Plant Circular RNA Database

Detail information of Zm00001d031265_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d031265_circ_g.1
					
						ID in PlantcircBase
						zma_circ_006698
					
						Alias
						zma_circ_0000329, GRMZM2G136366_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 184292197-184292893  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d031265						
					
						Parent gene annotation
						
							S-adenosyl-L-methionine-dependent methyltransferases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						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  
						
							CT-AC							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
						Zm00001d031265_T024:2
Zm00001d031265_T022:2
Zm00001d031265_T028:3
Zm00001d031265_T030:2
Zm00001d031265_T031:2
Zm00001d031265_T014:2
Zm00001d031265_T011:2
Zm00001d031265_T033:2
Zm00001d031265_T032:3
Zm00001d031265_T034:2
Zm00001d031265_T019:3
Zm00001d031265_T027:2
Zm00001d031265_T026:2
Zm00001d031265_T029:3
Zm00001d031265_T018:3
Zm00001d031265_T004:2
Zm00001d031265_T001:2
Zm00001d031265_T016:3
Zm00001d031265_T009:2
Zm00001d031265_T006:2
Zm00001d031265_T010:2
Zm00001d031265_T002:3
Zm00001d031265_T007:3
Zm00001d031265_T021:2
Zm00001d031265_T020:2
Zm00001d031265_T035:2
Zm00001d031265_T017:2
Zm00001d031265_T005:3
Zm00001d031265_T003:3
Zm00001d031265_T012:3
Zm00001d031265_T015:2
Zm00001d031265_T037:2
Zm00001d031265_T008:3
Zm00001d031265_T036:2
Zm00001d031265_T013:2
Zm00001d031265_T025:3

General Information
CircRNA Name	Zm00001d031265_circ_g.1
ID in PlantcircBase	zma_circ_006698
Alias	zma_circ_0000329, GRMZM2G136366_C1
Organism	Zea mays
Position	chr1: 184292197-184292893 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d031265
Parent gene annotation	S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, root
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	CT-AC 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	Zm00001d031265_T024:2 Zm00001d031265_T022:2 Zm00001d031265_T028:3 Zm00001d031265_T030:2 Zm00001d031265_T031:2 Zm00001d031265_T014:2 Zm00001d031265_T011:2 Zm00001d031265_T033:2 Zm00001d031265_T032:3 Zm00001d031265_T034:2 Zm00001d031265_T019:3 Zm00001d031265_T027:2 Zm00001d031265_T026:2 Zm00001d031265_T029:3 Zm00001d031265_T018:3 Zm00001d031265_T004:2 Zm00001d031265_T001:2 Zm00001d031265_T016:3 Zm00001d031265_T009:2 Zm00001d031265_T006:2 Zm00001d031265_T010:2 Zm00001d031265_T002:3 Zm00001d031265_T007:3 Zm00001d031265_T021:2 Zm00001d031265_T020:2 Zm00001d031265_T035:2 Zm00001d031265_T017:2 Zm00001d031265_T005:3 Zm00001d031265_T003:3 Zm00001d031265_T012:3 Zm00001d031265_T015:2 Zm00001d031265_T037:2 Zm00001d031265_T008:3 Zm00001d031265_T036:2 Zm00001d031265_T013:2 Zm00001d031265_T025:3

			
						 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  
						
							CTGCTCCATGGTTTGTTACTATTAGGTTGGCGGTGCACATTCTCTTTGTATTATGGATAAGGAG
GTCACATCTTCGCATATTGAGATCGTTGGCTATCACctcagctatgacagcttcattttcaaca
ggattcaatgaacaagtcgaatagaccatccttccacccactttaagtaacgcaataccttaag
aaataaaa

