Plant Circular RNA Database

Detail information of Zm00001d022586_circ_g.4

			
						 General Information
					
						CircRNA Name
						Zm00001d022586_circ_g.4
					
						ID in PlantcircBase
						zma_circ_009521
					
						Alias
						Zm07circ00106, GRMZM2G134284_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 180361827-180363803  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d022586						
					
						Parent gene annotation
						
							HEAT repeat-containing protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d022586_circ_g.2 Zm00001d022586_circ_g.3 Zm00001d022586_circ_g.5 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						Exon boundary  
						
							Yes-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-AG							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
						Zm00001d022586_T025:4
Zm00001d022586_T028:6
Zm00001d022586_T004:4
Zm00001d022586_T013:7
Zm00001d022586_T035:7
Zm00001d022586_T019:6
Zm00001d022586_T021:6
Zm00001d022586_T006:5
Zm00001d022586_T011:6
Zm00001d022586_T005:5
Zm00001d022586_T010:6
Zm00001d022586_T030:6
Zm00001d022586_T014:6
Zm00001d022586_T020:5
Zm00001d022586_T016:6
Zm00001d022586_T003:6
Zm00001d022586_T024:6
Zm00001d022586_T012:6
Zm00001d022586_T015:7
Zm00001d022586_T032:6
Zm00001d022586_T027:6
Zm00001d022586_T034:6
Zm00001d022586_T033:5
Zm00001d022586_T037:6
Zm00001d022586_T017:6
Zm00001d022586_T026:7
Zm00001d022586_T023:6
Zm00001d022586_T022:6
Zm00001d022586_T036:6
Zm00001d022586_T002:4
Zm00001d022586_T031:6
Zm00001d022586_T001:5
Zm00001d022586_T009:6
Zm00001d022586_T018:7
Zm00001d022586_T007:7
Zm00001d022586_T038:6
Zm00001d022586_T008:6
Zm00001d022586_T029:6

General Information
CircRNA Name	Zm00001d022586_circ_g.4
ID in PlantcircBase	zma_circ_009521
Alias	Zm07circ00106, GRMZM2G134284_C1
Organism	Zea mays
Position	chr7: 180361827-180363803 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d022586
Parent gene annotation	HEAT repeat-containing protein
Parent gene strand	+
Alternative splicing	Zm00001d022586_circ_g.2 Zm00001d022586_circ_g.3 Zm00001d022586_circ_g.5
Support reads	NA
Tissues	leaf, endosperm
Exon boundary	Yes-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-AG 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	Zm00001d022586_T025:4 Zm00001d022586_T028:6 Zm00001d022586_T004:4 Zm00001d022586_T013:7 Zm00001d022586_T035:7 Zm00001d022586_T019:6 Zm00001d022586_T021:6 Zm00001d022586_T006:5 Zm00001d022586_T011:6 Zm00001d022586_T005:5 Zm00001d022586_T010:6 Zm00001d022586_T030:6 Zm00001d022586_T014:6 Zm00001d022586_T020:5 Zm00001d022586_T016:6 Zm00001d022586_T003:6 Zm00001d022586_T024:6 Zm00001d022586_T012:6 Zm00001d022586_T015:7 Zm00001d022586_T032:6 Zm00001d022586_T027:6 Zm00001d022586_T034:6 Zm00001d022586_T033:5 Zm00001d022586_T037:6 Zm00001d022586_T017:6 Zm00001d022586_T026:7 Zm00001d022586_T023:6 Zm00001d022586_T022:6 Zm00001d022586_T036:6 Zm00001d022586_T002:4 Zm00001d022586_T031:6 Zm00001d022586_T001:5 Zm00001d022586_T009:6 Zm00001d022586_T018:7 Zm00001d022586_T007:7 Zm00001d022586_T038:6 Zm00001d022586_T008:6 Zm00001d022586_T029:6

			
						 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  
						
							CAGTTGATCAAAATAAACTTCTCTACAGGTTGAACAGATTCCTCTTCCTTTGCTATTCATGAGG
ACTGTCATGCAAGCAATAGGTGTTTTTCCTGCATTGgttttacaaaccctcactgatgctgcgg
ttccatctaaagatctgatttcttccataaagatcttatattctaaaacaaaggtcgttgcttg
ctttaaga

