Plant Circular RNA Database

Detail information of Zm00001d021879_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d021879_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009448
					
						Alias
						zma_circ_0002629, GRMZM2G092669_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 165316475-165317245  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d021879						
					
						Parent gene annotation
						
							NEP-interacting protein 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d021879_circ_g.1 						
					
						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
						Zm00001d021879_T001:3

General Information
CircRNA Name	Zm00001d021879_circ_g.2
ID in PlantcircBase	zma_circ_009448
Alias	zma_circ_0002629, GRMZM2G092669_C1
Organism	Zea mays
Position	chr7: 165316475-165317245 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d021879
Parent gene annotation	NEP-interacting protein 1
Parent gene strand	+
Alternative splicing	Zm00001d021879_circ_g.1
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	Zm00001d021879_T001:3

			
						 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  
						
							GCCGAAGATCGAGCAGGCCAATGAGTTCAGCCTGTCCCAGCTCTGGATCCTGGGAGGCTCCTTC
GGCCAGGACCTCAACAGCATCGAAGCAGGATGGCAGagtccagacggagacatcatagactgcg
tgcatatctccaaccagcccgccttggatcatcctttcctcaagaaccacaccgtccaggtacg
ttcctctc

						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: 507
Transcript exons: 165316475-165316561,165316705-165316959,165317081-165317
245
AGTCCAGACGGAGACATCATAGACTGCGTGCATATCTCCAACCAGCCCGCCTTGGATCATCCTT
TCCTCAAGAACCACACCGTCCAGATGCGGCCTGCATACCACCCGGAAGGTCTGTACGACGACGA
GTCCAAGGTTGCATCGCAGCGGAACGCGCAGACGATCACCCAGATGTGGCATCAGAACGGCAGG
TGCCCCGAGGGCACGATACCGATCAGGCGGACCAAGGAGGAGGACGTGCTGAGGGCCAGCTCCG
TCAGGAGGTATGGCAAGAAGAAGCGCAGGAGTGCCCCCAACCCCATGTCGGTTGACCCTGACAT
GCTCAACGAGAGCGGGCACCAGCACGCCATAGCGTACGTGGAGGGGGACAAGTACTACGGCGCC
AAGGCTACCATCAATGTGTGGCAGCCGAAGATCGAGCAGGCCAATGAGTTCAGCCTGTCCCAGC
TCTGGATCCTGGGAGGCTCCTTCGGCCAGGACCTCAACAGCATCGAAGCAGGATGGCAG
						
						Genomic sequence
						
							AGTCCAGACGGAGACATCATAGACTGCGTGCATATCTCCAACCAGCCCGCCTTGGATCATCCTT
TCCTCAAGAACCACACCGTCCAGGTACGTTCCTCTCTCTCTGTCTATCTCTCTCTATCTCTGCG
GCACCATTGCCCTTTCCGTTTCGCTTTCTGCAGCAGCAGCTCTTCTACCCCTCACTATGGCAGC
AGCACTCAAACATGCATGCTCCCCCGGCCCCTTTGCAGATGCGGCCTGCATACCACCCGGAAGG
TCTGTACGACGACGAGTCCAAGGTTGCATCGCAGCGGAACGCGCAGACGATCACCCAGATGTGG
CATCAGAACGGCAGGTGCCCCGAGGGCACGATACCGATCAGGCGGACCAAGGAGGAGGACGTGC
TGAGGGCCAGCTCCGTCAGGAGGTATGGCAAGAAGAAGCGCAGGAGTGCCCCCAACCCCATGTC
GGTTGACCCTGACATGCTCAACGAGAGCGGGCACCAGGTTAGTAGTGAGATTGATATTCATATT
CTTGTTGCTCAACTGTGTGGCTGTGAATGATTATCTCTGAAACTGCTCATTTAACGTACCGTGT
CATCTCATCTCCCCCCATGGAGGAGAGCAGCACGCCATAGCGTACGTGGAGGGGGACAAGTACT
ACGGCGCCAAGGCTACCATCAATGTGTGGCAGCCGAAGATCGAGCAGGCCAATGAGTTCAGCCT
GTCCCAGCTCTGGATCCTGGGAGGCTCCTTCGGCCAGGACCTCAACAGCATCGAAGCAGGATGG
CAG

