Plant Circular RNA Database

Detail information of Zm00001d013267_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d013267_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008373
					
						Alias
						Zm05circ00011
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 7488370-7490297  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d013267						
					
						Parent gene annotation
						
							Serine/threonine-protein kinase TOUSLED
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d013267_circ_g.1 						
					
						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
						Zm00001d013267_T009:5
Zm00001d013267_T038:5
Zm00001d013267_T016:5
Zm00001d013267_T040:5
Zm00001d013267_T005:3
Zm00001d013267_T021:5
Zm00001d013267_T031:5
Zm00001d013267_T004:5
Zm00001d013267_T028:5
Zm00001d013267_T001:5
Zm00001d013267_T019:5
Zm00001d013267_T043:2
Zm00001d013267_T037:5
Zm00001d013267_T018:5
Zm00001d013267_T007:5
Zm00001d013267_T011:5
Zm00001d013267_T022:5
Zm00001d013267_T013:5
Zm00001d013267_T027:5
Zm00001d013267_T034:5
Zm00001d013267_T030:5
Zm00001d013267_T025:5
Zm00001d013267_T042:5
Zm00001d013267_T041:5
Zm00001d013267_T003:5
Zm00001d013267_T023:5
Zm00001d013267_T026:5
Zm00001d013267_T006:5
Zm00001d013267_T029:5
Zm00001d013267_T020:5
Zm00001d013267_T002:5

General Information
CircRNA Name	Zm00001d013267_circ_g.2
ID in PlantcircBase	zma_circ_008373
Alias	Zm05circ00011
Organism	Zea mays
Position	chr5: 7488370-7490297 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d013267
Parent gene annotation	Serine/threonine-protein kinase TOUSLED
Parent gene strand	+
Alternative splicing	Zm00001d013267_circ_g.1
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	Zm00001d013267_T009:5 Zm00001d013267_T038:5 Zm00001d013267_T016:5 Zm00001d013267_T040:5 Zm00001d013267_T005:3 Zm00001d013267_T021:5 Zm00001d013267_T031:5 Zm00001d013267_T004:5 Zm00001d013267_T028:5 Zm00001d013267_T001:5 Zm00001d013267_T019:5 Zm00001d013267_T043:2 Zm00001d013267_T037:5 Zm00001d013267_T018:5 Zm00001d013267_T007:5 Zm00001d013267_T011:5 Zm00001d013267_T022:5 Zm00001d013267_T013:5 Zm00001d013267_T027:5 Zm00001d013267_T034:5 Zm00001d013267_T030:5 Zm00001d013267_T025:5 Zm00001d013267_T042:5 Zm00001d013267_T041:5 Zm00001d013267_T003:5 Zm00001d013267_T023:5 Zm00001d013267_T026:5 Zm00001d013267_T006:5 Zm00001d013267_T029:5 Zm00001d013267_T020:5 Zm00001d013267_T002:5

			
						 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  
						
							ATTTAAACATGTATTTTTACTCTCTTGACATGTCGCCTTTGCATTATTCTTACAGGAATTGAAG
GATCTCAAAGATCATGACCAACAAATGAGATCTAAGaactgtgaggagtttttgatacaaaaga
ataccctgaagcgtccgagatctccagatggtgacaacatctctgctcttggaaattttgaggt
gggctcat

									
								

					