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 396
Transcript exons: 184292197-184292282,184292501-184292556,184292640-184292
893
CTCAGCTATGACAGCTTCATTTTCAACAGGATTCAATGAACAAGTCGAATAGACCATCCTTCCA
CCCACTTTAAGTAACGCAATACCACGCATTGCAATATTTACTTGCAGAAGATGAAGTTGGTTAC
CCATGCCTGAGTTCCACTTTCTCCACATGTCATGACCCTTGCGAATAGTCCCATCACCACTACA
CGGAACATCACAAAGTATGCGGTCGAATTCTAGCTTTTGTAGTTTGCAGGGATCTTTATATGAA
CCTGAACAATCCTTTGCAAGAGAACAATAGGGGAAGTTTTCTGCTCCATGGTTTGTTACTATTA
GGTTGGCGGTGCACATTCTCTTTGTATTATGGATAAGGAGGTCACATCTTCGCATATTGAGATC
GTTGGCTATCAC
						
						Genomic sequence
						
							CTCAGCTATGACAGCTTCATTTTCAACAGGATTCAATGAACAAGTCGAATAGACCATCCTTCCA
CCCACTTTAAGTAACGCAATACCTTAAGAAATAAAATAAAACTGTGATATTACATACTGTTAAC
CTTAAAGCTTCAAATCATATATTTTGCTCCCAAACTGTGATATATTATGCAGTAGAAATCCTCA
CAAATTTCCAGGTAGGTATGTTTAAAACCTCATGGTATACTATGATTACTTGATTAGAATGAAA
AAAAAACACCCCCAACAAAGTGTCAAATCAATATAAACAGATCCATACCACGCATTGCAATATT
TACTTGCAGAAGATGAAGTTGGTTACCCATGCCTGAGTTCCTGAACAACAATAACAGATTGCGA
CCTGAGGATACATACAGGGAAGCATAAAACAGCAGACAAAACAAAGATCCTGTTATTACCACTT
TCTCCACATGTCATGACCCTTGCGAATAGTCCCATCACCACTACACGGAACATCACAAAGTATG
CGGTCGAATTCTAGCTTTTGTAGTTTGCAGGGATCTTTATATGAACCTGAACAATCCTTTGCAA
GAGAACAATAGGGGAAGTTTTCTGCTCCATGGTTTGTTACTATTAGGTTGGCGGTGCACATTCT
CTTTGTATTATGGATAAGGAGGTCACATCTTCGCATATTGAGATCGTTGGCTATCAC

Sequences
Splice junction sequence	CTGCTCCATGGTTTGTTACTATTAGGTTGGCGGTGCACATTCTCTTTGTATTATGGATAAGGAG GTCACATCTTCGCATATTGAGATCGTTGGCTATCACctcagctatgacagcttcattttcaaca ggattcaatgaacaagtcgaatagaccatccttccacccactttaagtaacgcaataccttaag aaataaaa
Assembled circRNA sequence	Yes 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	Transcript length: 396 Transcript exons: 184292197-184292282,184292501-184292556,184292640-184292 893 CTCAGCTATGACAGCTTCATTTTCAACAGGATTCAATGAACAAGTCGAATAGACCATCCTTCCA CCCACTTTAAGTAACGCAATACCACGCATTGCAATATTTACTTGCAGAAGATGAAGTTGGTTAC CCATGCCTGAGTTCCACTTTCTCCACATGTCATGACCCTTGCGAATAGTCCCATCACCACTACA CGGAACATCACAAAGTATGCGGTCGAATTCTAGCTTTTGTAGTTTGCAGGGATCTTTATATGAA CCTGAACAATCCTTTGCAAGAGAACAATAGGGGAAGTTTTCTGCTCCATGGTTTGTTACTATTA GGTTGGCGGTGCACATTCTCTTTGTATTATGGATAAGGAGGTCACATCTTCGCATATTGAGATC GTTGGCTATCAC
Genomic sequence	CTCAGCTATGACAGCTTCATTTTCAACAGGATTCAATGAACAAGTCGAATAGACCATCCTTCCA CCCACTTTAAGTAACGCAATACCTTAAGAAATAAAATAAAACTGTGATATTACATACTGTTAAC CTTAAAGCTTCAAATCATATATTTTGCTCCCAAACTGTGATATATTATGCAGTAGAAATCCTCA CAAATTTCCAGGTAGGTATGTTTAAAACCTCATGGTATACTATGATTACTTGATTAGAATGAAA AAAAAACACCCCCAACAAAGTGTCAAATCAATATAAACAGATCCATACCACGCATTGCAATATT TACTTGCAGAAGATGAAGTTGGTTACCCATGCCTGAGTTCCTGAACAACAATAACAGATTGCGA CCTGAGGATACATACAGGGAAGCATAAAACAGCAGACAAAACAAAGATCCTGTTATTACCACTT TCTCCACATGTCATGACCCTTGCGAATAGTCCCATCACCACTACACGGAACATCACAAAGTATG CGGTCGAATTCTAGCTTTTGTAGTTTGCAGGGATCTTTATATGAACCTGAACAATCCTTTGCAA GAGAACAATAGGGGAAGTTTTCTGCTCCATGGTTTGTTACTATTAGGTTGGCGGTGCACATTCT CTTTGTATTATGGATAAGGAGGTCACATCTTCGCATATTGAGATCGTTGGCTATCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.140322342