									
								

					

						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
						
							GTTTTACAAACCCTCACTGATGCTGCGGTTCCATCTAAAGATCTGATTTCTTCCATAAAGATCT
TATATTCTAAAACAAAGGTCGTTGCTTGCTTTAAGAAACCATTAAGTTATTACTGACTTTTTAC
AAGATCAGCATTAGCTGTGATATTCTCAGTTTCTGAAATGAAGCTTCATTTTGCAGGATGTTGA
GTTCCTTTTTGCAATCTTGGTTCATCTACCAAAAGATGAGGTTTTCTCCACCTCCCTCTACATA
GCCGATAATCTCTCCAATTCAAAAAAAAACTCGGCCGGGAGGGAAAGACCACCTCCTGGTATTA
TATTAAGAAGAGACCGAAACAATTGTTCCGATCGAGAAAATCCTTGAACCCTGGGCCCTCATCA
CTAACGGGCTGGCGTCAACCGTTCACTCTGCAACAACCCAACCAGAGGGTGGTGCATAGGACAT
CGTAACCTGAGAGCGAATGGGGCACAACGAGGGAATTTTTTAAAATTCGCCTTCGAGGGGGGAT
CAAACCTAGGACTTGGAGATGCTACTCGAAAGCCTTTAACCACTAGGCTAGAAGCCCTTTCGCA
CTCTCTCCGATTCAGAAACATGCTATTTTAGGATTCCTGCCAGTTAAACTTTTGTTTTAACATT
GGCCAAAATAATTACATTGATCGTCAATGTAAGATCATAGATGTTACTAGATTCACCATAAAAA
CTATTTTAGAAATATTTAATTATCTTCGTTTTTATATGCTATATTTTTATCAAAGTTTTACCTT
GTAGGCTGTCGATGTCCTAAACTATATTTATTTTCTATGGAAGGGAGTGATTAGCATTATTCTA
TTATGCTTCTAGACAGTGTCTTATGCTTTCGTAGTCTTCTGCTGACACCCTTTGCCCATTGCAC
TGCCAATTATTTGCTCTGTGTTCTGCACATACCCGACATATCTGGTAAACTGCTCACTTTTTAT
TCCACTGAAATTGGCACCCTATTGTAAATGTTTTGGCTTTCAATTTGATTGACAAAATACCATG
GTACCAGGCCAGTAGCCTGGATGTGATATTTTTCTCAGGACCAGTGTTATGAACCTTGAACTGA
CTTTTGGCTTTACTGGAATAATTATATATTTTAAGCACTATTGTGGACTGTTTCTTATATTTGC
CTTTAGTTACACACTAGTTATGTGCATTAAACATTATCCTTTGCTCTTCAGGTCCTGCCTGTGT
TCCCCAGTATTGTTAATCTTCCAATAGACAAGTTTCAAAGTGCCATTTCCCGAATCTTGCAGGT
TAGTCTTCGTCCTGGTATGGCAATGTTTTTGTTTGAGTCAGTTTTCAGATGATTCGTTAATTGT
GGTTTGAAAATAAAGCACTAGCTTGAGACTTGAGTTCATTTGGCTGAGAGATAAATGGAACCTT
ACAAATGTATTATTGTCCTGCTGAAGTTTCTTGTTAAATAACAAGTCTGTCACCTCTTTTAGGA
CTTGAACTTTTCAAGTAACTTATACTTAGATTTATGTTACTGATTCATTTCCTTCGAGCATTGC
ATACTAATCACACATCATCCCTTTTACTGCAGGGATCACCTCGGAATGGCCCTTCACTTGATCC
ATCAGAAATTTTAATTGCAATTCATGTAATAGCTCCTGATAAGGAAGGAATACCACTCAAAAAG
GTCTGCTAGTTTCTAGTTTTGGTTTACAACTGAAGGAGAACCCAATTTAATCAATTGAACCATT
CATATAATTTATTATAGGTTATGGATGCATGCTCTTCTTGCTTTGAGCAAAGAACAATATTTAC
CCAGCAAGTTCTGGCAAAAGCACTAAATCAACTGGTATTTATTTCTGGGCATAGTTCTTTTCCA
TAGTATATTCCTTATGATATGCAGTTGATCAAAATAAACTTCTCTACAGGTTGAACAGATTCCT
CTTCCTTTGCTATTCATGAGGACTGTCATGCAAGCAATAGGTGTTTTTCCTGCATTG
						
