Plant Circular RNA Database

Detail information of Zm00001d012525_circ_g.3

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d012525_circ_g.3
					

						ID in PlantcircBase
						zma_circ_002871
					

						Alias
						circ2800
					

						Organism
						
							Zea mays						
					

						Position
						
							chr8: 176074225-176076222  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRCexplor2
					

						Parent gene
						
							Zm00001d012525						
					

						Parent gene annotation
						
							Protein MOR1
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d012525_circ_g.1 Zm00001d012525_circ_g.2 						
					

						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
						Zm00001d012525_T029:6
Zm00001d012525_T015:8
Zm00001d012525_T033:8
Zm00001d012525_T035:8
Zm00001d012525_T041:8
Zm00001d012525_T043:8
Zm00001d012525_T054:8
Zm00001d012525_T047:8
Zm00001d012525_T037:8
Zm00001d012525_T079:1
Zm00001d012525_T031:8
Zm00001d012525_T057:8
Zm00001d012525_T045:8
Zm00001d012525_T048:8
Zm00001d012525_T052:8
Zm00001d012525_T070:8
Zm00001d012525_T018:8
Zm00001d012525_T074:4
Zm00001d012525_T049:8
Zm00001d012525_T039:8
Zm00001d012525_T061:8
Zm00001d012525_T064:8
Zm00001d012525_T025:7
Zm00001d012525_T044:8
Zm00001d012525_T021:8
Zm00001d012525_T005:8
Zm00001d012525_T003:8
Zm00001d012525_T012:8
Zm00001d012525_T028:8
Zm00001d012525_T014:8
Zm00001d012525_T051:8
Zm00001d012525_T001:8
Zm00001d012525_T032:8
Zm00001d012525_T066:8
Zm00001d012525_T072:4
Zm00001d012525_T024:8
Zm00001d012525_T030:8
Zm00001d012525_T010:8
Zm00001d012525_T056:8
Zm00001d012525_T059:8
Zm00001d012525_T040:8
Zm00001d012525_T068:8
Zm00001d012525_T060:8
Zm00001d012525_T067:8
Zm00001d012525_T071:6
Zm00001d012525_T038:8
Zm00001d012525_T020:8
Zm00001d012525_T026:8
Zm00001d012525_T076:2
Zm00001d012525_T019:8
Zm00001d012525_T022:8
Zm00001d012525_T004:8
Zm00001d012525_T017:7
Zm00001d012525_T002:8
Zm00001d012525_T008:8

					

			
		

General Information
CircRNA Name	Zm00001d012525_circ_g.3
ID in PlantcircBase	zma_circ_002871
Alias	circ2800
Organism	Zea mays
Position	chr8: 176074225-176076222 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRCexplor2
Parent gene	Zm00001d012525
Parent gene annotation	Protein MOR1
Parent gene strand	+
Alternative splicing	Zm00001d012525_circ_g.1 Zm00001d012525_circ_g.2
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	Zm00001d012525_T029:6 Zm00001d012525_T015:8 Zm00001d012525_T033:8 Zm00001d012525_T035:8 Zm00001d012525_T041:8 Zm00001d012525_T043:8 Zm00001d012525_T054:8 Zm00001d012525_T047:8 Zm00001d012525_T037:8 Zm00001d012525_T079:1 Zm00001d012525_T031:8 Zm00001d012525_T057:8 Zm00001d012525_T045:8 Zm00001d012525_T048:8 Zm00001d012525_T052:8 Zm00001d012525_T070:8 Zm00001d012525_T018:8 Zm00001d012525_T074:4 Zm00001d012525_T049:8 Zm00001d012525_T039:8 Zm00001d012525_T061:8 Zm00001d012525_T064:8 Zm00001d012525_T025:7 Zm00001d012525_T044:8 Zm00001d012525_T021:8 Zm00001d012525_T005:8 Zm00001d012525_T003:8 Zm00001d012525_T012:8 Zm00001d012525_T028:8 Zm00001d012525_T014:8 Zm00001d012525_T051:8 Zm00001d012525_T001:8 Zm00001d012525_T032:8 Zm00001d012525_T066:8 Zm00001d012525_T072:4 Zm00001d012525_T024:8 Zm00001d012525_T030:8 Zm00001d012525_T010:8 Zm00001d012525_T056:8 Zm00001d012525_T059:8 Zm00001d012525_T040:8 Zm00001d012525_T068:8 Zm00001d012525_T060:8 Zm00001d012525_T067:8 Zm00001d012525_T071:6 Zm00001d012525_T038:8 Zm00001d012525_T020:8 Zm00001d012525_T026:8 Zm00001d012525_T076:2 Zm00001d012525_T019:8 Zm00001d012525_T022:8 Zm00001d012525_T004:8 Zm00001d012525_T017:7 Zm00001d012525_T002:8 Zm00001d012525_T008:8

