Plant Circular RNA Database

Detail information of Zm00001d002781_circ_g.3

			
						 General Information
					
						CircRNA Name
						Zm00001d002781_circ_g.3
					
						ID in PlantcircBase
						zma_circ_001013
					
						Alias
						circ2355
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 22565631-22567955  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplor2
					
						Parent gene
						
							Zm00001d002781						
					
						Parent gene annotation
						
							 RNA recognition water-stress protein1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d002781_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
						Zm00001d002781_T019:9
Zm00001d002781_T018:9
Zm00001d002781_T003:9
Zm00001d002781_T017:9
Zm00001d002781_T024:9
Zm00001d002781_T004:9
Zm00001d002781_T027:6
Zm00001d002781_T021:9
Zm00001d002781_T014:9
Zm00001d002781_T025:9
Zm00001d002781_T023:9
Zm00001d002781_T005:9
Zm00001d002781_T007:9
Zm00001d002781_T008:9
Zm00001d002781_T028:5
Zm00001d002781_T015:9
Zm00001d002781_T022:2
Zm00001d002781_T020:9
Zm00001d002781_T011:9
Zm00001d002781_T009:9
Zm00001d002781_T010:9
Zm00001d002781_T006:9
Zm00001d002781_T012:9
Zm00001d002781_T013:9
Zm00001d002781_T001:9
Zm00001d002781_T002:9

General Information
CircRNA Name	Zm00001d002781_circ_g.3
ID in PlantcircBase	zma_circ_001013
Alias	circ2355
Organism	Zea mays
Position	chr2: 22565631-22567955 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRCexplor2
Parent gene	Zm00001d002781
Parent gene annotation	RNA recognition water-stress protein1
Parent gene strand	+
Alternative splicing	Zm00001d002781_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	Zm00001d002781_T019:9 Zm00001d002781_T018:9 Zm00001d002781_T003:9 Zm00001d002781_T017:9 Zm00001d002781_T024:9 Zm00001d002781_T004:9 Zm00001d002781_T027:6 Zm00001d002781_T021:9 Zm00001d002781_T014:9 Zm00001d002781_T025:9 Zm00001d002781_T023:9 Zm00001d002781_T005:9 Zm00001d002781_T007:9 Zm00001d002781_T008:9 Zm00001d002781_T028:5 Zm00001d002781_T015:9 Zm00001d002781_T022:2 Zm00001d002781_T020:9 Zm00001d002781_T011:9 Zm00001d002781_T009:9 Zm00001d002781_T010:9 Zm00001d002781_T006:9 Zm00001d002781_T012:9 Zm00001d002781_T013:9 Zm00001d002781_T001:9 Zm00001d002781_T002:9

			
						 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  
						
							GTTGGTGGGAGTTCATATTCTTCACTTTACTCGGGTCGCAATTTGGGTACCAGCAGTGGTGGCT
ACTATGGAGGTAGCGGTTCCAGTTCATATTACTAAGggtgcggggtaaacaatgtggcgttgct
ccaagtcatgacaatgatacactctttgttggcaatatctgtaaaacatggacaaaagaacatg
taagacac

									
								

					

