Plant Circular RNA Database

Detail information of Zm00001d024036_circ_g.3

			
						 General Information
					
						CircRNA Name
						Zm00001d024036_circ_g.3
					
						ID in PlantcircBase
						zma_circ_010194
					
						Alias
						Zm10circ00020, GRMZM2G095323_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr10: 38802073-38804476  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d024036						
					
						Parent gene annotation
						
							C2H2-like zinc finger protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d024036_circ_g.1 Zm00001d024036_circ_g.2 Zm00001d024036_circ_g.4 						
					
						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
						Zm00001d024036_T004:5
Zm00001d024036_T008:4
Zm00001d024036_T001:5
Zm00001d024036_T005:5
Zm00001d024036_T006:4
Zm00001d024036_T009:2
Zm00001d024036_T002:4
Zm00001d024036_T010:2

General Information
CircRNA Name	Zm00001d024036_circ_g.3
ID in PlantcircBase	zma_circ_010194
Alias	Zm10circ00020, GRMZM2G095323_C1
Organism	Zea mays
Position	chr10: 38802073-38804476 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d024036
Parent gene annotation	C2H2-like zinc finger protein
Parent gene strand	+
Alternative splicing	Zm00001d024036_circ_g.1 Zm00001d024036_circ_g.2 Zm00001d024036_circ_g.4
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	Zm00001d024036_T004:5 Zm00001d024036_T008:4 Zm00001d024036_T001:5 Zm00001d024036_T005:5 Zm00001d024036_T006:4 Zm00001d024036_T009:2 Zm00001d024036_T002:4 Zm00001d024036_T010:2

			
						 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  
						
							TTTTTCTGATGTAGTTTGTCCCGCAGAATTTTTCTTGCGCCAGTTTTGTGATGCTCACACTTGC
AGTAAGGGAACAAAACCTTTCCCCAAAGGTGGCAGGaattcttcaaacaaatccagacgcacat
gaggtgcattgctcaagggaaaggagccgtgcagcttgggaagctattgatgaggtagcagatg
caacctaa

									
								

					

						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
						
							AATTCTTCAAACAAATCCAGACGCACATGAGGTGCATTGCTCAAGGGAAAGGAGCCGTGCAGCT
TGGGAAGCTATTGATGAGGTAGCAGATGCAACCTAACAGTTCTGTGATTTTATATGCATTGCTG
CATCCATAACATTGTTACATGTCAACTCCCATTTCTTATGCAGTATTTGATGCCCTTCGTGGAA
AAAGAAAAATATGAACTCCCAAGCAAATGTAGACTTCGTCCTGATAATGACATGTTTCGGGAGC
AAGAGCAACATAAGATTCATTTTGATATTAATGAGTGGCACTGTGGCTTTTGCAAGAAAGCTTT
CCGAGCAGAGAAGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATGTA
TGCTTACATAACAGTGATTATATTTCTTTAGTATATGCTTACTTATCATGAATTTGATATTATT
TGTATTGTAATCACAAGCTATACCTTCTTTCATTGTAACAGCTAGTAGCCAACACAACAGTGTG
AAACAAAATATAAAAGCTTACAGTTATACACAAATGTATGACAATCTAATCCTCATGTAAACAA
TTATGATCCTCTGCAACAATTAAGTAGGACTCTATGCTTCCAAGTATTCATGGTAGGTACTGCT
CTATAATATTTGCATTTATTATCAGCATAATCAACTGTAAATTGCTGTAATGGAAGCACTCCAA
AACTGTCTTATTTTGACTTTCTATTGCATCACTGTGTAGGGTATAATTGTATAAACTTTGACAC
TGATATCATGTTGTGAGAACATTGCTGATTTTAGCAAAATATATCTTTTCTCTCTCGAAAACAC
AGGAGACTTTAGCAAACATATCTTGTTAAGTGAATAATGAAATATTTTCAACTTGGTGACAAAT
TTGACAATCAGTGCTTGCATTGTGTAGATCCTTGAATATAAAATAAGGTTTTGTTTTCAGCTGG
TCACTTGAAAAAGAACACGAGGATTACTGGACAGCTCTTTTTTCACACTAATTTGCACTACAGT
TTTCAACATACGCGTGATGGTGCGTATGCGTTTCATCATGTGCTTTTCTATTCCAAAATCCAAA
GGCACATGTGTGTTTTATGTAAAGCTGTGATTGTGTTGGGCTTGCGTGGGTTCTAAACCTCTTA
ATATTAGCTCTCCTTTGTGTTTGAAAAAAACATTTGTTTCGTGGTCATACAATGTATTCTTCAT
CGACTCCATTTGAAAAATGTAAATTGTAACTTTCATTCTCGAGCGACAGTTCTATAAGATACAT
AAAGCTGTCTAGCTAAGTTTCATTAATTTCAGATGAAGCCAACTAATGAGATGTTATGTATAAC
CCAAAACTGTAACTGATTTAAAGTAATCTGCTTTCTTGCCGGAAAAGAGAAGAGATAGGAAGAG
CCTTTTTATAATTTATAAACCTTTTTTTTTGTCTATGCACTTAAAGGTACCAAGTTAACTTGTT
TTATTTATACTGGTTGATGCAACTTTATGTTACTGCACATGAGGTGTGTAGGTGGCTGTATTTC
TCTTAATCAAAAAGTTATTTACCATCCGTAAAGTAATAGATTCTGATCTATTTTCTTAGAGTGA
AGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTGATGATGCAGTTCAAAAAA
CCAAAAAGTAAATGCAATGCAGCTGCAGCTACAAGGAATCGTCATCTTTGTGAGGTTCTTATCA
TTTTTTTTGTATCTGATATAAATTTGTTTGGTTGGTTGGGTTTCTGCTATTCTGGTAGCGTGCA
AGATACCAATCCTTTTCTGATAACTTGATTGTGCATTTTTAGCTTGTGCTGTTTGTGTCATGTT
TTGGTTTTCTGTATGATATTCTGCATATTTTAGGTCTTCATTAAACAGAGTTCCACATATTCTA
TGCTTCTTTAAAATCACTGTTTTTATTGTGAATGTGATACTGATAAGCAGCAGTTCATACAAGC
AGGAACACTTGACCCTGGCCAAACCATGACTTTTGCTAGTTTTGTCTTGTACTTTGTTTCATAT
GGCAAACAATAAATGTGTTATTTAGCTAGCTTCTACATGTGTTTGTGAGATAGCAAGCAACATG
TAACTCCCTACATTTACGACAGAGCCTTGCAGACAGTTGCTTTCCTATTAATCAAGGTCTTGCT
GCCAGCCGTCTTCATGGTAAGTGGAATGTGAGTGAATGTAATGATCATTCACTCATATTTTCCT
TGTATGCCTCTTTCCAATGCAGCTAGCATTGTATATATTTCAGATGTAGCTGGTTTTGTAGATC
TTTTTCTGATGTAGTTTGTCCCGCAGAATTTTTCTTGCGCCAGTTTTGTGATGCTCACACTTGC
AGTAAGGGAACAAAACCTTTCCCCAAAGGTGGCAGG
						