						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
						
							AACTGTGAGGAGTTTTTGATACAAAAGAATACCCTGAAGCGTCCGAGATCTCCAGATGGTGACA
ACATCTCTGCTCTTGGAAATTTTGAGGTGGGCTCATGTGTTAGGAACTGAATAGCTAATCTCTT
ACGATTCTCTCCTGCATTCTTTTATGCGCTCATGACTCTGAATATTCTTTTCACTTGGTGGATT
CTCTTGTAATTTGAGAATCAGGGTTCATCAAACGAGGCAGCAAAGATTTTAGATGTCACGGATA
CAAGACCATCCCTGGACAATTCAAATAGGAAAAAACAAGGCCGTGGAAGGGGTCGTGCTGGTAC
AGGCCGAGGCCGTGGCTCAAAGACTGTTGATCAACCACGACTGACTTTGATTTCCTCAGCAGTT
GTAACAAATGGTCAACTAGATAAATTAACCAACAAGGTATGATGTGTCTGTACCATTCTAGTAT
CCTGCCATGTGCAAACTTCTTACCCTTCTCATCAGAGTTTTTTGTAGGTCATTTGATACTTAAA
CTGAATGAATATGTTATTGAATAAATTGTTGTTTTGAAGGCACTTCTTATTTAAGGGTAATGTT
TGGCCAGTTACAGGATGCTGAAATAGTTTTTTCTAGTAAATTATACACATTTATGACTTAATGA
AAGTTGGTAACTAAGAGAAAATTTGCACCTACCCGTATATATCTATATCACTTTTAAACTACAT
AGCAGATCTAATGAAATAGATGAATCTGTACAAGCTTATTATGTTCAAAACTAGCCTGGACTTG
TTCAGTTCTAATAATGTCTTGATCAAAGGACTAGGATACAAGATCTGCCATCTGCTAGTGTGCT
TCTGAAGGATCTGTTTTTAGAGAAACTCATTAACAGGTTGTTAGTGTTCTTATATTCCTATTCA
AATGGTTTTGAAAAACAGCACGATGGTCCAGGTCTTGTTTGTGACAATTGGTCACACAAATAGT
TTGAAAGGTTTTAGGTAAGCCATTGTTTGACCCTACACTACATAAACAAATGTTTTTGCCCCAT
GGACAAACAACTATTTTCTCCACAATCCATATTTACACTCTGCATTACCAGAAAGCGTCGACAC
TTATGCACATCCAAAAATGCATTCAATGATGAACAGTTGATTGATGAACCCTATTACACAGTAA
TTTATCCTAACCTGCTAATTATGAGCGCAATTCAACAGGAACCCCAATCGAGTGTTCAACTGGG
CCATGACGACAGGGCTGCTTTACAGGTAACTCATTGTTTGGCATCATTGTCTTCTGTTAAATTT
CTAAATATTTCCATCCTTTTCTAATCACAGGATTGATCCGGACGTGTCCTTTTGGAACTGTCTT
TGTTTCATGTTTGCCTGATTCTGAATGTCCTTTTGGATGTCTAGTTAATACATAAACATGGAGT
CTTTCAGATGGCCTCTTTACATGGTTTTCATCCTTTTTCACCTCTCATTTGCTGGGATAGTTTC
CACTTACTTTTATTTTCACTTGCCAGTTTAGGCAATCCAACCTTGTAAAGTAGTATGGTGTTGT
TAAGATTTTCTCAGAAGTAATAAAGCATAAACAGCGTTAGTGAAATATTTTCCTGATGCCATGC
CACTTTGGATGCTCATGAATATATTGTACCAAAAACCAATGTGTTCTCGTTTTTGTTTTAAAAT
TCTATTCTTAATCACTCTCCATTGAATAGGAAGAATTGTCAATGTTACATGGCAAAGTTGCATT
TTTGGAGGAGGAACTTTCTAAATCGCGTCAAGACGCAACAAATTACCATCAACTGAGTGATAGG
GTAGCAAAGGTAAGGAGATACTTGCTATCATTTTTCATTTAAACATGTATTTTTACTCTCTTGA
CATGTCGCCTTTGCATTATTCTTACAGGAATTGAAGGATCTCAAAGATCATGACCAACAAATGA
GATCTAAG
						
					

			
		

