Plant Circular RNA Database

Detail information of Zm00001d041632_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d041632_circ_g.2
					
						ID in PlantcircBase
						zma_circ_007641
					
						Alias
						zma_circ_0001160, GRMZM2G097068_C2
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 130500559-130502718  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d041632						
					
						Parent gene annotation
						
							Trafficking protein particle complex II-specific subunit 130 hom
olog
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d041632_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
						Zm00001d041632_T007:5
Zm00001d041632_T003:5
Zm00001d041632_T004:5
Zm00001d041632_T005:5
Zm00001d041632_T002:5
Zm00001d041632_T009:6

General Information
CircRNA Name	Zm00001d041632_circ_g.2
ID in PlantcircBase	zma_circ_007641
Alias	zma_circ_0001160, GRMZM2G097068_C2
Organism	Zea mays
Position	chr3: 130500559-130502718 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d041632
Parent gene annotation	Trafficking protein particle complex II-specific subunit 130 hom olog
Parent gene strand	+
Alternative splicing	Zm00001d041632_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	Zm00001d041632_T007:5 Zm00001d041632_T003:5 Zm00001d041632_T004:5 Zm00001d041632_T005:5 Zm00001d041632_T002:5 Zm00001d041632_T009:6

			
						 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  
						
							TATTATGATTTTCAGGACCATTGCAGTTCATTTTACTAACCCATTCCATGTAAGCACACGCGTC
GTGGACAAGTGCAATGATGGAGCTCTACTTCTACAGaaaagatatatggagcttactaaaggtg
cagctgacaattaccaccgatcttggtggaaaagacatggagttgttcttgatggagagatcgc
agctctgt

									
								

					

						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
						
							AAAAGATATATGGAGCTTACTAAAGGTGCAGCTGACAATTACCACCGATCTTGGTGGAAAAGAC
ATGGAGTTGTTCTTGATGGAGAGATCGCAGCTCTGTTCTTTAAGCATGGAAATTATGACCTGGC
TGTGAAATCCTATGAGAAAGTTTGTGCTCTCTATTCTGCAGAAGGCTGGGAAGAGCTGTTGGCA
GATGTTCTTCCTGATCTTGCAGAATGCCAGAAGATTCTTAATGATGAAGCTGGTTATTTGGCTT
