Plant Circular RNA Database

Detail information of Zm00001d021000_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d021000_circ_g.1
					

						ID in PlantcircBase
						zma_circ_002554
					

						Alias
						circ1198
					

						Organism
						
							Zea mays						
					

						Position
						
							chr7: 139891332-139892987  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							ui-circRNA							
									
								

					

						Identification method
						CIRI
					

						Parent gene
						
							Zm00001d021000						
					

						Parent gene annotation
						
							ATPase 4 plasma membrane-type
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							NA						
					

						Support reads
						6
					

						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
						Zm00001d021000_T022:7
Zm00001d021000_T015:7
Zm00001d021000_T011:7
Zm00001d021000_T031:7
Zm00001d021000_T050:7
Zm00001d021000_T035:7
Zm00001d021000_T046:7
Zm00001d021000_T027:7
Zm00001d021000_T018:7
Zm00001d021000_T048:7
Zm00001d021000_T037:7
Zm00001d021000_T007:7
Zm00001d021000_T024:7
Zm00001d021000_T045:7
Zm00001d021000_T025:7
Zm00001d021000_T052:7
Zm00001d021000_T016:7
Zm00001d021000_T041:7
Zm00001d021000_T002:7
Zm00001d021000_T028:7
Zm00001d021000_T053:7
Zm00001d021000_T008:7
Zm00001d021000_T032:7
Zm00001d021000_T047:7
Zm00001d021000_T020:7
Zm00001d021000_T038:7
Zm00001d021000_T030:7
Zm00001d021000_T012:7
Zm00001d021000_T049:7
Zm00001d021000_T010:7
Zm00001d021000_T026:7
Zm00001d021000_T042:8
Zm00001d021000_T051:7
Zm00001d021000_T014:7
Zm00001d021000_T054:7
Zm00001d021000_T023:7
Zm00001d021000_T034:7
Zm00001d021000_T006:7
Zm00001d021000_T019:7
Zm00001d021000_T040:7
Zm00001d021000_T004:7
Zm00001d021000_T036:7
Zm00001d021000_T013:7
Zm00001d021000_T005:7
Zm00001d021000_T003:7
Zm00001d021000_T017:7
Zm00001d021000_T043:7
Zm00001d021000_T009:7
Zm00001d021000_T044:7
Zm00001d021000_T029:7
Zm00001d021000_T033:7
Zm00001d021000_T001:7
Zm00001d021000_T021:7
Zm00001d021000_T039:7

					

			
		

General Information
CircRNA Name	Zm00001d021000_circ_g.1
ID in PlantcircBase	zma_circ_002554
Alias	circ1198
Organism	Zea mays
Position	chr7: 139891332-139892987 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	CIRI
Parent gene	Zm00001d021000
Parent gene annotation	ATPase 4 plasma membrane-type
Parent gene strand	-
Alternative splicing	NA
Support reads	6
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	Zm00001d021000_T022:7 Zm00001d021000_T015:7 Zm00001d021000_T011:7 Zm00001d021000_T031:7 Zm00001d021000_T050:7 Zm00001d021000_T035:7 Zm00001d021000_T046:7 Zm00001d021000_T027:7 Zm00001d021000_T018:7 Zm00001d021000_T048:7 Zm00001d021000_T037:7 Zm00001d021000_T007:7 Zm00001d021000_T024:7 Zm00001d021000_T045:7 Zm00001d021000_T025:7 Zm00001d021000_T052:7 Zm00001d021000_T016:7 Zm00001d021000_T041:7 Zm00001d021000_T002:7 Zm00001d021000_T028:7 Zm00001d021000_T053:7 Zm00001d021000_T008:7 Zm00001d021000_T032:7 Zm00001d021000_T047:7 Zm00001d021000_T020:7 Zm00001d021000_T038:7 Zm00001d021000_T030:7 Zm00001d021000_T012:7 Zm00001d021000_T049:7 Zm00001d021000_T010:7 Zm00001d021000_T026:7 Zm00001d021000_T042:8 Zm00001d021000_T051:7 Zm00001d021000_T014:7 Zm00001d021000_T054:7 Zm00001d021000_T023:7 Zm00001d021000_T034:7 Zm00001d021000_T006:7 Zm00001d021000_T019:7 Zm00001d021000_T040:7 Zm00001d021000_T004:7 Zm00001d021000_T036:7 Zm00001d021000_T013:7 Zm00001d021000_T005:7 Zm00001d021000_T003:7 Zm00001d021000_T017:7 Zm00001d021000_T043:7 Zm00001d021000_T009:7 Zm00001d021000_T044:7 Zm00001d021000_T029:7 Zm00001d021000_T033:7 Zm00001d021000_T001:7 Zm00001d021000_T021:7 Zm00001d021000_T039:7

