Plant Circular RNA Database

Detail information of Zm00001d025734_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d025734_circ_g.1
					
						ID in PlantcircBase
						zma_circ_010322
					
						Alias
						zma_circ_0000056
					
						Organism
						
							Zea mays						
					
						Position
						
							chr10: 127909873-127913484  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d025734						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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
						Zm00001d025734_T011:7
Zm00001d025734_T012:7
Zm00001d025734_T001:6
Zm00001d025734_T017:4
Zm00001d025734_T016:6
Zm00001d025734_T007:7
Zm00001d025734_T010:7
Zm00001d025734_T009:6
Zm00001d025734_T002:6
Zm00001d025734_T013:7
Zm00001d025734_T005:7
Zm00001d025734_T015:7
Zm00001d025734_T014:7
Zm00001d025734_T003:7
Zm00001d025734_T008:7
Zm00001d025734_T006:6

General Information
CircRNA Name	Zm00001d025734_circ_g.1
ID in PlantcircBase	zma_circ_010322
Alias	zma_circ_0000056
Organism	Zea mays
Position	chr10: 127909873-127913484 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d025734
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	NA
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	Zm00001d025734_T011:7 Zm00001d025734_T012:7 Zm00001d025734_T001:6 Zm00001d025734_T017:4 Zm00001d025734_T016:6 Zm00001d025734_T007:7 Zm00001d025734_T010:7 Zm00001d025734_T009:6 Zm00001d025734_T002:6 Zm00001d025734_T013:7 Zm00001d025734_T005:7 Zm00001d025734_T015:7 Zm00001d025734_T014:7 Zm00001d025734_T003:7 Zm00001d025734_T008:7 Zm00001d025734_T006:6

			
						 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  
						
							TCATTGGGGTTCGTGGAACAGAGACACCAGAGGATCTCATAACTGATGGATTATGCAGAGAATG
TGCTTTTACTATGGAAGATTTGGATGGACTAGTAAAgtgaggtacaaacgctggttgtggtgga
ccagatttggtatggcagttggtgcattgcagttggttgcagcaatttatctcatgtttgtcat
tgtaagag

									
								

					