					

			
		

Sequences
Splice junction sequence	CAGTTGATCAAAATAAACTTCTCTACAGGTTGAACAGATTCCTCTTCCTTTGCTATTCATGAGG ACTGTCATGCAAGCAATAGGTGTTTTTCCTGCATTGgttttacaaaccctcactgatgctgcgg ttccatctaaagatctgatttcttccataaagatcttatattctaaaacaaaggtcgttgcttg ctttaaga
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	GTTTTACAAACCCTCACTGATGCTGCGGTTCCATCTAAAGATCTGATTTCTTCCATAAAGATCT TATATTCTAAAACAAAGGTCGTTGCTTGCTTTAAGAAACCATTAAGTTATTACTGACTTTTTAC AAGATCAGCATTAGCTGTGATATTCTCAGTTTCTGAAATGAAGCTTCATTTTGCAGGATGTTGA GTTCCTTTTTGCAATCTTGGTTCATCTACCAAAAGATGAGGTTTTCTCCACCTCCCTCTACATA GCCGATAATCTCTCCAATTCAAAAAAAAACTCGGCCGGGAGGGAAAGACCACCTCCTGGTATTA TATTAAGAAGAGACCGAAACAATTGTTCCGATCGAGAAAATCCTTGAACCCTGGGCCCTCATCA CTAACGGGCTGGCGTCAACCGTTCACTCTGCAACAACCCAACCAGAGGGTGGTGCATAGGACAT CGTAACCTGAGAGCGAATGGGGCACAACGAGGGAATTTTTTAAAATTCGCCTTCGAGGGGGGAT CAAACCTAGGACTTGGAGATGCTACTCGAAAGCCTTTAACCACTAGGCTAGAAGCCCTTTCGCA CTCTCTCCGATTCAGAAACATGCTATTTTAGGATTCCTGCCAGTTAAACTTTTGTTTTAACATT GGCCAAAATAATTACATTGATCGTCAATGTAAGATCATAGATGTTACTAGATTCACCATAAAAA CTATTTTAGAAATATTTAATTATCTTCGTTTTTATATGCTATATTTTTATCAAAGTTTTACCTT GTAGGCTGTCGATGTCCTAAACTATATTTATTTTCTATGGAAGGGAGTGATTAGCATTATTCTA TTATGCTTCTAGACAGTGTCTTATGCTTTCGTAGTCTTCTGCTGACACCCTTTGCCCATTGCAC TGCCAATTATTTGCTCTGTGTTCTGCACATACCCGACATATCTGGTAAACTGCTCACTTTTTAT TCCACTGAAATTGGCACCCTATTGTAAATGTTTTGGCTTTCAATTTGATTGACAAAATACCATG GTACCAGGCCAGTAGCCTGGATGTGATATTTTTCTCAGGACCAGTGTTATGAACCTTGAACTGA CTTTTGGCTTTACTGGAATAATTATATATTTTAAGCACTATTGTGGACTGTTTCTTATATTTGC CTTTAGTTACACACTAGTTATGTGCATTAAACATTATCCTTTGCTCTTCAGGTCCTGCCTGTGT TCCCCAGTATTGTTAATCTTCCAATAGACAAGTTTCAAAGTGCCATTTCCCGAATCTTGCAGGT TAGTCTTCGTCCTGGTATGGCAATGTTTTTGTTTGAGTCAGTTTTCAGATGATTCGTTAATTGT GGTTTGAAAATAAAGCACTAGCTTGAGACTTGAGTTCATTTGGCTGAGAGATAAATGGAACCTT ACAAATGTATTATTGTCCTGCTGAAGTTTCTTGTTAAATAACAAGTCTGTCACCTCTTTTAGGA CTTGAACTTTTCAAGTAACTTATACTTAGATTTATGTTACTGATTCATTTCCTTCGAGCATTGC ATACTAATCACACATCATCCCTTTTACTGCAGGGATCACCTCGGAATGGCCCTTCACTTGATCC ATCAGAAATTTTAATTGCAATTCATGTAATAGCTCCTGATAAGGAAGGAATACCACTCAAAAAG GTCTGCTAGTTTCTAGTTTTGGTTTACAACTGAAGGAGAACCCAATTTAATCAATTGAACCATT CATATAATTTATTATAGGTTATGGATGCATGCTCTTCTTGCTTTGAGCAAAGAACAATATTTAC CCAGCAAGTTCTGGCAAAAGCACTAAATCAACTGGTATTTATTTCTGGGCATAGTTCTTTTCCA TAGTATATTCCTTATGATATGCAGTTGATCAAAATAAACTTCTCTACAGGTTGAACAGATTCCT CTTCCTTTGCTATTCATGAGGACTGTCATGCAAGCAATAGGTGTTTTTCCTGCATTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.114254961