CTTGTGTAAAGTTACTATCGCTGGACAGTGGCTTGTTTTCATCTAAAGAGCGGCAAGGTTTCCA
GTCAGAAGTTGTTCGACTTGCTCACAGTGAAATGAAACATCTTGTGCCCCTAGATGTCTCGTCA
CTAATTACATTTGCTGGAAATGCTGGTCCACCACTAGAATTATGTGATGGAGATCCTGGTACAC
TATCTGTAGCAGTTTGGAATGGCTTCCCAGATGACATCACACTGGAGTCTCTCAGTTTAAGGTT
GTCAGCTTCTTCTAGTGCAGATGAAGGTATCAAGGTACAAGTACTGTGTTAGCATTACTGATTG
CTACCCTTTTCCTCTGTGGCATGTCTTATTCTGTTATTCATGGTTTGGATGCACTAATATGTTT
TCAAGTAAAATTCAGTTCCATCCTTGCAGAACAGATTTCATAAATCAAAACTACTATGATAAAG
TATATCAAACTCTAGAGAAATGACCGCACATAACATATTCTTCAGTCACCTAATGGTTTAATGT
TGTCATCCATGCAGGCAATTAAAAGTTCAGATTCTCATGTTCTAGTACCAGGTAGAAATATCAT
CTCTTTTGACATTCCTCGTCAAAAGCCTGGCTCCTATGTGTTGGGTGCTCTCACTGGACAGATT
GGCAAGCTGTCATTCAGATCACATGGATTTTCCCAAGATGGTCCAGTTGAAACTGATGAATTTA
TGAGCTTTGAGAAACCGACAAGACCTGTTTTGAAGGTAATTGCTAAAATGAGCTGAAGATTACT
TAGAAGTTTTTCGTGGGGCATGACTGGAGCTAGATCCCTTAGAAGTTTCTGGCCTTAAGTTTTT
TGGGGTTTCCCCTTAAGATTTTTTTTTTCTTTTTCCCCATTTTTCCATAACTGGCACCTTGTAT
TGGGTCTATTTTAGGCCTTTCTTTCTCTTCTTAATATATTGATGTACAGTTCTCCTACAGTTCG
AGAAAAAAAGAGCTGACGATCTGAACTGTTTTATAAAATCGTAGCCCTACCCCATGTCACTAAA
CTGCCATAAGAGATACTATCCATACTTTCAAAACAAAACCGGAGCATAGTTTCCTCTAATTAGT
GAACATGGTCAGTTATATTGTTTAAGACAGATATGTTCTCATTGCATTTGTTTCTCTGTTGTAG
GTGAGAAAACCAAGGGCTTTAGTTGATATTACACCTGCTGTGTCCTCTGCTTTGCTTATGAATG
AGCTCCAATGGATTGGATTAATCGTTAAGCCTATAGACTATTCTTTAAAAGGTGGAATATTGCA
TATCGATGCTGGCGCTGAACTGAAAATTGAGGAGTCTCAGATGATTGAAATAGAAATTTACGTA
AGTGATATGGAGTGTGCTAATTCTGCCAACAGCTCCATCAAAGCTGGAAAGGTTGAAAAGGTAC
CTATTGAAAATGGAAAGATAGAACTTCCTGATTGGGCTAGTGATGTGACTACTCTTGTTTGGTT
TCCTGTTCGTGCTATTGATGACACAATTGCAAGAGGAGAATCCCTAGGTCTGTATGTAACAAGT
GATAAATTCACTATGTTATGTTTCAATCAGTTAGTTGACCTTTCTTTGTCCTTGTTTCAGTGTC
TCAGAAACAGAGCGTTGTAGATGGGATGAGAATGATTGCTCTCAAGCTTGAGTTTGGAGTTTTC
CGTAACCAAGTGTTTGAAAGGTATCTCTCTGTTTTTCCCCTCAAACATGCAGAAGAGCTGTGTC
ATGTCTGCCATTGTATAAGAAAAGATGAGATACTTCGATACATTGAACTTTAGATATAGATACT
CAACAAATTTATTATTATGATTTTCAGGACCATTGCAGTTCATTTTACTAACCCATTCCATGTA
AGCACACGCGTCGTGGACAAGTGCAATGATGGAGCTCTACTTCTACAG
						