						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
						
							GTGAGGTACAAACGCTGGTTGTGGTGGACCAGATTTGGTATGGCAGTTGGTGCATTGCAGTTGG
TTGCAGCAATTTATCTCATGTTTGTCATTGTAAGAGATCTCTCAAATGAAAGAAGATCCACTTC
CTGCTTCTTTGGTATGTTGGTCGCCATTCTGAGCTATTTATTTCCTAACTTTGTACATAATTTT
TTACAAGTTCTTGTTTGCTGGTAGTTTACAATCACATGAACTTCATACATATACAACGACACAC
ATAAAGTGGGAAAAACTTTCGAGCACCCTTTTCTTGAAGTTCCATATGAAATTTTTTTAGTGAA
TGTACCACAAACATGCTAACTACTCTCACTTTGAGCAGATTTTGCTTCAATAAATGCACTGAAA
CATAGTTAATTAACACAATCTAGTAACAACTCTTAAGAGTATACACATTTCATTATACTATCCT
AAGGTTTTATTTTCTGCTGTGCTAATCCACTCATCTACTTGGGATTGAATAAGTCGTTTGGATG
GTTTATAATCTAGGACAGGATAAAGCTGATCGGGTGTCAGTACGAGCACTTATTGCTTTATTTC
TTATCCTTTCATGGGTTGTGATCATTGTCCAATGCTTCACGGGTTCTGATATATTGAGGTGGCG
ATCATTTTATGCAACACATGATATGGCATGGAAAGCTCATTACAGGGAAGTGTTCGACCATGGA
ATCCGAGAAGCTTTGTGCTGCCTAGGACGTGCAAAATATCTGTAGGTGGCAGTCCAATGATTTT
ACACCTTGGAACTCCAATATTAGTTTAGTTATTTGAGCTGATAATTATATTTACTAATTTAGAA
CTGTATTGGAAGAAGATGAGGTTTATTCTGTTGCAAGACTCCTTGGTGATTTGGTTGCATATCG
TGCTTCTGGGACAGGACATTTGGAGCTCTTAGCAGGTTGGCTCTTTGACGCTGCTTTCATATAA
AAAATCTCAGTGTTTGCCTGTTTTTCCCTTTTAATTCATTTGACTTGCAATTAGTCAACAAACA
TTATGCAGTTTGTTGTATAACGGTCAACAGTCAACACATGTAGCTATGTTAGGACTTCATGCAC
ACAGATATCAACAAGTAATTTCTATTAGGTTTAAAGTTCAGGTGTTCGACATACAAATCACATC
ACTTGATTCACCAGTGTGTGATATGTTTATTGCTACCTCAAAAAAGAATACAATGACAAAAATG
CTACTATGATTGGATCTGTGTGTCCACCCTCCTTTTTTGCCTTCTAATTTGTCAATATATTTTC
CCCTACTATTTGCAAGATCCTTCGATTTTATCCATGGATGATTAACTCCAATGTGACTGGAATT
ATGTTGTGTTCCTTTGTGTAAAACATATGATTTTGCGAATCTATGTATTATGTTTCAATTGAAT
TGTTTTTGGTTATTATTGGTGTATGTAGAGGTACTGAATATCTCCTATATTGTACATGTTGTAG
GGCTTGCTCTATTGCAGAAGCACGGGAATTTATCTGAATTGCAGACTGACCTTGTGGAGGCATC
CCATGAGCTTATGCAAGAAGCTGCTTTCCTCCATCCATTTGCGGAAGCATGTTATACGGTTAGA
TACTGATGCTGTTGGTTGGGACATCATTTCTGCTCCTGCCAGCCTACTGTGGTTGCAACTGACA
TGATTGTACTGCAGGGACCACTTCTTGATTTTGGACGAAATCCTATCCTGTTTCCCTGTGCATG
GGTTTATAGACAAGGTGTGTTAACTCCATGGGCACGCAGAAGGTATGTAATAAGCTCTGATGCT
TCTATTACATGCTAATTTTTTAGAGTTTTATGTTTACGGTTCGAACATTAGCCCATTTGGCCAT
TTCAGCTTGGTGTCTGTCTTTAAACTGGCCAAATCAATTAAGCTAACCTTCAGTATTGTTTCTG
CTTAATCTTCCCTGTAGTGAAGTTGAATCTTGTTACATTTTCAATCTAAAACCATTCTGTCCTC
GTGACATGTTGATCTGCATTGTTTGTCCTATTAATGACCAGAGTAAGATCAACGCACTGAGAAA
AGGTAGAATACCGTATTGATGTTTTGCTATGTAACGACTACATATTAATTTTTGTGCAGACGCC
CTGCACTTGATGGTGATAATTGGTGGCGAGGCCATGCTGCAGCTTTCCTTAGATTTGTTAATAT
ACCACCTAAAGCACTTCTGAAAGGACGTGTTTGCCAGGTAACCTCATGTGTGTTTAGTGCCATC
AGGGTTTATGATGAGATAATGTGGTTCAGCTAGTTATACATAACATTCTATGCCACCAGTCTTG
AAAGCTAGATTCCGCGGTTTCTGGAGTTAGGTGCTGCAGCCCAATATGAGACAGGATACACATT
GTGTGTTGTATAGTTTCTTCTTCCTTCAAAAGGCACAAAAGAAAGGTCTCAATTCTGCAGTAAT
CCTAGTGGCCTGGTGGTTTTGGAAACACAGAAACTCATGTGTCTTTCATGGGGCTACTCCGAAC
ATCTCTAGGATTTCTCAAGACATTAGGGATGATGACAAGATGTGGGGTTTAGCTGGGGCTGCAG
GACTGAGAGGTTTGTGGCCTTAACTCAGGGGGAGTTCAGGCTTGGTCGTTTTTTGTCTACCCAT
CTGTGTAACAACTCCCTAGCAAACTAGGAAACCACCTTTATTTGGTGGTTTTTTGTGCAGGTCT
ATTTTGGACCTTTTCTCCTTCTTATGGTCTGTTTGGCAGGGCTCTGGCTTGCCCCAAAACAGCT
CTACCTCTGGCTTTTTCTGAAAAGCAACTTTTTTGGTAGAGCTGAAGCCATTTCACAAATTGTT
TGGCAGAACGGCTTATCCTAGAGCCAGAGCCATTTCCCTGTATTAAAGTGCCAGAGCTAGGGCC
GGTGAAGCTACGATTTGTGTCTTCTTCTCCGTAGCACAAAAATGTCTGACTTTTAGGTGCTTTT
CCCAGTAAGTCATTTTAAAAAAAGGCGTTTGGCAAGACTTTGGCTTTTTCCAGAGAAGCCCTGC
CAAACGGGCTCTTAATATAATGATGCGCAACTCTCCTACGCGTTAGAGAAAACAAATACATAAC
ATTCTAGAGTTCATTAGCTGCCTTGTCCTTTATTTTTTCCCTTCATTTAGATGATCCTTAGTGA
TTCTGGCTCTGGATTCTGCTTATAACCTAACTACGACCTTTTCTATAAATTATTTTGAGTTGGC
TAAAGAACATCATGCTTTTGTTGGGGGTCCATGGATATAATTGATCAATCTAAAGTAGCTTTGA
ACTTGGCTTTGACATGTGATCTGTTACACTGAACCCTGTTTTTTGTGCACACTGACACACTTTG
GTTGCATTCTGTTCATTGAAGACATTATTGCACAATTGAACAAACAAAAGTTAGTAGCGAGCAT
ATACTTGTTGATGTTTCTTTGTTAAACATTGAACTTAGGGTGATCTGCTTTACTCATCAATGCA
GAGCAAGCGTGAAGCTGCTTATTTTGTTGTGGTTCTCCATGACAAAAGAACTGTTGTCATTGGG
GTTCGTGGAACAGAGACACCAGAGGATCTCATAACTGATGGATTATGCAGAGAATGTGCTTTTA
CTATGGAAGATTTGGATGGACTAGTAAA
						
