Plant Circular RNA Database

Detail information of Zm00001d030266_circ_g.8

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d030266_circ_g.8
					

						ID in PlantcircBase
						zma_circ_006604
					

						Alias
						Zm01circ00092, zma_circ_0000241, GRMZM2G326643_C4
					

						Organism
						
							Zea mays						
					

						Position
						
							chr1: 117667249-117667887  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI2, find_circ
					

						Parent gene
						
							Zm00001d030266						
					

						Parent gene annotation
						
							Callose synthase 10
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d030266_circ_g.2 Zm00001d030266_circ_g.3 Zm00001d030266_circ_g.4 Zm00001d030266_circ_g.5 Zm00001d030266_circ_g.6 Zm00001d030266_circ_g.7 Zm00001d030266_circ_g.9 Zm00001d030266_circ_g.10 Zm00001d030266_circ_g.11 Zm00001d030266_circ_g.12 Zm00001d030266_circ_g.13 						
					

						Support reads
						NA
					

						Tissues
						leaf, endosperm, 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  
						
							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
						Zm00001d030266_T005:3
Zm00001d030266_T074:3
Zm00001d030266_T041:3
Zm00001d030266_T052:3
Zm00001d030266_T007:3
Zm00001d030266_T013:3
Zm00001d030266_T092:3
Zm00001d030266_T001:3
Zm00001d030266_T050:3
Zm00001d030266_T057:3
Zm00001d030266_T072:3
Zm00001d030266_T054:3
Zm00001d030266_T090:3
Zm00001d030266_T023:3
Zm00001d030266_T069:3
Zm00001d030266_T032:3
Zm00001d030266_T028:3
Zm00001d030266_T021:3
Zm00001d030266_T066:3
Zm00001d030266_T004:3
Zm00001d030266_T036:3
Zm00001d030266_T035:3
Zm00001d030266_T019:3
Zm00001d030266_T033:3
Zm00001d030266_T059:3
Zm00001d030266_T089:3
Zm00001d030266_T061:3
Zm00001d030266_T014:3
Zm00001d030266_T048:3
Zm00001d030266_T016:3
Zm00001d030266_T011:3
Zm00001d030266_T027:3
Zm00001d030266_T077:3
Zm00001d030266_T085:3
Zm00001d030266_T088:3
Zm00001d030266_T047:3
Zm00001d030266_T079:3
Zm00001d030266_T045:3
Zm00001d030266_T025:3
Zm00001d030266_T064:3
Zm00001d030266_T080:3
Zm00001d030266_T081:3
Zm00001d030266_T008:3
Zm00001d030266_T068:3
Zm00001d030266_T063:3
Zm00001d030266_T031:3
Zm00001d030266_T093:3
Zm00001d030266_T056:3
Zm00001d030266_T087:3
Zm00001d030266_T018:3
Zm00001d030266_T039:3
Zm00001d030266_T073:3
Zm00001d030266_T083:3

					

			
		

General Information
CircRNA Name	Zm00001d030266_circ_g.8
ID in PlantcircBase	zma_circ_006604
Alias	Zm01circ00092, zma_circ_0000241, GRMZM2G326643_C4
Organism	Zea mays
Position	chr1: 117667249-117667887 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d030266
Parent gene annotation	Callose synthase 10
Parent gene strand	+
Alternative splicing	Zm00001d030266_circ_g.2 Zm00001d030266_circ_g.3 Zm00001d030266_circ_g.4 Zm00001d030266_circ_g.5 Zm00001d030266_circ_g.6 Zm00001d030266_circ_g.7 Zm00001d030266_circ_g.9 Zm00001d030266_circ_g.10 Zm00001d030266_circ_g.11 Zm00001d030266_circ_g.12 Zm00001d030266_circ_g.13
Support reads	NA
Tissues	leaf, endosperm, 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	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	Zm00001d030266_T005:3 Zm00001d030266_T074:3 Zm00001d030266_T041:3 Zm00001d030266_T052:3 Zm00001d030266_T007:3 Zm00001d030266_T013:3 Zm00001d030266_T092:3 Zm00001d030266_T001:3 Zm00001d030266_T050:3 Zm00001d030266_T057:3 Zm00001d030266_T072:3 Zm00001d030266_T054:3 Zm00001d030266_T090:3 Zm00001d030266_T023:3 Zm00001d030266_T069:3 Zm00001d030266_T032:3 Zm00001d030266_T028:3 Zm00001d030266_T021:3 Zm00001d030266_T066:3 Zm00001d030266_T004:3 Zm00001d030266_T036:3 Zm00001d030266_T035:3 Zm00001d030266_T019:3 Zm00001d030266_T033:3 Zm00001d030266_T059:3 Zm00001d030266_T089:3 Zm00001d030266_T061:3 Zm00001d030266_T014:3 Zm00001d030266_T048:3 Zm00001d030266_T016:3 Zm00001d030266_T011:3 Zm00001d030266_T027:3 Zm00001d030266_T077:3 Zm00001d030266_T085:3 Zm00001d030266_T088:3 Zm00001d030266_T047:3 Zm00001d030266_T079:3 Zm00001d030266_T045:3 Zm00001d030266_T025:3 Zm00001d030266_T064:3 Zm00001d030266_T080:3 Zm00001d030266_T081:3 Zm00001d030266_T008:3 Zm00001d030266_T068:3 Zm00001d030266_T063:3 Zm00001d030266_T031:3 Zm00001d030266_T093:3 Zm00001d030266_T056:3 Zm00001d030266_T087:3 Zm00001d030266_T018:3 Zm00001d030266_T039:3 Zm00001d030266_T073:3 Zm00001d030266_T083:3