					

			
		

Sequences
Splice junction sequence	TTTTTCTGATGTAGTTTGTCCCGCAGAATTTTTCTTGCGCCAGTTTTGTGATGCTCACACTTGC AGTAAGGGAACAAAACCTTTCCCCAAAGGTGGCAGGaattcttcaaacaaatccagacgcacat gaggtgcattgctcaagggaaaggagccgtgcagcttgggaagctattgatgaggtagcagatg caacctaa
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	AATTCTTCAAACAAATCCAGACGCACATGAGGTGCATTGCTCAAGGGAAAGGAGCCGTGCAGCT TGGGAAGCTATTGATGAGGTAGCAGATGCAACCTAACAGTTCTGTGATTTTATATGCATTGCTG CATCCATAACATTGTTACATGTCAACTCCCATTTCTTATGCAGTATTTGATGCCCTTCGTGGAA AAAGAAAAATATGAACTCCCAAGCAAATGTAGACTTCGTCCTGATAATGACATGTTTCGGGAGC AAGAGCAACATAAGATTCATTTTGATATTAATGAGTGGCACTGTGGCTTTTGCAAGAAAGCTTT CCGAGCAGAGAAGTTCATTGATCAGCATTTTGAAAATCGCCACAAGAATCTTGTGGATAATGTA TGCTTACATAACAGTGATTATATTTCTTTAGTATATGCTTACTTATCATGAATTTGATATTATT TGTATTGTAATCACAAGCTATACCTTCTTTCATTGTAACAGCTAGTAGCCAACACAACAGTGTG AAACAAAATATAAAAGCTTACAGTTATACACAAATGTATGACAATCTAATCCTCATGTAAACAA TTATGATCCTCTGCAACAATTAAGTAGGACTCTATGCTTCCAAGTATTCATGGTAGGTACTGCT CTATAATATTTGCATTTATTATCAGCATAATCAACTGTAAATTGCTGTAATGGAAGCACTCCAA AACTGTCTTATTTTGACTTTCTATTGCATCACTGTGTAGGGTATAATTGTATAAACTTTGACAC TGATATCATGTTGTGAGAACATTGCTGATTTTAGCAAAATATATCTTTTCTCTCTCGAAAACAC AGGAGACTTTAGCAAACATATCTTGTTAAGTGAATAATGAAATATTTTCAACTTGGTGACAAAT TTGACAATCAGTGCTTGCATTGTGTAGATCCTTGAATATAAAATAAGGTTTTGTTTTCAGCTGG TCACTTGAAAAAGAACACGAGGATTACTGGACAGCTCTTTTTTCACACTAATTTGCACTACAGT TTTCAACATACGCGTGATGGTGCGTATGCGTTTCATCATGTGCTTTTCTATTCCAAAATCCAAA GGCACATGTGTGTTTTATGTAAAGCTGTGATTGTGTTGGGCTTGCGTGGGTTCTAAACCTCTTA ATATTAGCTCTCCTTTGTGTTTGAAAAAAACATTTGTTTCGTGGTCATACAATGTATTCTTCAT CGACTCCATTTGAAAAATGTAAATTGTAACTTTCATTCTCGAGCGACAGTTCTATAAGATACAT AAAGCTGTCTAGCTAAGTTTCATTAATTTCAGATGAAGCCAACTAATGAGATGTTATGTATAAC CCAAAACTGTAACTGATTTAAAGTAATCTGCTTTCTTGCCGGAAAAGAGAAGAGATAGGAAGAG CCTTTTTATAATTTATAAACCTTTTTTTTTGTCTATGCACTTAAAGGTACCAAGTTAACTTGTT TTATTTATACTGGTTGATGCAACTTTATGTTACTGCACATGAGGTGTGTAGGTGGCTGTATTTC TCTTAATCAAAAAGTTATTTACCATCCGTAAAGTAATAGATTCTGATCTATTTTCTTAGAGTGA AGGAAGATGCATGGCAGATCTATGCGGCGCACTACATTGTGATCTGATGATGCAGTTCAAAAAA CCAAAAAGTAAATGCAATGCAGCTGCAGCTACAAGGAATCGTCATCTTTGTGAGGTTCTTATCA TTTTTTTTGTATCTGATATAAATTTGTTTGGTTGGTTGGGTTTCTGCTATTCTGGTAGCGTGCA AGATACCAATCCTTTTCTGATAACTTGATTGTGCATTTTTAGCTTGTGCTGTTTGTGTCATGTT TTGGTTTTCTGTATGATATTCTGCATATTTTAGGTCTTCATTAAACAGAGTTCCACATATTCTA TGCTTCTTTAAAATCACTGTTTTTATTGTGAATGTGATACTGATAAGCAGCAGTTCATACAAGC AGGAACACTTGACCCTGGCCAAACCATGACTTTTGCTAGTTTTGTCTTGTACTTTGTTTCATAT GGCAAACAATAAATGTGTTATTTAGCTAGCTTCTACATGTGTTTGTGAGATAGCAAGCAACATG TAACTCCCTACATTTACGACAGAGCCTTGCAGACAGTTGCTTTCCTATTAATCAAGGTCTTGCT GCCAGCCGTCTTCATGGTAAGTGGAATGTGAGTGAATGTAATGATCATTCACTCATATTTTCCT TGTATGCCTCTTTCCAATGCAGCTAGCATTGTATATATTTCAGATGTAGCTGGTTTTGTAGATC TTTTTCTGATGTAGTTTGTCCCGCAGAATTTTTCTTGCGCCAGTTTTGTGATGCTCACACTTGC AGTAAGGGAACAAAACCTTTCCCCAAAGGTGGCAGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.160896079

