Plant Circular RNA Database

Detail information of Zm00001d002640_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d002640_circ_g.5
					
						ID in PlantcircBase
						zma_circ_007083
					
						Alias
						zma_circ_0000847, GRMZM2G125585_C2
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 17724411-17726032  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d002640						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d002640_circ_g.1 Zm00001d002640_circ_g.2 Zm00001d002640_circ_g.3 Zm00001d002640_circ_g.4 						
					
						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  
						
							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
						Zm00001d002640_T027:3
Zm00001d002640_T030:3
Zm00001d002640_T004:3
Zm00001d002640_T037:3
Zm00001d002640_T018:3
Zm00001d002640_T019:3
Zm00001d002640_T002:3
Zm00001d002640_T042:3
Zm00001d002640_T028:3
Zm00001d002640_T029:3
Zm00001d002640_T025:3
Zm00001d002640_T046:3
Zm00001d002640_T014:3
Zm00001d002640_T035:3
Zm00001d002640_T015:3
Zm00001d002640_T006:3
Zm00001d002640_T039:3
Zm00001d002640_T026:3
Zm00001d002640_T040:3
Zm00001d002640_T044:3
Zm00001d002640_T011:3
Zm00001d002640_T003:3
Zm00001d002640_T001:3
Zm00001d002640_T022:3
Zm00001d002640_T033:3

General Information
CircRNA Name	Zm00001d002640_circ_g.5
ID in PlantcircBase	zma_circ_007083
Alias	zma_circ_0000847, GRMZM2G125585_C2
Organism	Zea mays
Position	chr2: 17724411-17726032 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d002640
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Zm00001d002640_circ_g.1 Zm00001d002640_circ_g.2 Zm00001d002640_circ_g.3 Zm00001d002640_circ_g.4
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	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	Zm00001d002640_T027:3 Zm00001d002640_T030:3 Zm00001d002640_T004:3 Zm00001d002640_T037:3 Zm00001d002640_T018:3 Zm00001d002640_T019:3 Zm00001d002640_T002:3 Zm00001d002640_T042:3 Zm00001d002640_T028:3 Zm00001d002640_T029:3 Zm00001d002640_T025:3 Zm00001d002640_T046:3 Zm00001d002640_T014:3 Zm00001d002640_T035:3 Zm00001d002640_T015:3 Zm00001d002640_T006:3 Zm00001d002640_T039:3 Zm00001d002640_T026:3 Zm00001d002640_T040:3 Zm00001d002640_T044:3 Zm00001d002640_T011:3 Zm00001d002640_T003:3 Zm00001d002640_T001:3 Zm00001d002640_T022:3 Zm00001d002640_T033:3

			
						 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  
						
							GAGGAAACTTATTGAGCCTACGGTTCCTGAAGAAAAGGTTGCTATGAAGTTGAACAATTTGGCA
GTGCCCAAATTATGTGTGAAACTCAACACTCTTCAAgattggacacctttatcagctcacgaga
aacaagcaagatctgtggttgaagtattccggattgtggaggaggttagtttttttaattggct
cagaagtt

									
								

					

						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: 363
Transcript exons: 17724411-17724482,17724986-17725103,17725860-17726032
GATTGGACACCTTTATCAGCTCACGAGAAACAAGCAAGATCTGTGGTTGAAGTATTCCGGATTG
TGGAGGAGACTGTTGATCAGTTCTTTAATACGAGCCTGCCCCTGGAAATTGTCCACTTGCGAAG
TCTACTCATCGGAATCACTAGGAGTCTTGAAGTCTATTTGCTTCACATGGAAAATCAACAAGTG
CCTGGATCTACTCTTCTCCCTAGTGCTCCAGTCTTGACACGTTATGCAGAATCAATGAATCCAT
TTGCAAAGAGGAAACTTATTGAGCCTACGGTTCCTGAAGAAAAGGTTGCTATGAAGTTGAACAA
TTTGGCAGTGCCCAAATTATGTGTGAAACTCAACACTCTTCAA
						
					

