Plant Circular RNA Database

Detail information of Zm00001d035487_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d035487_circ_g.1
					

						ID in PlantcircBase
						zma_circ_002208
					

						Alias
						circ1031
					

						Organism
						
							Zea mays						
					

						Position
						
							chr6: 28977266-28978319  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							ui-circRNA							
									
								

					

						Identification method
						CIRI
					

						Parent gene
						
							Zm00001d035487						
					

						Parent gene annotation
						
							E3 SUMO-protein ligase SIZ1
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							Zm00001d035487_circ_g.2 Zm00001d035487_circ_g.3 Zm00001d035487_circ_g.4 						
					

						Support reads
						4
					

						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  
						
							CT-TA							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
						Zm00001d035487_T019:3
Zm00001d035487_T008:3
Zm00001d035487_T066:3
Zm00001d035487_T064:3
Zm00001d035487_T022:3
Zm00001d035487_T042:3
Zm00001d035487_T040:3
Zm00001d035487_T053:3
Zm00001d035487_T061:3
Zm00001d035487_T037:3
Zm00001d035487_T007:3
Zm00001d035487_T075:3
Zm00001d035487_T057:3
Zm00001d035487_T068:3
Zm00001d035487_T043:3
Zm00001d035487_T021:3
Zm00001d035487_T050:3
Zm00001d035487_T023:3
Zm00001d035487_T026:3
Zm00001d035487_T029:3
Zm00001d035487_T015:3
Zm00001d035487_T031:3
Zm00001d035487_T060:3
Zm00001d035487_T004:3
Zm00001d035487_T041:3
Zm00001d035487_T046:3
Zm00001d035487_T035:3
Zm00001d035487_T059:3
Zm00001d035487_T024:3
Zm00001d035487_T002:3
Zm00001d035487_T003:3
Zm00001d035487_T016:3
Zm00001d035487_T009:3
Zm00001d035487_T047:3
Zm00001d035487_T036:3
Zm00001d035487_T033:3
Zm00001d035487_T044:3
Zm00001d035487_T049:3
Zm00001d035487_T025:3
Zm00001d035487_T030:3
Zm00001d035487_T006:3
Zm00001d035487_T034:3
Zm00001d035487_T027:3
Zm00001d035487_T020:3
Zm00001d035487_T032:3
Zm00001d035487_T028:3
Zm00001d035487_T052:3
Zm00001d035487_T058:3
Zm00001d035487_T056:3

					

			
		

General Information
CircRNA Name	Zm00001d035487_circ_g.1
ID in PlantcircBase	zma_circ_002208
Alias	circ1031
Organism	Zea mays
Position	chr6: 28977266-28978319 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	CIRI
Parent gene	Zm00001d035487
Parent gene annotation	E3 SUMO-protein ligase SIZ1
Parent gene strand	-
Alternative splicing	Zm00001d035487_circ_g.2 Zm00001d035487_circ_g.3 Zm00001d035487_circ_g.4
Support reads	4
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	CT-TA 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	Zm00001d035487_T019:3 Zm00001d035487_T008:3 Zm00001d035487_T066:3 Zm00001d035487_T064:3 Zm00001d035487_T022:3 Zm00001d035487_T042:3 Zm00001d035487_T040:3 Zm00001d035487_T053:3 Zm00001d035487_T061:3 Zm00001d035487_T037:3 Zm00001d035487_T007:3 Zm00001d035487_T075:3 Zm00001d035487_T057:3 Zm00001d035487_T068:3 Zm00001d035487_T043:3 Zm00001d035487_T021:3 Zm00001d035487_T050:3 Zm00001d035487_T023:3 Zm00001d035487_T026:3 Zm00001d035487_T029:3 Zm00001d035487_T015:3 Zm00001d035487_T031:3 Zm00001d035487_T060:3 Zm00001d035487_T004:3 Zm00001d035487_T041:3 Zm00001d035487_T046:3 Zm00001d035487_T035:3 Zm00001d035487_T059:3 Zm00001d035487_T024:3 Zm00001d035487_T002:3 Zm00001d035487_T003:3 Zm00001d035487_T016:3 Zm00001d035487_T009:3 Zm00001d035487_T047:3 Zm00001d035487_T036:3 Zm00001d035487_T033:3 Zm00001d035487_T044:3 Zm00001d035487_T049:3 Zm00001d035487_T025:3 Zm00001d035487_T030:3 Zm00001d035487_T006:3 Zm00001d035487_T034:3 Zm00001d035487_T027:3 Zm00001d035487_T020:3 Zm00001d035487_T032:3 Zm00001d035487_T028:3 Zm00001d035487_T052:3 Zm00001d035487_T058:3 Zm00001d035487_T056:3

			
						 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  
						
							TGGAGAGCAAACCTGGAGATCGTATTCTGGCCTCTGGACTGTTTCTCTTTCTGCTCGGGAAAGT
TGGAAGGTCTTCTCCACAATTTGAGGTGCGCTTGCTccagtggcccatcatcacgtccatttat
ccctagtaactgagaaccaggcctggtcattactcgtacaggaatacctggacaaacagaacta
aatatcac