			
						 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  
						
							CAGATATAAAATTTACTTATGTTGTTTCTTGCCAAATATATGGACTACAGAAGCAAACAAAAAA
ACAAGAGGCTGCAGATATTGCTCTCCTACTGCAAAGatgagtgggctaacttcttagaacgaat
tggctgtggtgaatcatcagaagatgattttaaagaaagtccaagtgacaccatggaactccgg
ttttgggt

						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: 379
Transcript exons: 117667249-117667380,117667551-117667619,117667710-117667
887
ATGAGTGGGCTAACTTCTTAGAACGAATTGGCTGTGGTGAATCATCAGAAGATGATTTTAAAGA
AAGTCCAAGTGACACCATGGAACTCCGGTTTTGGGTATCTTATCGTGGCCAAACTTTGGCCAGG
ACAGTGCGTGGAATGATGTACTATAGAAGAGCTTTGATGTTACAAAGTTACCTGGAGAGGAGAT
GCCTTGGGGGTATTGAAGATGGAAATTCTGCAGCAGAATATATTGACACTCAAGGCTATGAGTT
ATCTCCTGATGCACGGGCCCAAGCAGATATAAAATTTACTTATGTTGTTTCTTGCCAAATATAT
GGACTACAGAAGCAAACAAAAAAACAAGAGGCTGCAGATATTGCTCTCCTACTGCAAAG
						
						Genomic sequence
						
							ATGAGTGGGCTAACTTCTTAGAACGAATTGGCTGTGGTGAATCATCAGAAGATGATTTTAAAGA
AAGTCCAAGTGACACCATGGAACTCCGGTTTTGGGTATCTTATCGTGGCCAAACTTTGGCCAGG
ACAGGTGAGTTTTTTTTTCATTTCTTTTGGTTACAGTAATTGCTGAAGAAGAACAAATGGTATG
ATGTAAACATGCTACATGCTAGGCCTAAATTTTTTATTCTGATATGGTTATCTTCATCGTTTTG
TCCTGTATTTGATTGCTATGCGTCTTGATTTATTTTTTTGAGGCAGTGCGTGGAATGATGTACT
ATAGAAGAGCTTTGATGTTACAAAGTTACCTGGAGAGGAGATGCCTTGGGGGTGGGTATATAGT
TTTTGATATTTGTTACTTCAGCAATCAGCACTTGTCCTATATATATATATATATCTTAATCCTT
GCTGCTCTATCAGGTATTGAAGATGGAAATTCTGCAGCAGAATATATTGACACTCAAGGCTATG
AGTTATCTCCTGATGCACGGGCCCAAGCAGATATAAAATTTACTTATGTTGTTTCTTGCCAAAT
ATATGGACTACAGAAGCAAACAAAAAAACAAGAGGCTGCAGATATTGCTCTCCTACTGCAAAG