						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
						
							GGTGCGGGGTAAACAATGTGGCGTTGCTCCAAGTCATGACAATGATACACTCTTTGTTGGCAAT
ATCTGTAAAACATGGACAAAAGAACATGTAAGACACTTGAGATTTGTTTTCGTGATTTCCAGTT
GCTTCTTTGCTGAAGAAATAACTTGTTTTGGCTTTTGCAGTTGAAGGATAAACTGAAGAGTTAT
GGTGTCGAAAGTTTTGACGACTTACTACTTGCTGAGGACACTAACAATCCTGGGATGAATCGTG
GCTATGCCTTGCTTGAGTTTTCTACTCGACCTGAGGCAATGGATGCTTTCAGGACATTACAAAA
GAGGGATGTAGTATTTGGAGTTGATCGTAGCGCAAAGGTTTCCTTTGCTGATTCCTACCCTCAA
GTCGATGATGAAATAATGGCACAGGTGACTACTTATTTTGTACAGTTATTATGACTAAAACTAA
ACATGAATTGCTTATTAACACGTGTACTCAGTAGTTTCTATGTGACTTGTATCTACCTCATCTG
TTTAAACTTTAAAGTTGTTGTATCCTGATTTATGTTATTTATGATTCAGGTCAGAACTGTATTT
CTTGATGGCCTTCCTCCCTCATGGGATGAAGACCGTGTTAAGAAATATCTCAAAAAGTATGGAG
CTATTGAGAAAGTCGAACTTGCACGAAACATGCCAGCTGCCAAGAGAAAGGATTTTGGGTTTGT
TACATTTGATACACATGATAATGCTGTTGCATGTACTGAAGGGATGAGTAACTCTGAGATCGGT
GAAGGTGAACACAAGGTCTGTTTTGCAAATTGCAACTATATCTGCTGTGTCTTTATAAATATAT
ATTTCGTCATTGTGTAAGTCTTTTTTTTGTATTGATTGCAATTTCCTGATTCAGGCAAAAGTAA
GGGCTAGACTGTCGAGACCATTGCAGAGACCACCTAGAATGAAACATGGATTGAGAGGAAATTT
TAGAGTTGGGCATGGTGCCCCGCGAGGTGGCCGTTTACCATATTCTCGTGCTCCTCCACCTCGC
AGGCCTCCGCCACGTCTTATTCGGCCTGCTGTTAGCCGCTTACCATCCATCAGGAGTCATCCGT
TGAAGCGGCCCATAGATATTAGAGATAGGCGTCCTGCTATGTCAATGCCAGATAGAGCTAGGCG
TTTCCCTCCAGAGAGATCTTATGACAGGAGGCCCCCAGGTTTGCAGGCCTTATATGCAACTGAT
TAATTTGTGTAGCAGTGCAATATATTTTAGCCATCTCACTTCTCCCACAATTTGTTTGTGTACA
GCTCCAGTTTACCTGAAGAGAAGTCCAAGGAGAGAATACGGGAGGCGTGATGAACTTCCTCCTC
CAAGGAGCAGAGCTACAACTGATTACATTACCAGAGTTCCGGTTGATAGACGTCCCTCTTTGAG
GGATGATTATTCACCCCGGGGATCAGGTTATTCAGACCTCGGTCCTCGTAGTGCTCCCCGTCTT
TCTGATAGGCGAGCTTATGCTGATGATAGTTATGGGGAGAAGTTTGACCGGCCTTTAGTGGCCT
ATAGGGAGGGTCGCGGCCGTGATTATGACACCATTTCTGGATCAAAGCGTCCGTATGCAGATAT
GGTGAGTGCTGTTTATTTGTTTAAATGTTCAGGCCTTGAAGTTTGGTTCTTAAATCAACTTAAT
CATTTTAATTTTCTATCAAGGATGATGTGCCTCGGTACCAAGAAATCGGTGTCCGTCAGTCTAA
GGCACGTTTAGACTACGACATTGGTGGCAGCAGTGCTCGGTATGGAGATACATATAGTGAGAGG
TTGGTGGACTTGAGACTGAAGTATTTTCTTATCTTTTTTGCCTAGTCTTTTATTCTATTCAAGA
TGCTACATTTTATCTTCATAGGTCTGGACGACCACATGCGGGATATAGTAGCAGCCGATCTATC
CCTGTTCATGATTCAGCATATGGCAGCAGCCGTCATGGAATGAGTTATGGAGGTATGTAGTCTT
TGAATGTTCTGTTGTTGTTTTTATGGCACCTTTAGTCATGCACTTATCTTAATTTTCATAATGT
CAAATTGCACTCTACTCTTGCAGGTTCTGCTAGCAGTGCTGATGCTGGTGGTATGTACCCACCG
AGTTACAGTGGTAGCTATGGGTCTCGTGGATCTGATGTGAGTATGAACTACATCCAATTTTACT
ACTTTTTATTTGGGATTCCTGATTTTATTTGAATTTTCTATTTGGGAAGGTTGGTGGGAGTTCA
TATTCTTCACTTTACTCGGGTCGCAATTTGGGTACCAGCAGTGGTGGCTACTATGGAGGTAGCG
GTTCCAGTTCATATTACTAAG
						
					

			
		