			
						 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  
						
							GACTCATCCTTATTCTGTCTGAGTAAAGCAGAGGAAGGGTACATATTAGTACCCATTCCCAAAC
GACGTGCAGTTTCTTTCCCAATAGCAAGTTGATCACccctctgctcaaggacgaggttccatgc
cctcccactcagcgcatagcggatgaggaacttgatgatgtccagcgggaagtagaagacgatg
ttatagag

									
								

					

						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
						
							CCCTCTGCTCAAGGACGAGGTTCCATGCCCTCCCACTCAGCGCATAGCGGATGAGGAACTTGAT
GATGTCCAGCGGGAAGTAGAAGACGATGTTATAGAGCCAGATGACACCGGCCCAGCCCCATCCA
ATGCCCTTGATCGCAGTGAACGCCCAGTTGGCATATACAGCGATCAGAGTGGCAATCTGCAAGC
ACCACAAAAATGTGAGCGAAACTAGACACGGAAAGACGGCATATGCAGTAAGGCGTGGAGCTGG
GATCGGATCACTCACCAGCTTAGCCACCAAGAAAGCGAAGACCAGCAAGAACCCAGGACGCTCC
ACAAACGACCAGCTGCGCGACCGTGTCACGAAGATAAGGGCCTGACTGACCGTGCTGACTTGAA
GGTACACGGCAGAGGCGAACTTCTGAAAGTCATCCTGGGCGGTCTTCTCGAGGCTTTCGACGTG
GAACAGCCGCTGCAAATTAGCAACCATGACAAGGATGAGCGCACCGCAACTATCCCACGAAACT
TTAAAATAATGCTAAACCAACCACTGGTCCATACCGGGAAAAAGTCAGTCTTGTATGCAGCCCA
GAAGAAAATGACAGTCATCATGGCCAAATAACCACCAAGAACTACTCCAGTTGCAAAAATCTCA
GCTAACTTCCAACTGTCTGGTTGTGGAGATGGTTTTACTCTGTCCTTCGAGATAGTCATAATGG
TACCTACTCATGTCGCGAGGTTGATGTTGTTAGGTAACCTAATATGCTACTTACACTAACAATA
TGAACCGAAAAAAAATAAAGATCAACTACATATTTTACTCTCATCATGAACTGTGACTAACTAA
ACCGAGGCTTACCGTCATTGAGGATGGCAATGATCAGGACCATAAATGGTGGGAAGTCAAACTT
CCATATCAGCGCAAGAAGCATAAAACCAAGCTGTTACAACAAAGTATCTAGGGGTCAGATATAT
TATTTGTCCAATCAGTCAACCGAGCATTATTTTCTAAAAATGAAGCAGAAGTACATACATACCA
CAATACGGATGGTAATCGATACAGCATAGATCTGCGAACAAAAATAAACTTTGAAAATACTGGA
CACAGAAATGGAATGCTAAGAGACTAAAATGGAACTGCAGAATTGACATACCGTGTAATTCTTC
ATCCTTTGGAAAATTGCCCGACTCGTCAGCACAGCACTAATAATCACACTAAGGCCAGGTTCAG
TTAGGACAATGTCAGAAGCACTACGAGTTGCATCAGTAGAGTCTGCTACTGCAATACCAATATC
AGCCTTCTTCAAAGCTGGGGCATCATTTACACCATCCCCAGTCATGCCACATATATGTTTTCTT
GCTTGCAAGCCTTTCACGATCTCATACTTGTGTTCTATCAAGCAATAATAATAAAAAATTAGAC
ATAAGTACTGCATATAGATGCTGAAGAACTGTTGAGCCTATCAAACAAGAGTAATAGAAAACAG
GTAATCTGCATAGTTGTACCTGGAAAGACACCAGCAAAGCCATCAGCCTTCTCGATCAATTCAT
CAATTGGCAAGGAAGCAATTGACTCATCCTTATTCTGTCTGAGTAAAGCAGAGGAAGGGTACAT
ATTAGTACCCATTCCCAAACGACGTGCAGTTTCTTTCCCAATAGCAAGTTGATCAC
						