					

			
		

Sequences
Splice junction sequence	TCATTGGGGTTCGTGGAACAGAGACACCAGAGGATCTCATAACTGATGGATTATGCAGAGAATG TGCTTTTACTATGGAAGATTTGGATGGACTAGTAAAgtgaggtacaaacgctggttgtggtgga ccagatttggtatggcagttggtgcattgcagttggttgcagcaatttatctcatgtttgtcat tgtaagag
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	GTGAGGTACAAACGCTGGTTGTGGTGGACCAGATTTGGTATGGCAGTTGGTGCATTGCAGTTGG TTGCAGCAATTTATCTCATGTTTGTCATTGTAAGAGATCTCTCAAATGAAAGAAGATCCACTTC CTGCTTCTTTGGTATGTTGGTCGCCATTCTGAGCTATTTATTTCCTAACTTTGTACATAATTTT TTACAAGTTCTTGTTTGCTGGTAGTTTACAATCACATGAACTTCATACATATACAACGACACAC ATAAAGTGGGAAAAACTTTCGAGCACCCTTTTCTTGAAGTTCCATATGAAATTTTTTTAGTGAA TGTACCACAAACATGCTAACTACTCTCACTTTGAGCAGATTTTGCTTCAATAAATGCACTGAAA CATAGTTAATTAACACAATCTAGTAACAACTCTTAAGAGTATACACATTTCATTATACTATCCT AAGGTTTTATTTTCTGCTGTGCTAATCCACTCATCTACTTGGGATTGAATAAGTCGTTTGGATG GTTTATAATCTAGGACAGGATAAAGCTGATCGGGTGTCAGTACGAGCACTTATTGCTTTATTTC TTATCCTTTCATGGGTTGTGATCATTGTCCAATGCTTCACGGGTTCTGATATATTGAGGTGGCG ATCATTTTATGCAACACATGATATGGCATGGAAAGCTCATTACAGGGAAGTGTTCGACCATGGA ATCCGAGAAGCTTTGTGCTGCCTAGGACGTGCAAAATATCTGTAGGTGGCAGTCCAATGATTTT ACACCTTGGAACTCCAATATTAGTTTAGTTATTTGAGCTGATAATTATATTTACTAATTTAGAA CTGTATTGGAAGAAGATGAGGTTTATTCTGTTGCAAGACTCCTTGGTGATTTGGTTGCATATCG TGCTTCTGGGACAGGACATTTGGAGCTCTTAGCAGGTTGGCTCTTTGACGCTGCTTTCATATAA AAAATCTCAGTGTTTGCCTGTTTTTCCCTTTTAATTCATTTGACTTGCAATTAGTCAACAAACA TTATGCAGTTTGTTGTATAACGGTCAACAGTCAACACATGTAGCTATGTTAGGACTTCATGCAC ACAGATATCAACAAGTAATTTCTATTAGGTTTAAAGTTCAGGTGTTCGACATACAAATCACATC ACTTGATTCACCAGTGTGTGATATGTTTATTGCTACCTCAAAAAAGAATACAATGACAAAAATG CTACTATGATTGGATCTGTGTGTCCACCCTCCTTTTTTGCCTTCTAATTTGTCAATATATTTTC CCCTACTATTTGCAAGATCCTTCGATTTTATCCATGGATGATTAACTCCAATGTGACTGGAATT ATGTTGTGTTCCTTTGTGTAAAACATATGATTTTGCGAATCTATGTATTATGTTTCAATTGAAT TGTTTTTGGTTATTATTGGTGTATGTAGAGGTACTGAATATCTCCTATATTGTACATGTTGTAG GGCTTGCTCTATTGCAGAAGCACGGGAATTTATCTGAATTGCAGACTGACCTTGTGGAGGCATC CCATGAGCTTATGCAAGAAGCTGCTTTCCTCCATCCATTTGCGGAAGCATGTTATACGGTTAGA TACTGATGCTGTTGGTTGGGACATCATTTCTGCTCCTGCCAGCCTACTGTGGTTGCAACTGACA