Conservation Information
Conserved circRNAs	NA
PMCS	0.160896079

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							38802251-38802099(+)
38802276-38802099(+)
38802111-38804234(-)
						
						Potential amino acid sequence
						
							MPFVEKEKYELPSKCRLRPDNDMFREQEQHKIHFDINEWHCGFCKKAFRAEKFIDQHFENRHKN
LVDNSLADSCFPINQGLAASRLHEFFLRQFCDAHTCSKGTKPFPKGGRNSSNKSRRT*(+)
MNSQANVDFVLIMTCFGSKSNIRFILILMSGTVAFARKLSEQRSSLISILKIATRILWIIALQT
VAFLLIKVLLPAVFMNFSCASFVMLTLAVREQNLSPKVAGILQTNPDAHEVHCSRERSRAAWEA
IDEYLMPFVEKEKYELPSKCRLRPDNDMFREQEQHKIHFDINEWHCGFCKKAFRAEKFIDQHFE
NRHKNLVDNSLADSCFPINQGLAASRLHEFFLRQFCDAHTCSKGTKPFPKGGRNSSNKSRRT*(
+)
MHLMCVWICLKNSCHLWGKVLFPYCKCEHHKTGARKIHEDGWQQDLD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	38802251-38802099(+) 38802276-38802099(+) 38802111-38804234(-)
Potential amino acid sequence	MPFVEKEKYELPSKCRLRPDNDMFREQEQHKIHFDINEWHCGFCKKAFRAEKFIDQHFENRHKN LVDNSLADSCFPINQGLAASRLHEFFLRQFCDAHTCSKGTKPFPKGGRNSSNKSRRT(+) MNSQANVDFVLIMTCFGSKSNIRFILILMSGTVAFARKLSEQRSSLISILKIATRILWIIALQT VAFLLIKVLLPAVFMNFSCASFVMLTLAVREQNLSPKVAGILQTNPDAHEVHCSRERSRAAWEA IDEYLMPFVEKEKYELPSKCRLRPDNDMFREQEQHKIHFDINEWHCGFCKKAFRAEKFIDQHFE NRHKNLVDNSLADSCFPINQGLAASRLHEFFLRQFCDAHTCSKGTKPFPKGGRNSSNKSRRT( +) MHLMCVWICLKNSCHLWGKVLFPYCKCEHHKTGARKIHEDGWQQDLD*(-)
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 Zm00001d024036_circ_g.3

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