					

			
		

Sequences
Splice junction sequence	GACTCATCCTTATTCTGTCTGAGTAAAGCAGAGGAAGGGTACATATTAGTACCCATTCCCAAAC GACGTGCAGTTTCTTTCCCAATAGCAAGTTGATCACccctctgctcaaggacgaggttccatgc cctcccactcagcgcatagcggatgaggaacttgatgatgtccagcgggaagtagaagacgatg ttatagag
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	CCCTCTGCTCAAGGACGAGGTTCCATGCCCTCCCACTCAGCGCATAGCGGATGAGGAACTTGAT GATGTCCAGCGGGAAGTAGAAGACGATGTTATAGAGCCAGATGACACCGGCCCAGCCCCATCCA ATGCCCTTGATCGCAGTGAACGCCCAGTTGGCATATACAGCGATCAGAGTGGCAATCTGCAAGC ACCACAAAAATGTGAGCGAAACTAGACACGGAAAGACGGCATATGCAGTAAGGCGTGGAGCTGG GATCGGATCACTCACCAGCTTAGCCACCAAGAAAGCGAAGACCAGCAAGAACCCAGGACGCTCC ACAAACGACCAGCTGCGCGACCGTGTCACGAAGATAAGGGCCTGACTGACCGTGCTGACTTGAA GGTACACGGCAGAGGCGAACTTCTGAAAGTCATCCTGGGCGGTCTTCTCGAGGCTTTCGACGTG GAACAGCCGCTGCAAATTAGCAACCATGACAAGGATGAGCGCACCGCAACTATCCCACGAAACT TTAAAATAATGCTAAACCAACCACTGGTCCATACCGGGAAAAAGTCAGTCTTGTATGCAGCCCA GAAGAAAATGACAGTCATCATGGCCAAATAACCACCAAGAACTACTCCAGTTGCAAAAATCTCA GCTAACTTCCAACTGTCTGGTTGTGGAGATGGTTTTACTCTGTCCTTCGAGATAGTCATAATGG TACCTACTCATGTCGCGAGGTTGATGTTGTTAGGTAACCTAATATGCTACTTACACTAACAATA TGAACCGAAAAAAAATAAAGATCAACTACATATTTTACTCTCATCATGAACTGTGACTAACTAA ACCGAGGCTTACCGTCATTGAGGATGGCAATGATCAGGACCATAAATGGTGGGAAGTCAAACTT CCATATCAGCGCAAGAAGCATAAAACCAAGCTGTTACAACAAAGTATCTAGGGGTCAGATATAT TATTTGTCCAATCAGTCAACCGAGCATTATTTTCTAAAAATGAAGCAGAAGTACATACATACCA CAATACGGATGGTAATCGATACAGCATAGATCTGCGAACAAAAATAAACTTTGAAAATACTGGA CACAGAAATGGAATGCTAAGAGACTAAAATGGAACTGCAGAATTGACATACCGTGTAATTCTTC ATCCTTTGGAAAATTGCCCGACTCGTCAGCACAGCACTAATAATCACACTAAGGCCAGGTTCAG TTAGGACAATGTCAGAAGCACTACGAGTTGCATCAGTAGAGTCTGCTACTGCAATACCAATATC AGCCTTCTTCAAAGCTGGGGCATCATTTACACCATCCCCAGTCATGCCACATATATGTTTTCTT GCTTGCAAGCCTTTCACGATCTCATACTTGTGTTCTATCAAGCAATAATAATAAAAAATTAGAC ATAAGTACTGCATATAGATGCTGAAGAACTGTTGAGCCTATCAAACAAGAGTAATAGAAAACAG GTAATCTGCATAGTTGTACCTGGAAAGACACCAGCAAAGCCATCAGCCTTCTCGATCAATTCAT CAATTGGCAAGGAAGCAATTGACTCATCCTTATTCTGTCTGAGTAAAGCAGAGGAAGGGTACAT ATTAGTACCCATTCCCAAACGACGTGCAGTTTCTTTCCCAATAGCAAGTTGATCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.027690434

Conservation Information
Conserved circRNAs	NA
PMCS	0.027690434

			
						 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 Zm00001d021000_circ_g.1

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