						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
						
							CCAGTGGCCCATCATCACGTCCATTTATCCCTAGTAACTGAGAACCAGGCCTGGTCATTACTCG
TACAGGAATACCTGGACAAACAGAACTAAATATCACACTGGCAATCCCTTAATTTCATAAAAAT
ATCACTGTAGACCTATACTAAATGGCACAGGTATACAACATATACACCAAGTTTTGAGCCCAAA
TGCATTTAAATGAATCCAAGTTATACAATAAATTTTATGAAATACCGTTCACTTGCAATTCTGC
ATATTGAGGCCATTGCATCCTGAACTGGACTTTGTCATTTACAAGAATGCACCAAACCTGTCCA
CAGACCCACAACACAACCGGTAGTTAACAGGACTGTGCAACAGAACGAGTGAGTGTATCCAAGT
GCTTTTTCTTTGCTGGATAGGACATGAGAAATCTTAATACATCAAATCAAGACCTTTTGACAGA
AGATCTTAATGTGCAACACTCAAGTCTATATTGCACACACTATTTGCAAATGATTTAAGTGGTT
AACTCATAACTGAGGTAGACATAAGAAATCGAAGATATTTGATTTTAGAGAAAGGTCATAATCA
GTAGATAACTCATAATACGGGTAGACATGAGAAATCAAAGATATTTGATGTTAGAGAAAGGTCA
TAATCATAAATAGCTGTTTTCCTTCAGTGTACTATGCATAAACACTATGTTAAAGATGTTGACT
CAATAACAAGGTTCAGAGACTCCAAGTGACCATAGACCAATGCTTTCTTCCTCGGTGCCTTAAG
GTGTATTTATAGCATGATTTATGGCATAGCATAATCACCAATGTACTATGTGTGAACACTATGC
TGGAGAAAGAGCATAATTATCCACAGCTAAGATTTATTTATGGCATAGCAGCATCATGACATTA
ATAAAATGTGCAGGAATTTTATCAGGATCTAGGCAAATGAAACCTAGGTTGTGGAGACTGGAGA
GCAAACCTGGAGATCGTATTCTGGCCTCTGGACTGTTTCTCTTTCTGCTCGGGAAAGTTGGAAG
GTCTTCTCCACAATTTGAGGTGCGCTTGCT

Sequences
Splice junction sequence	TGGAGAGCAAACCTGGAGATCGTATTCTGGCCTCTGGACTGTTTCTCTTTCTGCTCGGGAAAGT TGGAAGGTCTTCTCCACAATTTGAGGTGCGCTTGCTccagtggcccatcatcacgtccatttat ccctagtaactgagaaccaggcctggtcattactcgtacaggaatacctggacaaacagaacta aatatcac
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	CCAGTGGCCCATCATCACGTCCATTTATCCCTAGTAACTGAGAACCAGGCCTGGTCATTACTCG TACAGGAATACCTGGACAAACAGAACTAAATATCACACTGGCAATCCCTTAATTTCATAAAAAT ATCACTGTAGACCTATACTAAATGGCACAGGTATACAACATATACACCAAGTTTTGAGCCCAAA TGCATTTAAATGAATCCAAGTTATACAATAAATTTTATGAAATACCGTTCACTTGCAATTCTGC ATATTGAGGCCATTGCATCCTGAACTGGACTTTGTCATTTACAAGAATGCACCAAACCTGTCCA CAGACCCACAACACAACCGGTAGTTAACAGGACTGTGCAACAGAACGAGTGAGTGTATCCAAGT GCTTTTTCTTTGCTGGATAGGACATGAGAAATCTTAATACATCAAATCAAGACCTTTTGACAGA AGATCTTAATGTGCAACACTCAAGTCTATATTGCACACACTATTTGCAAATGATTTAAGTGGTT AACTCATAACTGAGGTAGACATAAGAAATCGAAGATATTTGATTTTAGAGAAAGGTCATAATCA GTAGATAACTCATAATACGGGTAGACATGAGAAATCAAAGATATTTGATGTTAGAGAAAGGTCA TAATCATAAATAGCTGTTTTCCTTCAGTGTACTATGCATAAACACTATGTTAAAGATGTTGACT CAATAACAAGGTTCAGAGACTCCAAGTGACCATAGACCAATGCTTTCTTCCTCGGTGCCTTAAG GTGTATTTATAGCATGATTTATGGCATAGCATAATCACCAATGTACTATGTGTGAACACTATGC TGGAGAAAGAGCATAATTATCCACAGCTAAGATTTATTTATGGCATAGCAGCATCATGACATTA ATAAAATGTGCAGGAATTTTATCAGGATCTAGGCAAATGAAACCTAGGTTGTGGAGACTGGAGA GCAAACCTGGAGATCGTATTCTGGCCTCTGGACTGTTTCTCTTTCTGCTCGGGAAAGTTGGAAG GTCTTCTCCACAATTTGAGGTGCGCTTGCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.010910705

Conservation Information
Conserved circRNAs	NA
PMCS	0.010910705

			
						 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 Zm00001d035487_circ_g.1

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