Conservation Information
Conserved circRNAs	NA
PMCS	0.114254961

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							180363576-180363800(+)
180361884-180363648(-)
						
						Potential amino acid sequence
						
							MDACSSCFEQRTIFTQQVLAKALNQLVEQIPLPLLFMRTVMQAIGVFPALVLQTLTDAAVPSKD
LISSIKILYSKTKDVEFLFAILVHLPKDEVLPVFPSIVNLPIDKFQSAISRILQGSPRNGPSLD
PSEILIAIHVIAPDKEGIPLKKVMDACSSCFEQRTIFTQQVLAKALNQLVEQIPLPLLFMRTVM
QAIGVFPALVLQTLTDAAVPSKDLISSIKILYSKTKDVEFLFAILVHLPKDEVLPVFPSIVNLP
IDKFQSAISRILQGSPRNGPSLDPSEILIAIHVIAPDKEGIPLKKVMDACSSCFEQRTIFTQQV
LAKALNQLVEQIPLPLLFMRTVMQAIGVFPALVLQTLTDAAVPSKDLISSIKILYSKTKDVEFL
FAILVHLPKDEVLPVFPSIVNLPIDKFQSAISRILQGSPRNGPSLDPSEILIAIHVIAPDKEGI
PLKKVMDACSSCFEQRTIFTQQVLAKALNQLVEQIPLPLLFMRTVMQAIGVFPAL(+)
MEEIRSLDGTAASVRVCKTNAGKTPIACMTVLMNSKGRGICSTS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	180363576-180363800(+) 180361884-180363648(-)
Potential amino acid sequence	MDACSSCFEQRTIFTQQVLAKALNQLVEQIPLPLLFMRTVMQAIGVFPALVLQTLTDAAVPSKD LISSIKILYSKTKDVEFLFAILVHLPKDEVLPVFPSIVNLPIDKFQSAISRILQGSPRNGPSLD PSEILIAIHVIAPDKEGIPLKKVMDACSSCFEQRTIFTQQVLAKALNQLVEQIPLPLLFMRTVM QAIGVFPALVLQTLTDAAVPSKDLISSIKILYSKTKDVEFLFAILVHLPKDEVLPVFPSIVNLP IDKFQSAISRILQGSPRNGPSLDPSEILIAIHVIAPDKEGIPLKKVMDACSSCFEQRTIFTQQV LAKALNQLVEQIPLPLLFMRTVMQAIGVFPALVLQTLTDAAVPSKDLISSIKILYSKTKDVEFL FAILVHLPKDEVLPVFPSIVNLPIDKFQSAISRILQGSPRNGPSLDPSEILIAIHVIAPDKEGI PLKKVMDACSSCFEQRTIFTQQVLAKALNQLVEQIPLPLLFMRTVMQAIGVFPAL(+) MEEIRSLDGTAASVRVCKTNAGKTPIACMTVLMNSKGRGICSTS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d022586_circ_g.4

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