					

			
		

Sequences
Splice junction sequence	TATTATGATTTTCAGGACCATTGCAGTTCATTTTACTAACCCATTCCATGTAAGCACACGCGTC GTGGACAAGTGCAATGATGGAGCTCTACTTCTACAGaaaagatatatggagcttactaaaggtg cagctgacaattaccaccgatcttggtggaaaagacatggagttgttcttgatggagagatcgc agctctgt
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	AAAAGATATATGGAGCTTACTAAAGGTGCAGCTGACAATTACCACCGATCTTGGTGGAAAAGAC ATGGAGTTGTTCTTGATGGAGAGATCGCAGCTCTGTTCTTTAAGCATGGAAATTATGACCTGGC TGTGAAATCCTATGAGAAAGTTTGTGCTCTCTATTCTGCAGAAGGCTGGGAAGAGCTGTTGGCA GATGTTCTTCCTGATCTTGCAGAATGCCAGAAGATTCTTAATGATGAAGCTGGTTATTTGGCTT CTTGTGTAAAGTTACTATCGCTGGACAGTGGCTTGTTTTCATCTAAAGAGCGGCAAGGTTTCCA GTCAGAAGTTGTTCGACTTGCTCACAGTGAAATGAAACATCTTGTGCCCCTAGATGTCTCGTCA CTAATTACATTTGCTGGAAATGCTGGTCCACCACTAGAATTATGTGATGGAGATCCTGGTACAC TATCTGTAGCAGTTTGGAATGGCTTCCCAGATGACATCACACTGGAGTCTCTCAGTTTAAGGTT GTCAGCTTCTTCTAGTGCAGATGAAGGTATCAAGGTACAAGTACTGTGTTAGCATTACTGATTG CTACCCTTTTCCTCTGTGGCATGTCTTATTCTGTTATTCATGGTTTGGATGCACTAATATGTTT TCAAGTAAAATTCAGTTCCATCCTTGCAGAACAGATTTCATAAATCAAAACTACTATGATAAAG TATATCAAACTCTAGAGAAATGACCGCACATAACATATTCTTCAGTCACCTAATGGTTTAATGT TGTCATCCATGCAGGCAATTAAAAGTTCAGATTCTCATGTTCTAGTACCAGGTAGAAATATCAT CTCTTTTGACATTCCTCGTCAAAAGCCTGGCTCCTATGTGTTGGGTGCTCTCACTGGACAGATT GGCAAGCTGTCATTCAGATCACATGGATTTTCCCAAGATGGTCCAGTTGAAACTGATGAATTTA TGAGCTTTGAGAAACCGACAAGACCTGTTTTGAAGGTAATTGCTAAAATGAGCTGAAGATTACT TAGAAGTTTTTCGTGGGGCATGACTGGAGCTAGATCCCTTAGAAGTTTCTGGCCTTAAGTTTTT TGGGGTTTCCCCTTAAGATTTTTTTTTTCTTTTTCCCCATTTTTCCATAACTGGCACCTTGTAT TGGGTCTATTTTAGGCCTTTCTTTCTCTTCTTAATATATTGATGTACAGTTCTCCTACAGTTCG AGAAAAAAAGAGCTGACGATCTGAACTGTTTTATAAAATCGTAGCCCTACCCCATGTCACTAAA CTGCCATAAGAGATACTATCCATACTTTCAAAACAAAACCGGAGCATAGTTTCCTCTAATTAGT GAACATGGTCAGTTATATTGTTTAAGACAGATATGTTCTCATTGCATTTGTTTCTCTGTTGTAG GTGAGAAAACCAAGGGCTTTAGTTGATATTACACCTGCTGTGTCCTCTGCTTTGCTTATGAATG AGCTCCAATGGATTGGATTAATCGTTAAGCCTATAGACTATTCTTTAAAAGGTGGAATATTGCA TATCGATGCTGGCGCTGAACTGAAAATTGAGGAGTCTCAGATGATTGAAATAGAAATTTACGTA AGTGATATGGAGTGTGCTAATTCTGCCAACAGCTCCATCAAAGCTGGAAAGGTTGAAAAGGTAC CTATTGAAAATGGAAAGATAGAACTTCCTGATTGGGCTAGTGATGTGACTACTCTTGTTTGGTT TCCTGTTCGTGCTATTGATGACACAATTGCAAGAGGAGAATCCCTAGGTCTGTATGTAACAAGT GATAAATTCACTATGTTATGTTTCAATCAGTTAGTTGACCTTTCTTTGTCCTTGTTTCAGTGTC TCAGAAACAGAGCGTTGTAGATGGGATGAGAATGATTGCTCTCAAGCTTGAGTTTGGAGTTTTC CGTAACCAAGTGTTTGAAAGGTATCTCTCTGTTTTTCCCCTCAAACATGCAGAAGAGCTGTGTC ATGTCTGCCATTGTATAAGAAAAGATGAGATACTTCGATACATTGAACTTTAGATATAGATACT CAACAAATTTATTATTATGATTTTCAGGACCATTGCAGTTCATTTTACTAACCCATTCCATGTA AGCACACGCGTCGTGGACAAGTGCAATGATGGAGCTCTACTTCTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.072867508

Conservation Information
Conserved circRNAs	NA
PMCS	0.072867508

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							130500569-130502715(+)
130502697-130500688(+)
130500671-130502715(-)
						
					