Sequences
Splice junction sequence	ATTTAAACATGTATTTTTACTCTCTTGACATGTCGCCTTTGCATTATTCTTACAGGAATTGAAG GATCTCAAAGATCATGACCAACAAATGAGATCTAAGaactgtgaggagtttttgatacaaaaga ataccctgaagcgtccgagatctccagatggtgacaacatctctgctcttggaaattttgaggt gggctcat
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	AACTGTGAGGAGTTTTTGATACAAAAGAATACCCTGAAGCGTCCGAGATCTCCAGATGGTGACA ACATCTCTGCTCTTGGAAATTTTGAGGTGGGCTCATGTGTTAGGAACTGAATAGCTAATCTCTT ACGATTCTCTCCTGCATTCTTTTATGCGCTCATGACTCTGAATATTCTTTTCACTTGGTGGATT CTCTTGTAATTTGAGAATCAGGGTTCATCAAACGAGGCAGCAAAGATTTTAGATGTCACGGATA CAAGACCATCCCTGGACAATTCAAATAGGAAAAAACAAGGCCGTGGAAGGGGTCGTGCTGGTAC AGGCCGAGGCCGTGGCTCAAAGACTGTTGATCAACCACGACTGACTTTGATTTCCTCAGCAGTT GTAACAAATGGTCAACTAGATAAATTAACCAACAAGGTATGATGTGTCTGTACCATTCTAGTAT CCTGCCATGTGCAAACTTCTTACCCTTCTCATCAGAGTTTTTTGTAGGTCATTTGATACTTAAA CTGAATGAATATGTTATTGAATAAATTGTTGTTTTGAAGGCACTTCTTATTTAAGGGTAATGTT TGGCCAGTTACAGGATGCTGAAATAGTTTTTTCTAGTAAATTATACACATTTATGACTTAATGA AAGTTGGTAACTAAGAGAAAATTTGCACCTACCCGTATATATCTATATCACTTTTAAACTACAT AGCAGATCTAATGAAATAGATGAATCTGTACAAGCTTATTATGTTCAAAACTAGCCTGGACTTG TTCAGTTCTAATAATGTCTTGATCAAAGGACTAGGATACAAGATCTGCCATCTGCTAGTGTGCT TCTGAAGGATCTGTTTTTAGAGAAACTCATTAACAGGTTGTTAGTGTTCTTATATTCCTATTCA AATGGTTTTGAAAAACAGCACGATGGTCCAGGTCTTGTTTGTGACAATTGGTCACACAAATAGT TTGAAAGGTTTTAGGTAAGCCATTGTTTGACCCTACACTACATAAACAAATGTTTTTGCCCCAT GGACAAACAACTATTTTCTCCACAATCCATATTTACACTCTGCATTACCAGAAAGCGTCGACAC TTATGCACATCCAAAAATGCATTCAATGATGAACAGTTGATTGATGAACCCTATTACACAGTAA TTTATCCTAACCTGCTAATTATGAGCGCAATTCAACAGGAACCCCAATCGAGTGTTCAACTGGG CCATGACGACAGGGCTGCTTTACAGGTAACTCATTGTTTGGCATCATTGTCTTCTGTTAAATTT CTAAATATTTCCATCCTTTTCTAATCACAGGATTGATCCGGACGTGTCCTTTTGGAACTGTCTT TGTTTCATGTTTGCCTGATTCTGAATGTCCTTTTGGATGTCTAGTTAATACATAAACATGGAGT CTTTCAGATGGCCTCTTTACATGGTTTTCATCCTTTTTCACCTCTCATTTGCTGGGATAGTTTC CACTTACTTTTATTTTCACTTGCCAGTTTAGGCAATCCAACCTTGTAAAGTAGTATGGTGTTGT TAAGATTTTCTCAGAAGTAATAAAGCATAAACAGCGTTAGTGAAATATTTTCCTGATGCCATGC CACTTTGGATGCTCATGAATATATTGTACCAAAAACCAATGTGTTCTCGTTTTTGTTTTAAAAT TCTATTCTTAATCACTCTCCATTGAATAGGAAGAATTGTCAATGTTACATGGCAAAGTTGCATT TTTGGAGGAGGAACTTTCTAAATCGCGTCAAGACGCAACAAATTACCATCAACTGAGTGATAGG GTAGCAAAGGTAAGGAGATACTTGCTATCATTTTTCATTTAAACATGTATTTTTACTCTCTTGA CATGTCGCCTTTGCATTATTCTTACAGGAATTGAAGGATCTCAAAGATCATGACCAACAAATGA GATCTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.031179919