TGATTGTACTGCAGGGACCACTTCTTGATTTTGGACGAAATCCTATCCTGTTTCCCTGTGCATG GGTTTATAGACAAGGTGTGTTAACTCCATGGGCACGCAGAAGGTATGTAATAAGCTCTGATGCT TCTATTACATGCTAATTTTTTAGAGTTTTATGTTTACGGTTCGAACATTAGCCCATTTGGCCAT TTCAGCTTGGTGTCTGTCTTTAAACTGGCCAAATCAATTAAGCTAACCTTCAGTATTGTTTCTG CTTAATCTTCCCTGTAGTGAAGTTGAATCTTGTTACATTTTCAATCTAAAACCATTCTGTCCTC GTGACATGTTGATCTGCATTGTTTGTCCTATTAATGACCAGAGTAAGATCAACGCACTGAGAAA AGGTAGAATACCGTATTGATGTTTTGCTATGTAACGACTACATATTAATTTTTGTGCAGACGCC CTGCACTTGATGGTGATAATTGGTGGCGAGGCCATGCTGCAGCTTTCCTTAGATTTGTTAATAT ACCACCTAAAGCACTTCTGAAAGGACGTGTTTGCCAGGTAACCTCATGTGTGTTTAGTGCCATC AGGGTTTATGATGAGATAATGTGGTTCAGCTAGTTATACATAACATTCTATGCCACCAGTCTTG AAAGCTAGATTCCGCGGTTTCTGGAGTTAGGTGCTGCAGCCCAATATGAGACAGGATACACATT GTGTGTTGTATAGTTTCTTCTTCCTTCAAAAGGCACAAAAGAAAGGTCTCAATTCTGCAGTAAT CCTAGTGGCCTGGTGGTTTTGGAAACACAGAAACTCATGTGTCTTTCATGGGGCTACTCCGAAC ATCTCTAGGATTTCTCAAGACATTAGGGATGATGACAAGATGTGGGGTTTAGCTGGGGCTGCAG GACTGAGAGGTTTGTGGCCTTAACTCAGGGGGAGTTCAGGCTTGGTCGTTTTTTGTCTACCCAT CTGTGTAACAACTCCCTAGCAAACTAGGAAACCACCTTTATTTGGTGGTTTTTTGTGCAGGTCT ATTTTGGACCTTTTCTCCTTCTTATGGTCTGTTTGGCAGGGCTCTGGCTTGCCCCAAAACAGCT CTACCTCTGGCTTTTTCTGAAAAGCAACTTTTTTGGTAGAGCTGAAGCCATTTCACAAATTGTT TGGCAGAACGGCTTATCCTAGAGCCAGAGCCATTTCCCTGTATTAAAGTGCCAGAGCTAGGGCC GGTGAAGCTACGATTTGTGTCTTCTTCTCCGTAGCACAAAAATGTCTGACTTTTAGGTGCTTTT CCCAGTAAGTCATTTTAAAAAAAGGCGTTTGGCAAGACTTTGGCTTTTTCCAGAGAAGCCCTGC CAAACGGGCTCTTAATATAATGATGCGCAACTCTCCTACGCGTTAGAGAAAACAAATACATAAC ATTCTAGAGTTCATTAGCTGCCTTGTCCTTTATTTTTTCCCTTCATTTAGATGATCCTTAGTGA TTCTGGCTCTGGATTCTGCTTATAACCTAACTACGACCTTTTCTATAAATTATTTTGAGTTGGC TAAAGAACATCATGCTTTTGTTGGGGGTCCATGGATATAATTGATCAATCTAAAGTAGCTTTGA ACTTGGCTTTGACATGTGATCTGTTACACTGAACCCTGTTTTTTGTGCACACTGACACACTTTG GTTGCATTCTGTTCATTGAAGACATTATTGCACAATTGAACAAACAAAAGTTAGTAGCGAGCAT ATACTTGTTGATGTTTCTTTGTTAAACATTGAACTTAGGGTGATCTGCTTTACTCATCAATGCA GAGCAAGCGTGAAGCTGCTTATTTTGTTGTGGTTCTCCATGACAAAAGAACTGTTGTCATTGGG GTTCGTGGAACAGAGACACCAGAGGATCTCATAACTGATGGATTATGCAGAGAATGTGCTTTTA CTATGGAAGATTTGGATGGACTAGTAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.113622972