						Potential amino acid sequence
						
							MELTKGAADNYHRSWWKRHGVVLDGEIAALFFKHGNYDLAVKSYEKVCALYSAEGWEELLADVL
PDLAECQKILNDEAGYLASCVKLLSLDSGLFSSKERQGFQSEVVRLAHSEMKHLVPLDVSSLIT
FAGNAGPPLELCDGDPGTLSVAVWNGFPDDITLESLSLRLSASSSADEGIKAIKSSDSHVLVPG
RNIISFDIPRQKPGSYVLGALTGQIGKLSFRSHGFSQDGPVETDEFMSFEKPTRPVLKVRKPRA
LVDITPAVSSALLMNELQWIGLIVKPIDYSLKGGILHIDAGAELKIEESQMIEIEIYVSDMECA
NSANSSIKAGKVEKVPIENGKIELPDWASDVTTLVWFPVRAIDDTIARGESLVSQKQSVVDGMR
MIALKLEFGVFRNQVFERTIAVHFTNPFHVSTRVVDKCNDGALLLQKRYMELTKGAADNYHRSW
WKRHGVVLDGEIAALFFKHGNYDLAVKSYEKVCALYSAEGWEELLADVLPDLAECQKILNDEAG
YLASCVKLLSLDSGLFSSKERQGFQSEVVRLAHSEMKHLVPLDVSSLITFAGNAGPPLELCDGD
PGTLSVAVWNGFPDDITLESLSLRLSASSSADEGIKAIKSSDSHVLVPGRNIISFDIPRQKPGS
YVLGALTGQIGKLSFRSHGFSQDGPVETDEFMSFEKPTRPVLKVRKPRALVDITPAVSSALLMN
ELQWIGLIVKPIDYSLKGGILHIDAGAELKIEESQMIEIEIYVSDMECANSANSSIKAGKVEKV
PIENGKIELPDWASDVTTLVWFPVRAIDDTIARGESLVSQKQSVVDGMRMIALKLEFGVFRNQV
FERTIAVHFTNPFHVSTRVVDKCNDGALLLQKRYMELTKGAADNYHRSWWKRHGVVLDGEIAAL
FFKHGNYDLAVKSYEKVCALYSAEGWEELLADVLPDLAECQKILNDEAGYLASCVKLLSLDSGL
FSSKERQGFQSEVVRLAHSEMKHLVPLDVSSLITFAGNAGPPLELCDGDPGTLSVAVWNGFPDD
ITLESLSLRLSASSSADEGIKAIKSSDSHVLVPGRNIISFDIPRQKPGSYVLGALTGQIGKLSF
RSHGFSQDGPVETDEFMSFEKPTRPVLKVRKPRALVDITPAVSSALLMNELQWIGLIVKPIDYS
LKGGILHIDAGAELKIEESQMIEIEIYVSDMECANSANSSIKAGKVEKVPIENGKIELPDWASD
VTTLVWFPVRAIDDTIARGESLVSQKQSVVDGMRMIALKLEFGVFRNQVFERTIAVHFTNPFHV
STRVVDKCNDGALLLQKRYMELTKGAADNYHRSWWKRHGVVLDGEIAALFFKHGNYDLAVKSYE
KVCALYSAEGWEELLADVLPDLAECQKILNDEAGYLASCVKLLSLDSGLFSSKERQGFQSEVVR
LAHSEMKHLVPLDVSSLITFAGNAGPPLELCDGDPGTLSVAVWNGFPDDITLESLSLRLSASSS
ADEGIKAIKSSDSHVLVPGRNIISFDIPRQKPGSYVLGALTGQIGKLSFRSHGFSQDGPVETDE
FMSFEKPTRPVLKVRKPRALVDITPAVSSALLMNELQWIGLIVKPIDYSLKGGILHIDAGAELK
IEESQMIEIEIYVSDMECANSANSSIKAGKVEKVPIENGKIELPDWASDVTTLVWFPVRAIDDT
IARGESLVSQKQSVVDGMRMIALKLEFGVFRNQVFERTIAVHFTNPFHVSTRVVDKCNDGALLL
Q(+)
MMELYFYRKDIWSLLKVQLTITTDLGGKDMELFLMERSQLCSLSMEIMTWL*(+)
MLKEQSCDLSIKNNSMSFPPRSVVIVSCTFSKLHISFL*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						responsive to drought stress
					

			
		