Sequences
Splice junction sequence	GCCGAAGATCGAGCAGGCCAATGAGTTCAGCCTGTCCCAGCTCTGGATCCTGGGAGGCTCCTTC GGCCAGGACCTCAACAGCATCGAAGCAGGATGGCAGagtccagacggagacatcatagactgcg tgcatatctccaaccagcccgccttggatcatcctttcctcaagaaccacaccgtccaggtacg ttcctctc
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: 507 Transcript exons: 165316475-165316561,165316705-165316959,165317081-165317 245 AGTCCAGACGGAGACATCATAGACTGCGTGCATATCTCCAACCAGCCCGCCTTGGATCATCCTT TCCTCAAGAACCACACCGTCCAGATGCGGCCTGCATACCACCCGGAAGGTCTGTACGACGACGA GTCCAAGGTTGCATCGCAGCGGAACGCGCAGACGATCACCCAGATGTGGCATCAGAACGGCAGG TGCCCCGAGGGCACGATACCGATCAGGCGGACCAAGGAGGAGGACGTGCTGAGGGCCAGCTCCG TCAGGAGGTATGGCAAGAAGAAGCGCAGGAGTGCCCCCAACCCCATGTCGGTTGACCCTGACAT GCTCAACGAGAGCGGGCACCAGCACGCCATAGCGTACGTGGAGGGGGACAAGTACTACGGCGCC AAGGCTACCATCAATGTGTGGCAGCCGAAGATCGAGCAGGCCAATGAGTTCAGCCTGTCCCAGC TCTGGATCCTGGGAGGCTCCTTCGGCCAGGACCTCAACAGCATCGAAGCAGGATGGCAG
Genomic sequence	AGTCCAGACGGAGACATCATAGACTGCGTGCATATCTCCAACCAGCCCGCCTTGGATCATCCTT TCCTCAAGAACCACACCGTCCAGGTACGTTCCTCTCTCTCTGTCTATCTCTCTCTATCTCTGCG GCACCATTGCCCTTTCCGTTTCGCTTTCTGCAGCAGCAGCTCTTCTACCCCTCACTATGGCAGC AGCACTCAAACATGCATGCTCCCCCGGCCCCTTTGCAGATGCGGCCTGCATACCACCCGGAAGG TCTGTACGACGACGAGTCCAAGGTTGCATCGCAGCGGAACGCGCAGACGATCACCCAGATGTGG CATCAGAACGGCAGGTGCCCCGAGGGCACGATACCGATCAGGCGGACCAAGGAGGAGGACGTGC TGAGGGCCAGCTCCGTCAGGAGGTATGGCAAGAAGAAGCGCAGGAGTGCCCCCAACCCCATGTC GGTTGACCCTGACATGCTCAACGAGAGCGGGCACCAGGTTAGTAGTGAGATTGATATTCATATT CTTGTTGCTCAACTGTGTGGCTGTGAATGATTATCTCTGAAACTGCTCATTTAACGTACCGTGT CATCTCATCTCCCCCCATGGAGGAGAGCAGCACGCCATAGCGTACGTGGAGGGGGACAAGTACT ACGGCGCCAAGGCTACCATCAATGTGTGGCAGCCGAAGATCGAGCAGGCCAATGAGTTCAGCCT GTCCCAGCTCTGGATCCTGGGAGGCTCCTTCGGCCAGGACCTCAACAGCATCGAAGCAGGATGG CAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_034468* osi_circ_017245 						
					
						PMCS
						0.18336483

Conservation Information
Conserved circRNAs	osa_circ_034468* osi_circ_017245
PMCS	0.18336483

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							165316706-165317242(+)
165317137-165316493(+)
165317240-165316925(+)
165316799-165316477(-)
165316496-165317115(-)
						
					

						Potential amino acid sequence
						
							MRPAYHPEGLYDDESKVASQRNAQTITQMWHQNGRCPEGTIPIRRTKEEDVLRASSVRRYGKKK
RRSAPNPMSVDPDMLNESGHQHAIAYVEGDKYYGAKATINVWQPKIEQANEFSLSQLWILGGSF
GQDLNSIEAGWQSPDGDIIDCVHISNQPALDHPFLKNHTVQMRPAYHPEGLYDDESKVASQRNA
QTITQMWHQNGRCPEGTIPIRRTKEEDVLRASSVRRYGKKKRRSAPNPMSVDPDMLNESGHQHA
IAYVEGDKYYGAKATINVWQPKIEQANEFSLSQLWILGGSFGQDLNSIEAGWQSPDGDIIDCVH
ISNQPALDHPFLKNHTVQMRPAYHPEGLYDDESKVASQRNAQTITQMWHQNGRCPEGTIPIRRT
KEEDVLRASSVRRYGKKKRRSAPNPMSVDPDMLNESGHQHAIAYVEGDKYYGAKATINVWQPKI
EQANEFSLSQLWILGGSFGQDLNSIEAGWQSPDGDIIDCVHISNQPALDHPFLKNHTVQMRPAY
HPEGLYDDESKVASQRNAQTITQMWHQNGRCPEGTIPIRRTKEEDVLRASSVRRYGKKKRRSAP
NPMSVDPDMLNESGHQHAIAYVEGDKYYGAKATINVWQPKIEQANEFSLSQLWILGGSFGQDLN
SIEAGWQ(+)
MCGSRRSSRPMSSACPSSGSWEAPSARTSTASKQDGRVQTETS*(+)
MAESRRRHHRLRAYLQPARLGSSFPQEPHRPDAACIPPGRSVRRRVQGCIAAERADDHPDVASE
RQVPRGHDTDQADQGGGRAEGQLRQEVWQEEAQECPQPHVG*(+)
MPHLGDRLRVPLRCNLGLVVVQTFRVVCRPHLDGVVLEERMIQGGLVGDMHAVYDVSVWTLPSC
FDAVEVLAEGASQDPELGQAELIGLLDLRLPHIDGSLGAVVLVPLHVRYGVLVPALVEHVRVNR
HGVGGTPALLLAIPPDGAGPQHVLLLGPPDRYRALGAPAVLMPHLGDRLRVPLRCNLGLVVVQT
FRVVCRPHLDGVVLEERMIQGGLVGDMHAVYDVSVWTLPSCFDAVEVLAEGASQDPELGQAELI
GLLDLRLPHIDGSLGAVVLVPLHVRYGVLVPALVEHVRVNRHGVGGTPALLLAIPPDGAGPQHV
LLLGPPDRYRALGAPAVLMPHLGDRLRVPLRCNLGLVVVQTFRVVCRPHLDGVVLEERMIQGGL
VGDMHAVYDVSVWTLPSCFDAVEVLAEGASQDPELGQAELIGLLDLRLPHIDGSLGAVVLVPLH
VRYGVLVPALVEHVRVNRHGVGGTPALLLAIPPDGAGPQHVLLLGPPDRYRALGAPAVLMPHLG
DRLRVPLRCNLGLVVVQTFRVVCRPHLDGVVLEERMIQGGLVGDMHAVYDVSVWT(-)
MMSPSGLCHPASMLLRSWPKEPPRIQSWDRLNSLACSIFGCHTLMVALAP*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						responsive to drought stress
					