Sequences
Splice junction sequence	CAGATATAAAATTTACTTATGTTGTTTCTTGCCAAATATATGGACTACAGAAGCAAACAAAAAA ACAAGAGGCTGCAGATATTGCTCTCCTACTGCAAAGatgagtgggctaacttcttagaacgaat tggctgtggtgaatcatcagaagatgattttaaagaaagtccaagtgacaccatggaactccgg ttttgggt
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: 379 Transcript exons: 117667249-117667380,117667551-117667619,117667710-117667 887 ATGAGTGGGCTAACTTCTTAGAACGAATTGGCTGTGGTGAATCATCAGAAGATGATTTTAAAGA AAGTCCAAGTGACACCATGGAACTCCGGTTTTGGGTATCTTATCGTGGCCAAACTTTGGCCAGG ACAGTGCGTGGAATGATGTACTATAGAAGAGCTTTGATGTTACAAAGTTACCTGGAGAGGAGAT GCCTTGGGGGTATTGAAGATGGAAATTCTGCAGCAGAATATATTGACACTCAAGGCTATGAGTT ATCTCCTGATGCACGGGCCCAAGCAGATATAAAATTTACTTATGTTGTTTCTTGCCAAATATAT GGACTACAGAAGCAAACAAAAAAACAAGAGGCTGCAGATATTGCTCTCCTACTGCAAAG
Genomic sequence	ATGAGTGGGCTAACTTCTTAGAACGAATTGGCTGTGGTGAATCATCAGAAGATGATTTTAAAGA AAGTCCAAGTGACACCATGGAACTCCGGTTTTGGGTATCTTATCGTGGCCAAACTTTGGCCAGG ACAGGTGAGTTTTTTTTTCATTTCTTTTGGTTACAGTAATTGCTGAAGAAGAACAAATGGTATG ATGTAAACATGCTACATGCTAGGCCTAAATTTTTTATTCTGATATGGTTATCTTCATCGTTTTG TCCTGTATTTGATTGCTATGCGTCTTGATTTATTTTTTTGAGGCAGTGCGTGGAATGATGTACT ATAGAAGAGCTTTGATGTTACAAAGTTACCTGGAGAGGAGATGCCTTGGGGGTGGGTATATAGT TTTTGATATTTGTTACTTCAGCAATCAGCACTTGTCCTATATATATATATATATCTTAATCCTT GCTGCTCTATCAGGTATTGAAGATGGAAATTCTGCAGCAGAATATATTGACACTCAAGGCTATG AGTTATCTCCTGATGCACGGGCCCAAGCAGATATAAAATTTACTTATGTTGTTTCTTGCCAAAT ATATGGACTACAGAAGCAAACAAAAAAACAAGAGGCTGCAGATATTGCTCTCCTACTGCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.144759531

Conservation Information
Conserved circRNAs	NA
PMCS	0.144759531

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							117667807-117667249(+)
117667330-117667249(+)
117667332-117667879(-)
						
						Potential amino acid sequence
						
							MLFLAKYMDYRSKQKNKRLQILLSYCKDEWANFLERIGCGESSEDDFKESPSDTMELRFWVSYR
GQTLARTVRGMMYYRRALMLQSYLERRCLGGIEDGNSAAEYIDTQGYELSPDARAQADIKFTYV
VSCQIYGLQKQTKKQEAADIALLLQR*(+)
MELRFWVSYRGQTLARTVRGMMYYRRALMLQSYLERRCLGGIEDGNSAAEYIDTQGYELSPDAR
AQADIKFTYVVSCQIYGLQKQTKKQEAADIALLLQR*(+)
MVSLGLSLKSSSDDSPQPIRSKKLAHSSLQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	117667807-117667249(+) 117667330-117667249(+) 117667332-117667879(-)
Potential amino acid sequence	MLFLAKYMDYRSKQKNKRLQILLSYCKDEWANFLERIGCGESSEDDFKESPSDTMELRFWVSYR GQTLARTVRGMMYYRRALMLQSYLERRCLGGIEDGNSAAEYIDTQGYELSPDARAQADIKFTYV VSCQIYGLQKQTKKQEAADIALLLQR(+) MELRFWVSYRGQTLARTVRGMMYYRRALMLQSYLERRCLGGIEDGNSAAEYIDTQGYELSPDAR AQADIKFTYVVSCQIYGLQKQTKKQEAADIALLLQR(+) MVSLGLSLKSSSDDSPQPIRSKKLAHSSLQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d030266_circ_g.8

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