Functional Information
Coding potential	Y
Potential coding position	130500569-130502715(+) 130502697-130500688(+) 130500671-130502715(-)
Potential amino acid sequence	MELTKGAADNYHRSWWKRHGVVLDGEIAALFFKHGNYDLAVKSYEKVCALYSAEGWEELLADVL PDLAECQKILNDEAGYLASCVKLLSLDSGLFSSKERQGFQSEVVRLAHSEMKHLVPLDVSSLIT FAGNAGPPLELCDGDPGTLSVAVWNGFPDDITLESLSLRLSASSSADEGIKAIKSSDSHVLVPG RNIISFDIPRQKPGSYVLGALTGQIGKLSFRSHGFSQDGPVETDEFMSFEKPTRPVLKVRKPRA LVDITPAVSSALLMNELQWIGLIVKPIDYSLKGGILHIDAGAELKIEESQMIEIEIYVSDMECA NSANSSIKAGKVEKVPIENGKIELPDWASDVTTLVWFPVRAIDDTIARGESLVSQKQSVVDGMR MIALKLEFGVFRNQVFERTIAVHFTNPFHVSTRVVDKCNDGALLLQKRYMELTKGAADNYHRSW WKRHGVVLDGEIAALFFKHGNYDLAVKSYEKVCALYSAEGWEELLADVLPDLAECQKILNDEAG YLASCVKLLSLDSGLFSSKERQGFQSEVVRLAHSEMKHLVPLDVSSLITFAGNAGPPLELCDGD PGTLSVAVWNGFPDDITLESLSLRLSASSSADEGIKAIKSSDSHVLVPGRNIISFDIPRQKPGS YVLGALTGQIGKLSFRSHGFSQDGPVETDEFMSFEKPTRPVLKVRKPRALVDITPAVSSALLMN ELQWIGLIVKPIDYSLKGGILHIDAGAELKIEESQMIEIEIYVSDMECANSANSSIKAGKVEKV PIENGKIELPDWASDVTTLVWFPVRAIDDTIARGESLVSQKQSVVDGMRMIALKLEFGVFRNQV FERTIAVHFTNPFHVSTRVVDKCNDGALLLQKRYMELTKGAADNYHRSWWKRHGVVLDGEIAAL FFKHGNYDLAVKSYEKVCALYSAEGWEELLADVLPDLAECQKILNDEAGYLASCVKLLSLDSGL FSSKERQGFQSEVVRLAHSEMKHLVPLDVSSLITFAGNAGPPLELCDGDPGTLSVAVWNGFPDD ITLESLSLRLSASSSADEGIKAIKSSDSHVLVPGRNIISFDIPRQKPGSYVLGALTGQIGKLSF RSHGFSQDGPVETDEFMSFEKPTRPVLKVRKPRALVDITPAVSSALLMNELQWIGLIVKPIDYS LKGGILHIDAGAELKIEESQMIEIEIYVSDMECANSANSSIKAGKVEKVPIENGKIELPDWASD VTTLVWFPVRAIDDTIARGESLVSQKQSVVDGMRMIALKLEFGVFRNQVFERTIAVHFTNPFHV STRVVDKCNDGALLLQKRYMELTKGAADNYHRSWWKRHGVVLDGEIAALFFKHGNYDLAVKSYE KVCALYSAEGWEELLADVLPDLAECQKILNDEAGYLASCVKLLSLDSGLFSSKERQGFQSEVVR LAHSEMKHLVPLDVSSLITFAGNAGPPLELCDGDPGTLSVAVWNGFPDDITLESLSLRLSASSS ADEGIKAIKSSDSHVLVPGRNIISFDIPRQKPGSYVLGALTGQIGKLSFRSHGFSQDGPVETDE FMSFEKPTRPVLKVRKPRALVDITPAVSSALLMNELQWIGLIVKPIDYSLKGGILHIDAGAELK IEESQMIEIEIYVSDMECANSANSSIKAGKVEKVPIENGKIELPDWASDVTTLVWFPVRAIDDT IARGESLVSQKQSVVDGMRMIALKLEFGVFRNQVFERTIAVHFTNPFHVSTRVVDKCNDGALLL Q(+) MMELYFYRKDIWSLLKVQLTITTDLGGKDMELFLMERSQLCSLSMEIMTWL(+) MLKEQSCDLSIKNNSMSFPPRSVVIVSCTFSKLHISFL(-)
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 Zm00001d041632_circ_g.2

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