						Genomic sequence
						
							GATTGGACACCTTTATCAGCTCACGAGAAACAAGCAAGATCTGTGGTTGAAGTATTCCGGATTG
TGGAGGAGGTTAGTTTTTTTAATTGGCTCAGAAGTTTTTGCACAATCTGAAGTTTCTGCACAAT
ATGCTCCTTACTCTCAAGAGGGTGCACAATATCTGAGCGTCCATCTTGAAGGCAGAAGTTTTCT
GTTAATATTTTTTTGATTACCTTTTGAACCAGTGCTTTGATTATAAAACTGAAAATTATGCTTT
GTTGAATCATTGTTCATTAGTGTGCTTAATATTCCCTCTAATTCTAGATGTTAGTCATTTCAGG
ACATTGCCACTGTCTATGAGATTAAATTTTGATTAGCAATTTTTATAGAATTGTAATAATTCAT
AGAGATAATTATTATGGAATTACTTATGCTGTAAATCTAGTTAGATTTTTAGCTAAGTCAAAGC
TTAAAAATGTTTGACTTAGGACAAACCTAAAATGACCTACATTTAGAATCAGGGGGGAGTATAT
GCATATTTTAACTATTACTCTGATTCTTCTTTGGGTTCTTATATTTTATCATTTTATGTGCAGA
CTGTTGATCAGTTCTTTAATACGAGCCTGCCCCTGGAAATTGTCCACTTGCGAAGTCTACTCAT
CGGAATCACTAGGAGTCTTGAAGTCTATTTGCTTCACATGGAAAATCAACAAGGTATGTATCAG
GTTTTGGATATATAGTGAATTGACTATCTTGGGTAATTGTTTTTGTTACACAGGCTGTTAAGCT
AATATGAATTGCACACGTGCATACGTGTATACATACACATACAATGGTGTTCGCTGCAGACCTG
CCAGGCATGGTGCCTTTCCTGTCTACTGTAGCGAGACCATCTACCAACTATACTCCTATACTGT
TTACTGTTGCTGACCATCTTGCCTATCAATCAAAAGAGCAAAGAGCTGACCTATATATATCAGT
AGCAACTACTAATGCTCTTGACGATGAAGAACACATGGATTACTTATCTATCAACATGTATTAA
CTATTGCTATTGAAAACTCTTCTGTAAATACTCACATTCTTCTCTTTTGTTAGTTTTCTTCAGA
ACACCTTGTTATGCAAATATTTTCCTATTTTCTTGATAGCAGTGGACCTGAACCTTAAAGTTAG
CATCATTCCTTGATAGGTTATCCATTATCGAATACTGAGGTCAGAAACATCAGCATAAGCATCG
ATGGTTCTGTTTTTATAATGCTGAATTTACATATTTCAAATGATTTGTTGAGTGCTGCACTTTT
TTGGGGGTGCCAGAAGAAGTGGCATGCCCTTTTGCATACCTTTTAAGTAGCAATATACCTTTTA
CTATACATCAACTTTCACATGGGGTTACCTTATTCTTGCCTTACAAATAATATCTTTTCAGAAG
AACCATGAAATAACTGTATTTATGTTGTCTTCCTGTTGCAGTGCCTGGATCTACTCTTCTCCCT
AGTGCTCCAGTCTTGACACGTTATGCAGAATCAATGAATCCATTTGCAAAGAGGAAACTTATTG
AGCCTACGGTTCCTGAAGAAAAGGTTGCTATGAAGTTGAACAATTTGGCAGTGCCCAAATTATG
TGTGAAACTCAACACTCTTCAA
						
					

			
		