			
						 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  
						
							TACCAAGAAATCTGGACCGTCCAAATCCACTGCAGCAAAAAAGACAGATGGTGGGTCACAGTCT
AAGGCATCAGCTGCTCTTGAGATTGAAGACGTTGAGgctcatcacagatgttaatttggctgtt
tcggtggaagctactcaggcaattgggaatttagctagaggtttaagagcccaattttctggaa
atgcacga

									
								

					

						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
						
							GCTCATCACAGATGTTAATTTGGCTGTTTCGGTGGAAGCTACTCAGGCAATTGGGAATTTAGCT
AGAGGTTTAAGAGCCCAATTTTCTGGAAATGCACGAATGCTCCTTCCGGTTTTACTTGTAAGAA
GAACAACCTTTTTTCCTGAATAACTGAATTTTGCTATTAGATCCTACTGTTACTTTATTGTGTG
GACTTTGATGCCCATTGAAACTGGCATTTCCATTTGTCCTGATTCTTTTCAACAGGAAAAATTG
AAAGAAAAAAAGCCAACAATGACAGAAGCACTATCTCAAACACTTCAAGCGATGCACAAGTCTG
GTTGTTTTACACTTATTGATGTGATTGAAGGTTTGTAATTTTCTAGCAATCTTTATTGCACATG
TTTGTTTGTAGCTTTATTTTCATTGTTGTTTTTTTGGTTTGGAACATATTTTGATTTCCTCCAA
AGCATGTTATTGCGTAACCATATTCCTTTCACTAAAATGCACTCTAGATCCCTATTAAATTTGG
TATAGTTTGTTCCCTAAACCAGAAAATTACACATTTAAGTTCCCAAAACTTTTTCAAGTAAAGA
TTAAATCTGAATTTGTTTGAAATATTCGATAACTGAAAACTTTTAGATGCTGACCTTAGTGAAT
TTAAGGGAAAACTACCAAGGGTTGTCCAGGAAAAAAGTATTTGCATTTTTTTATGAATCTCAAG
ACATGAACCTTTCAGCTTTGATCAATCTCTGAACAAGAAAATGCTGTCTTTTGATAATGCAGAT
GTTCGTGCGGCAGTAAAAAACAAGGTGCCCCTTGTTCGTTCTTTAACGCTGACCTGGGTTGCAT
TTTGCATTGAAACCAGCAATAAAGCAACTGTACTAAAGTTGCACAAGGAATATGTTCCTATCTG
CATGGAGGTGAATAACCACTTTATACTTCTAGCTATGTCTGTTTTTATTTTTCTGTTTTGTATT
TGTGCTGATCAGTTTTTCAATATGTAGTGCTTGAATGATGGTACTCCAGAAGTACGAGATGCAT
CCTTTTCTGTTTTGACTGCCATTGCCAAGGTTTCTTCTTGAGAACTTGCTTTTCTCGTCACTTC
ATTACGTTACATGTATCAGAATGTGGCTTTAAAGCCCGGATTTTTTTGCTACTCTTGCTCTCTA
TAGATGGTTGGTATGAAACCATTGGAACGATCCTTGGAGAAATTAGATGATGTGAGGAAAAAGA
AGTTATCAGATATGATTGGTTCTTCCAGTGACAGTGTTTTGAGTTCAGGAACAGGTTAGTTTTG
CTTTTGTAGTTTTACTTGTATTCAAATGGATCAAATATCTCTGTTTTGGACTAATTTATGTACA
AACTACACTTCTCCAGCTCCAATCACAACATCAGGAGCAGCCACATCTGCTCGCGGGGTATGTT
TATTGATATTCTTATTTCAATATTATACGAAGATGTTTGCAACCTGTCAGCCTTCCTCTCCCAA
GTGCCTATTTACAGTTCTTGTGCTGTGTTGGGGAATTCTTGTTAGAAAATTTACCATTTGTGAT
TGGATTTTGTTAGTTATGGTTTAAAAAAACTTCCGTATTGTCACAGTAAAAAACTAGAAAAGGG
GCAGTTGTTTCAAAAGCTCAATGATCACTAGTTATCAACTTTGTTTGTCAGGGCAATGTTTATT
TGTGACCAGTTCTGTTGATCAAATGTTTGACAACCCATGTAAGATTATTCTGTATCTTGCAGGT
TGCAGATAGCATGTCAATGAAGAGATCTGCTGCAAGCATGCTTAGTGGAAAGAAGCCTGTCCAG
GCAGCGGTTAGTTTTGTTGGATGCATATTTGATGTGTAAGTTTCTAGTATTTGAATTTGTGCAC
CATGTTCTTATGCGGGTATTGGTTTCCTTGTTTCCAGGCTGCTACCAAGAAATCTGGACCGTCC
AAATCCACTGCAGCAAAAAAGACAGATGGTGGGTCACAGTCTAAGGCATCAGCTGCTCTTGAGA
TTGAAGACGTTGAG
						
					

			
		