Sequences
Splice junction sequence	GTTGGTGGGAGTTCATATTCTTCACTTTACTCGGGTCGCAATTTGGGTACCAGCAGTGGTGGCT ACTATGGAGGTAGCGGTTCCAGTTCATATTACTAAGggtgcggggtaaacaatgtggcgttgct ccaagtcatgacaatgatacactctttgttggcaatatctgtaaaacatggacaaaagaacatg taagacac
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	GGTGCGGGGTAAACAATGTGGCGTTGCTCCAAGTCATGACAATGATACACTCTTTGTTGGCAAT ATCTGTAAAACATGGACAAAAGAACATGTAAGACACTTGAGATTTGTTTTCGTGATTTCCAGTT GCTTCTTTGCTGAAGAAATAACTTGTTTTGGCTTTTGCAGTTGAAGGATAAACTGAAGAGTTAT GGTGTCGAAAGTTTTGACGACTTACTACTTGCTGAGGACACTAACAATCCTGGGATGAATCGTG GCTATGCCTTGCTTGAGTTTTCTACTCGACCTGAGGCAATGGATGCTTTCAGGACATTACAAAA GAGGGATGTAGTATTTGGAGTTGATCGTAGCGCAAAGGTTTCCTTTGCTGATTCCTACCCTCAA GTCGATGATGAAATAATGGCACAGGTGACTACTTATTTTGTACAGTTATTATGACTAAAACTAA ACATGAATTGCTTATTAACACGTGTACTCAGTAGTTTCTATGTGACTTGTATCTACCTCATCTG TTTAAACTTTAAAGTTGTTGTATCCTGATTTATGTTATTTATGATTCAGGTCAGAACTGTATTT CTTGATGGCCTTCCTCCCTCATGGGATGAAGACCGTGTTAAGAAATATCTCAAAAAGTATGGAG CTATTGAGAAAGTCGAACTTGCACGAAACATGCCAGCTGCCAAGAGAAAGGATTTTGGGTTTGT TACATTTGATACACATGATAATGCTGTTGCATGTACTGAAGGGATGAGTAACTCTGAGATCGGT GAAGGTGAACACAAGGTCTGTTTTGCAAATTGCAACTATATCTGCTGTGTCTTTATAAATATAT ATTTCGTCATTGTGTAAGTCTTTTTTTTGTATTGATTGCAATTTCCTGATTCAGGCAAAAGTAA GGGCTAGACTGTCGAGACCATTGCAGAGACCACCTAGAATGAAACATGGATTGAGAGGAAATTT TAGAGTTGGGCATGGTGCCCCGCGAGGTGGCCGTTTACCATATTCTCGTGCTCCTCCACCTCGC AGGCCTCCGCCACGTCTTATTCGGCCTGCTGTTAGCCGCTTACCATCCATCAGGAGTCATCCGT TGAAGCGGCCCATAGATATTAGAGATAGGCGTCCTGCTATGTCAATGCCAGATAGAGCTAGGCG TTTCCCTCCAGAGAGATCTTATGACAGGAGGCCCCCAGGTTTGCAGGCCTTATATGCAACTGAT TAATTTGTGTAGCAGTGCAATATATTTTAGCCATCTCACTTCTCCCACAATTTGTTTGTGTACA GCTCCAGTTTACCTGAAGAGAAGTCCAAGGAGAGAATACGGGAGGCGTGATGAACTTCCTCCTC CAAGGAGCAGAGCTACAACTGATTACATTACCAGAGTTCCGGTTGATAGACGTCCCTCTTTGAG GGATGATTATTCACCCCGGGGATCAGGTTATTCAGACCTCGGTCCTCGTAGTGCTCCCCGTCTT TCTGATAGGCGAGCTTATGCTGATGATAGTTATGGGGAGAAGTTTGACCGGCCTTTAGTGGCCT ATAGGGAGGGTCGCGGCCGTGATTATGACACCATTTCTGGATCAAAGCGTCCGTATGCAGATAT GGTGAGTGCTGTTTATTTGTTTAAATGTTCAGGCCTTGAAGTTTGGTTCTTAAATCAACTTAAT CATTTTAATTTTCTATCAAGGATGATGTGCCTCGGTACCAAGAAATCGGTGTCCGTCAGTCTAA GGCACGTTTAGACTACGACATTGGTGGCAGCAGTGCTCGGTATGGAGATACATATAGTGAGAGG TTGGTGGACTTGAGACTGAAGTATTTTCTTATCTTTTTTGCCTAGTCTTTTATTCTATTCAAGA TGCTACATTTTATCTTCATAGGTCTGGACGACCACATGCGGGATATAGTAGCAGCCGATCTATC CCTGTTCATGATTCAGCATATGGCAGCAGCCGTCATGGAATGAGTTATGGAGGTATGTAGTCTT TGAATGTTCTGTTGTTGTTTTTATGGCACCTTTAGTCATGCACTTATCTTAATTTTCATAATGT CAAATTGCACTCTACTCTTGCAGGTTCTGCTAGCAGTGCTGATGCTGGTGGTATGTACCCACCG AGTTACAGTGGTAGCTATGGGTCTCGTGGATCTGATGTGAGTATGAACTACATCCAATTTTACT ACTTTTTATTTGGGATTCCTGATTTTATTTGAATTTTCTATTTGGGAAGGTTGGTGGGAGTTCA TATTCTTCACTTTACTCGGGTCGCAATTTGGGTACCAGCAGTGGTGGCTACTATGGAGGTAGCG GTTCCAGTTCATATTACTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.038399473

Conservation Information
Conserved circRNAs	NA
PMCS	0.038399473

			
						 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 Zm00001d002781_circ_g.3

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