Sequences
Splice junction sequence	GAGGAAACTTATTGAGCCTACGGTTCCTGAAGAAAAGGTTGCTATGAAGTTGAACAATTTGGCA GTGCCCAAATTATGTGTGAAACTCAACACTCTTCAAgattggacacctttatcagctcacgaga aacaagcaagatctgtggttgaagtattccggattgtggaggaggttagtttttttaattggct cagaagtt
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: 363 Transcript exons: 17724411-17724482,17724986-17725103,17725860-17726032 GATTGGACACCTTTATCAGCTCACGAGAAACAAGCAAGATCTGTGGTTGAAGTATTCCGGATTG TGGAGGAGACTGTTGATCAGTTCTTTAATACGAGCCTGCCCCTGGAAATTGTCCACTTGCGAAG TCTACTCATCGGAATCACTAGGAGTCTTGAAGTCTATTTGCTTCACATGGAAAATCAACAAGTG CCTGGATCTACTCTTCTCCCTAGTGCTCCAGTCTTGACACGTTATGCAGAATCAATGAATCCAT TTGCAAAGAGGAAACTTATTGAGCCTACGGTTCCTGAAGAAAAGGTTGCTATGAAGTTGAACAA TTTGGCAGTGCCCAAATTATGTGTGAAACTCAACACTCTTCAA
Genomic sequence	GATTGGACACCTTTATCAGCTCACGAGAAACAAGCAAGATCTGTGGTTGAAGTATTCCGGATTG TGGAGGAGGTTAGTTTTTTTAATTGGCTCAGAAGTTTTTGCACAATCTGAAGTTTCTGCACAAT ATGCTCCTTACTCTCAAGAGGGTGCACAATATCTGAGCGTCCATCTTGAAGGCAGAAGTTTTCT GTTAATATTTTTTTGATTACCTTTTGAACCAGTGCTTTGATTATAAAACTGAAAATTATGCTTT GTTGAATCATTGTTCATTAGTGTGCTTAATATTCCCTCTAATTCTAGATGTTAGTCATTTCAGG ACATTGCCACTGTCTATGAGATTAAATTTTGATTAGCAATTTTTATAGAATTGTAATAATTCAT AGAGATAATTATTATGGAATTACTTATGCTGTAAATCTAGTTAGATTTTTAGCTAAGTCAAAGC TTAAAAATGTTTGACTTAGGACAAACCTAAAATGACCTACATTTAGAATCAGGGGGGAGTATAT GCATATTTTAACTATTACTCTGATTCTTCTTTGGGTTCTTATATTTTATCATTTTATGTGCAGA CTGTTGATCAGTTCTTTAATACGAGCCTGCCCCTGGAAATTGTCCACTTGCGAAGTCTACTCAT CGGAATCACTAGGAGTCTTGAAGTCTATTTGCTTCACATGGAAAATCAACAAGGTATGTATCAG GTTTTGGATATATAGTGAATTGACTATCTTGGGTAATTGTTTTTGTTACACAGGCTGTTAAGCT AATATGAATTGCACACGTGCATACGTGTATACATACACATACAATGGTGTTCGCTGCAGACCTG CCAGGCATGGTGCCTTTCCTGTCTACTGTAGCGAGACCATCTACCAACTATACTCCTATACTGT TTACTGTTGCTGACCATCTTGCCTATCAATCAAAAGAGCAAAGAGCTGACCTATATATATCAGT AGCAACTACTAATGCTCTTGACGATGAAGAACACATGGATTACTTATCTATCAACATGTATTAA CTATTGCTATTGAAAACTCTTCTGTAAATACTCACATTCTTCTCTTTTGTTAGTTTTCTTCAGA ACACCTTGTTATGCAAATATTTTCCTATTTTCTTGATAGCAGTGGACCTGAACCTTAAAGTTAG CATCATTCCTTGATAGGTTATCCATTATCGAATACTGAGGTCAGAAACATCAGCATAAGCATCG ATGGTTCTGTTTTTATAATGCTGAATTTACATATTTCAAATGATTTGTTGAGTGCTGCACTTTT TTGGGGGTGCCAGAAGAAGTGGCATGCCCTTTTGCATACCTTTTAAGTAGCAATATACCTTTTA CTATACATCAACTTTCACATGGGGTTACCTTATTCTTGCCTTACAAATAATATCTTTTCAGAAG AACCATGAAATAACTGTATTTATGTTGTCTTCCTGTTGCAGTGCCTGGATCTACTCTTCTCCCT AGTGCTCCAGTCTTGACACGTTATGCAGAATCAATGAATCCATTTGCAAAGAGGAAACTTATTG AGCCTACGGTTCCTGAAGAAAAGGTTGCTATGAAGTTGAACAATTTGGCAGTGCCCAAATTATG TGTGAAACTCAACACTCTTCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.069073923

Conservation Information
Conserved circRNAs	NA
PMCS	0.069073923

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17725089-17726029(+)
17726009-17724457(+)
						
						Potential amino acid sequence
						
							MENQQVPGSTLLPSAPVLTRYAESMNPFAKRKLIEPTVPEEKVAMKLNNLAVPKLCVKLNTLQD
WTPLSAHEKQARSVVEVFRIVEETVDQFFNTSLPLEIVHLRSLLIGITRSLEVYLLHMENQQVP
GSTLLPSAPVLTRYAESMNPFAKRKLIEPTVPEEKVAMKLNNLAVPKLCVKLNTLQDWTPLSAH
EKQARSVVEVFRIVEETVDQFFNTSLPLEIVHLRSLLIGITRSLEVYLLHMENQQVPGSTLLPS
APVLTRYAESMNPFAKRKLIEPTVPEEKVAMKLNNLAVPKLCVKLNTLQDWTPLSAHEKQARSV
VEVFRIVEETVDQFFNTSLPLEIVHLRSLLIGITRSLEVYLLHMENQQVPGSTLLPSAPVLTRY
AESMNPFAKRKLIEPTVPEEKVAMKLNNLAVPKLCVKLNTLQ(+)
MCETQHSSRLDTFISSRETSKICG*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	17725089-17726029(+) 17726009-17724457(+)
Potential amino acid sequence	MENQQVPGSTLLPSAPVLTRYAESMNPFAKRKLIEPTVPEEKVAMKLNNLAVPKLCVKLNTLQD WTPLSAHEKQARSVVEVFRIVEETVDQFFNTSLPLEIVHLRSLLIGITRSLEVYLLHMENQQVP GSTLLPSAPVLTRYAESMNPFAKRKLIEPTVPEEKVAMKLNNLAVPKLCVKLNTLQDWTPLSAH EKQARSVVEVFRIVEETVDQFFNTSLPLEIVHLRSLLIGITRSLEVYLLHMENQQVPGSTLLPS APVLTRYAESMNPFAKRKLIEPTVPEEKVAMKLNNLAVPKLCVKLNTLQDWTPLSAHEKQARSV VEVFRIVEETVDQFFNTSLPLEIVHLRSLLIGITRSLEVYLLHMENQQVPGSTLLPSAPVLTRY AESMNPFAKRKLIEPTVPEEKVAMKLNNLAVPKLCVKLNTLQ(+) MCETQHSSRLDTFISSRETSKICG*(+)
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 Zm00001d002640_circ_g.5

Address

Any questions?

Supported by