Sequences
Splice junction sequence	TACCAAGAAATCTGGACCGTCCAAATCCACTGCAGCAAAAAAGACAGATGGTGGGTCACAGTCT AAGGCATCAGCTGCTCTTGAGATTGAAGACGTTGAGgctcatcacagatgttaatttggctgtt tcggtggaagctactcaggcaattgggaatttagctagaggtttaagagcccaattttctggaa atgcacga
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	GCTCATCACAGATGTTAATTTGGCTGTTTCGGTGGAAGCTACTCAGGCAATTGGGAATTTAGCT AGAGGTTTAAGAGCCCAATTTTCTGGAAATGCACGAATGCTCCTTCCGGTTTTACTTGTAAGAA GAACAACCTTTTTTCCTGAATAACTGAATTTTGCTATTAGATCCTACTGTTACTTTATTGTGTG GACTTTGATGCCCATTGAAACTGGCATTTCCATTTGTCCTGATTCTTTTCAACAGGAAAAATTG AAAGAAAAAAAGCCAACAATGACAGAAGCACTATCTCAAACACTTCAAGCGATGCACAAGTCTG GTTGTTTTACACTTATTGATGTGATTGAAGGTTTGTAATTTTCTAGCAATCTTTATTGCACATG TTTGTTTGTAGCTTTATTTTCATTGTTGTTTTTTTGGTTTGGAACATATTTTGATTTCCTCCAA AGCATGTTATTGCGTAACCATATTCCTTTCACTAAAATGCACTCTAGATCCCTATTAAATTTGG TATAGTTTGTTCCCTAAACCAGAAAATTACACATTTAAGTTCCCAAAACTTTTTCAAGTAAAGA TTAAATCTGAATTTGTTTGAAATATTCGATAACTGAAAACTTTTAGATGCTGACCTTAGTGAAT TTAAGGGAAAACTACCAAGGGTTGTCCAGGAAAAAAGTATTTGCATTTTTTTATGAATCTCAAG ACATGAACCTTTCAGCTTTGATCAATCTCTGAACAAGAAAATGCTGTCTTTTGATAATGCAGAT GTTCGTGCGGCAGTAAAAAACAAGGTGCCCCTTGTTCGTTCTTTAACGCTGACCTGGGTTGCAT TTTGCATTGAAACCAGCAATAAAGCAACTGTACTAAAGTTGCACAAGGAATATGTTCCTATCTG CATGGAGGTGAATAACCACTTTATACTTCTAGCTATGTCTGTTTTTATTTTTCTGTTTTGTATT TGTGCTGATCAGTTTTTCAATATGTAGTGCTTGAATGATGGTACTCCAGAAGTACGAGATGCAT CCTTTTCTGTTTTGACTGCCATTGCCAAGGTTTCTTCTTGAGAACTTGCTTTTCTCGTCACTTC ATTACGTTACATGTATCAGAATGTGGCTTTAAAGCCCGGATTTTTTTGCTACTCTTGCTCTCTA TAGATGGTTGGTATGAAACCATTGGAACGATCCTTGGAGAAATTAGATGATGTGAGGAAAAAGA AGTTATCAGATATGATTGGTTCTTCCAGTGACAGTGTTTTGAGTTCAGGAACAGGTTAGTTTTG CTTTTGTAGTTTTACTTGTATTCAAATGGATCAAATATCTCTGTTTTGGACTAATTTATGTACA AACTACACTTCTCCAGCTCCAATCACAACATCAGGAGCAGCCACATCTGCTCGCGGGGTATGTT TATTGATATTCTTATTTCAATATTATACGAAGATGTTTGCAACCTGTCAGCCTTCCTCTCCCAA GTGCCTATTTACAGTTCTTGTGCTGTGTTGGGGAATTCTTGTTAGAAAATTTACCATTTGTGAT TGGATTTTGTTAGTTATGGTTTAAAAAAACTTCCGTATTGTCACAGTAAAAAACTAGAAAAGGG GCAGTTGTTTCAAAAGCTCAATGATCACTAGTTATCAACTTTGTTTGTCAGGGCAATGTTTATT TGTGACCAGTTCTGTTGATCAAATGTTTGACAACCCATGTAAGATTATTCTGTATCTTGCAGGT TGCAGATAGCATGTCAATGAAGAGATCTGCTGCAAGCATGCTTAGTGGAAAGAAGCCTGTCCAG GCAGCGGTTAGTTTTGTTGGATGCATATTTGATGTGTAAGTTTCTAGTATTTGAATTTGTGCAC CATGTTCTTATGCGGGTATTGGTTTCCTTGTTTCCAGGCTGCTACCAAGAAATCTGGACCGTCC AAATCCACTGCAGCAAAAAAGACAGATGGTGGGTCACAGTCTAAGGCATCAGCTGCTCTTGAGA TTGAAGACGTTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.08968209

Conservation Information
Conserved circRNAs	NA
PMCS	0.08968209

			
						 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 Zm00001d012525_circ_g.3

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