGCTACTGTTTATAGGATCGAATCATTTTATTTTTTTATTTAAAGGTCCTCACAGCCGTCAGC TCGCCGCAACTTTCTCACAACTAGAACCAGATTTTTAGGAATCTACAACTGAACCAAACATACC CTGAATTTAGTCCATTTCATCTGCTCTAAGACTTGATAGTCTAGCTCTTATATTATCCCCCCTG CAATTACACTTTTTTCCTGTCTCCTGTGTCCTGTGTCATCTTTTCTTGAAATATTTTTCAGGTA GGTAACATTGGTGGTAAAGAATTTTCTGAGTCACTAGCCCCAGATGTCCAGAAACTTCTTGTAA GCGAATGTTCTATTGCTTATGCCCCCCTTTCACTGTTTTCTGCATGATGAAACTGATGAAACAT CTTATGGTTGTCAGATTTCAAGCAGTTGCCGTCCTGTTGTCAGAAAGAAGGCTGCTCTATGCCT TCTGCGGCTTTATAGGAAGAATCCTGATGTTGTGAATATTGATGGCTGGTAGTAAAATTATAGA ATACATTCTATTATAGTATTATACTCTACTTAATCAATAGGCTAATCGAATTCTGTATATCAGG GCTGACCGAATGGCACAACTTCTAGATGAGCGTGATTTAGGTGTGCTGACATCTGTCACGAGTC TTTTTGTTTCACTAGTATCCAACAATGTTGAAGCATATTGGAATTGTCTTCCTAAATGTGTGAG AATATTGGAGAGGTTAGCAAGAAATCAAGATATTCCACAAGAGTACACTTACTATGGAATTCCA TCTCCTTGGCTTCAGGTACGTACTTCCCTTTCATGTCATCATCCATTCATCCAGCTTGATCTAT CAGTAAAATTAGGCTAGATATGTATTTAATTACTGGTCATTAGGCCGTTACCTTCTATTAAGCT TAACCAATAATTTCAGTTAGTCTGTGTTTTGAGGTATGTAAACAGCAACACAAGCAATTAGTCA TGTACTCGTGTGTATACTGATGACTGTACACGTTAGTTATGTCTATAGTTTAACGGTTGCTATG TAAACCTTCCATAAGAGTTACTCTAAGCTATTTAGGCAAGTTGTGATGCAGGGCTAGTTTTTTG AAGTTTACCACAAGCCTGAACCCATCCTACACATTCTGCACTGTGAATAATAAGTAAGCAACCA TATGAATTAATTACTGAAACTAAACATGTGGAGTTGCTATTGTGAGAATGCTTCTTTTTATCGT CAGGGAGATCGAATATTTTTCCTGCAGGGGGTAGACTTAGGTAGTGCATTGGCCATGGCAGAGG CGCAGATCGTTTGATATTAAAGTCTTCCTTCACAGATTTGAATAATTTTACATCTTTGGTTCTA TGTTGGTGTGTTGAAGGAAAACATACATGCACATTGGATGGAAATGGTCCATGTTTTCAACTAA GAATAACATTTTATTTTCACATCACAGGTTAAGACAATGAGAGCTCTTCAGTACTTCCCTACCA TTGAAGATCCCAACGCAAGACGAGCTTTGTTTGAGGTACTACCTTTTTTTACTTCTCTACTGAA CCTGTACTAAAATGTGTGGATTATAATGATATTATTGTCATCCTTCAGGTTTTACAGCGCATTT TGATGGGTACTGATGTTGTTAAAAACGTTAACAAGAACAATGCCTCACATGCTGTTCTCTTTGA AGCTCTTGCTCTGGTGAGTTTGTACTTATGTTTCGCAAAATTACAGTTTGGTATATTGTCTTTT TAATTAAGTCTTTGCACGTATAATGCTTCATATAGGTCATGCATCTGGATGCTGAAAAGGAGAT GATGTCACAGTGTGTGGCTCTTCTTGGGAAGTTTATTGCAGTCCGGGAGCCAAACATTCGGTAC CTTGGTCTGGTAATTGCATTTCTTATTAATGTTTACTTGATTAACACCTTTTGCTGGCAGTCTT GCTTTCACATCAAGTTGTGCAAGTGTACAATTTATCATATTGAAACAGTAATCGATCCATCTTT CAGGAAAACATGACTAGGATGCTGTTAGTAACAGATGTGCAGGATATCATTAAAAGGCACCAGG CTCAGATCATCACATCTTTGAAGGATCCAGATATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.024219231

Conservation Information
Conserved circRNAs	NA
PMCS	0.024219231

			
						 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
						Chen et al., 2017b

circRNA

Detail information of Zm00001d027333_circ_g.1

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