Conservation Information
Conserved circRNAs	NA
PMCS	0.031179919

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7490076-7490294(+)
7488439-7490275(-)
7488591-7490295(-)
						
						Potential amino acid sequence
						
							MLHGKVAFLEEELSKSRQDATNYHQLSDRVAKELKDLKDHDQQMRSKNCEEFLIQKNTLKRPRS
PDGDNISALGNFEGSSNEAAKILDVTDTRPSLDNSNRKKQGRGRGRAGTGRGRGSKTVDQPRLT
LISSAVVTNGQLDKLTNKEPQSSVQLGHDDRAALQEELSMLHGKVAFLEEELSKSRQDATNYHQ
LSDRVAKELKDLKDHDQQMRSKNCEEFLIQKNTLKRPRSPDGDNISALGNFEGSSNEAAKILDV
TDTRPSLDNSNRKKQGRGRGRAGTGRGRGSKTVDQPRLTLISSAVVTNGQLDKLTNKEPQSSVQ
LGHDDRAALQEELSMLHGKVAFLEEELSKSRQDATNYHQLSDRVAKELKDLKDHDQQMRSKNCE
EFLIQKNTLKRPRSPDGDNISALGNFEGSSNEAAKILDVTDTRPSLDNSNRKKQGRGRGRAGTG
RGRGSKTVDQPRLTLISSAVVTNGQLDKLTNKEPQSSVQLGHDDRAALQEELSMLHGKVAFLEE
ELSKSRQDATNYHQLSDRVAKELKDLKDHDQQMRSK(+)
MLSPSGDLGRFRVFFCIKNSSQFLDLICWS*(-)
MNPQNFQEQRCCHHLEISDASGYSFVSKTPHSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7490076-7490294(+) 7488439-7490275(-) 7488591-7490295(-)
Potential amino acid sequence	MLHGKVAFLEEELSKSRQDATNYHQLSDRVAKELKDLKDHDQQMRSKNCEEFLIQKNTLKRPRS PDGDNISALGNFEGSSNEAAKILDVTDTRPSLDNSNRKKQGRGRGRAGTGRGRGSKTVDQPRLT LISSAVVTNGQLDKLTNKEPQSSVQLGHDDRAALQEELSMLHGKVAFLEEELSKSRQDATNYHQ LSDRVAKELKDLKDHDQQMRSKNCEEFLIQKNTLKRPRSPDGDNISALGNFEGSSNEAAKILDV TDTRPSLDNSNRKKQGRGRGRAGTGRGRGSKTVDQPRLTLISSAVVTNGQLDKLTNKEPQSSVQ LGHDDRAALQEELSMLHGKVAFLEEELSKSRQDATNYHQLSDRVAKELKDLKDHDQQMRSKNCE EFLIQKNTLKRPRSPDGDNISALGNFEGSSNEAAKILDVTDTRPSLDNSNRKKQGRGRGRAGTG RGRGSKTVDQPRLTLISSAVVTNGQLDKLTNKEPQSSVQLGHDDRAALQEELSMLHGKVAFLEE ELSKSRQDATNYHQLSDRVAKELKDLKDHDQQMRSK(+) MLSPSGDLGRFRVFFCIKNSSQFLDLICWS(-) MNPQNFQEQRCCHHLEISDASGYSFVSKTPHSS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d013267_circ_g.2

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