Conservation Information
Conserved circRNAs	NA
PMCS	0.113622972

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							127913438-127910085(+)
127910383-127909873(+)
127909929-127913479(-)
						
						Potential amino acid sequence
						
							MQRMCFYYGRFGWTSKVRYKRWLWWTRFGMAVGALQLVAAIYLMFVIVRDLSNERRSTSCFFGM
LVAILSYLFPNFVHNFLQVLVCW*(+)
MVYNLGQDKADRVSVRALIALFLILSWVVIIVQCFTGSDILRWRSFYATHDMAWKAHYREVFDH
GIREALCCLGRAKYLTVLEEDEVYSVARLLGDLVAYRASGTGHLELLAGLALLQKHGNLSELQT
DLVEASHELMQEAAFLHPFAEACYTGPLLDFGRNPILFPCAWVYRQGVLTPWARRRRPALDGDN
WWRGHAAAFLRFVNIPPKALLKGRVCQSKREAAYFVVVLHDKRTVVIGVRGTETPEDLITDGLC
RECAFTMEDLDGLVK*(+)
MHQLPYQIWSTTTSVCTSLY*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	127913438-127910085(+) 127910383-127909873(+) 127909929-127913479(-)
Potential amino acid sequence	MQRMCFYYGRFGWTSKVRYKRWLWWTRFGMAVGALQLVAAIYLMFVIVRDLSNERRSTSCFFGM LVAILSYLFPNFVHNFLQVLVCW(+) MVYNLGQDKADRVSVRALIALFLILSWVVIIVQCFTGSDILRWRSFYATHDMAWKAHYREVFDH GIREALCCLGRAKYLTVLEEDEVYSVARLLGDLVAYRASGTGHLELLAGLALLQKHGNLSELQT DLVEASHELMQEAAFLHPFAEACYTGPLLDFGRNPILFPCAWVYRQGVLTPWARRRRPALDGDN WWRGHAAAFLRFVNIPPKALLKGRVCQSKREAAYFVVVLHDKRTVVIGVRGTETPEDLITDGLC RECAFTMEDLDGLVK(+) MHQLPYQIWSTTTSVCTSLY*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d025734_circ_g.1

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