			
		

Functional Information
Coding potential	Y
Potential coding position	165316706-165317242(+) 165317137-165316493(+) 165317240-165316925(+) 165316799-165316477(-) 165316496-165317115(-)
Potential amino acid sequence	MRPAYHPEGLYDDESKVASQRNAQTITQMWHQNGRCPEGTIPIRRTKEEDVLRASSVRRYGKKK RRSAPNPMSVDPDMLNESGHQHAIAYVEGDKYYGAKATINVWQPKIEQANEFSLSQLWILGGSF GQDLNSIEAGWQSPDGDIIDCVHISNQPALDHPFLKNHTVQMRPAYHPEGLYDDESKVASQRNA QTITQMWHQNGRCPEGTIPIRRTKEEDVLRASSVRRYGKKKRRSAPNPMSVDPDMLNESGHQHA IAYVEGDKYYGAKATINVWQPKIEQANEFSLSQLWILGGSFGQDLNSIEAGWQSPDGDIIDCVH ISNQPALDHPFLKNHTVQMRPAYHPEGLYDDESKVASQRNAQTITQMWHQNGRCPEGTIPIRRT KEEDVLRASSVRRYGKKKRRSAPNPMSVDPDMLNESGHQHAIAYVEGDKYYGAKATINVWQPKI EQANEFSLSQLWILGGSFGQDLNSIEAGWQSPDGDIIDCVHISNQPALDHPFLKNHTVQMRPAY HPEGLYDDESKVASQRNAQTITQMWHQNGRCPEGTIPIRRTKEEDVLRASSVRRYGKKKRRSAP NPMSVDPDMLNESGHQHAIAYVEGDKYYGAKATINVWQPKIEQANEFSLSQLWILGGSFGQDLN SIEAGWQ(+) MCGSRRSSRPMSSACPSSGSWEAPSARTSTASKQDGRVQTETS(+) MAESRRRHHRLRAYLQPARLGSSFPQEPHRPDAACIPPGRSVRRRVQGCIAAERADDHPDVASE RQVPRGHDTDQADQGGGRAEGQLRQEVWQEEAQECPQPHVG(+) MPHLGDRLRVPLRCNLGLVVVQTFRVVCRPHLDGVVLEERMIQGGLVGDMHAVYDVSVWTLPSC FDAVEVLAEGASQDPELGQAELIGLLDLRLPHIDGSLGAVVLVPLHVRYGVLVPALVEHVRVNR HGVGGTPALLLAIPPDGAGPQHVLLLGPPDRYRALGAPAVLMPHLGDRLRVPLRCNLGLVVVQT FRVVCRPHLDGVVLEERMIQGGLVGDMHAVYDVSVWTLPSCFDAVEVLAEGASQDPELGQAELI GLLDLRLPHIDGSLGAVVLVPLHVRYGVLVPALVEHVRVNRHGVGGTPALLLAIPPDGAGPQHV LLLGPPDRYRALGAPAVLMPHLGDRLRVPLRCNLGLVVVQTFRVVCRPHLDGVVLEERMIQGGL VGDMHAVYDVSVWTLPSCFDAVEVLAEGASQDPELGQAELIGLLDLRLPHIDGSLGAVVLVPLH VRYGVLVPALVEHVRVNRHGVGGTPALLLAIPPDGAGPQHVLLLGPPDRYRALGAPAVLMPHLG DRLRVPLRCNLGLVVVQTFRVVCRPHLDGVVLEERMIQGGLVGDMHAVYDVSVWT(-) MMSPSGLCHPASMLLRSWPKEPPRIQSWDRLNSLACSIFGCHTLMVALAP*(-)
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 Zm00001d021879_circ_g.2

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