Conservation Information
Conserved circRNAs	NA
PMCS	0.140322342

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							184292847-184292232(+)
184292874-184292199(-)
						
						Potential amino acid sequence
						
							MDKEVTSSHIEIVGYHLSYDSFIFNRIQ*(+)
MRRCDLLIHNTKRMCTANLIVTNHGAENFPYCSLAKDCSGSYKDPCKLQKLEFDRILCDVPCSG
DGTIRKGHDMWRKWNSGMGNQLHLLQVNIAMRGIALLKVGGRMVYSTCSLNPVENEAVIAEVIA
NDLNMRRCDLLIHNTKRMCTANLIVTNHGAENFPYCSLAKDCSGSYKDPCKLQKLEFDRILCDV
PCSGDGTIRKGHDMWRKWNSGMGNQLHLLQVNIAMRGIALLKVGGRMVYSTCSLNPVENEAVIA
EVIANDLNMRRCDLLIHNTKRMCTANLIVTNHGAENFPYCSLAKDCSGSYKDPCKLQKLEFDRI
LCDVPCSGDGTIRKGHDMWRKWNSGMGNQLHLLQVNIAMRGIALLKVGGRMVYSTCSLNPVENE
AVIAEVIANDLNMRRCDLLIHNTKRMCTANLIVTNHGAENFPYCSLAKDCSGSYKDPCKLQKLE
FDRILCDVPCSGDGTIRKGHDMWRKWNSGMGNQLHLLQVNIAMRGIALLKVGGRMVYSTCSLNP
VENEAVIAE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	184292847-184292232(+) 184292874-184292199(-)
Potential amino acid sequence	MDKEVTSSHIEIVGYHLSYDSFIFNRIQ*(+) MRRCDLLIHNTKRMCTANLIVTNHGAENFPYCSLAKDCSGSYKDPCKLQKLEFDRILCDVPCSG DGTIRKGHDMWRKWNSGMGNQLHLLQVNIAMRGIALLKVGGRMVYSTCSLNPVENEAVIAEVIA NDLNMRRCDLLIHNTKRMCTANLIVTNHGAENFPYCSLAKDCSGSYKDPCKLQKLEFDRILCDV PCSGDGTIRKGHDMWRKWNSGMGNQLHLLQVNIAMRGIALLKVGGRMVYSTCSLNPVENEAVIA EVIANDLNMRRCDLLIHNTKRMCTANLIVTNHGAENFPYCSLAKDCSGSYKDPCKLQKLEFDRI LCDVPCSGDGTIRKGHDMWRKWNSGMGNQLHLLQVNIAMRGIALLKVGGRMVYSTCSLNPVENE AVIAEVIANDLNMRRCDLLIHNTKRMCTANLIVTNHGAENFPYCSLAKDCSGSYKDPCKLQKLE FDRILCDVPCSGDGTIRKGHDMWRKWNSGMGNQLHLLQVNIAMRGIALLKVGGRMVYSTCSLNP VENEAVIAE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d031265_circ_g.1

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