Plant Circular RNA Database

Detail information of Zm00001d044099_circ_g.21

			
						 General Information
					
						CircRNA Name
						Zm00001d044099_circ_g.21
					
						ID in PlantcircBase
						zma_circ_007866
					
						Alias
						Zm03circ00117, GRMZM2G121878_C4
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 219078261-219080201  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d044099						
					
						Parent gene annotation
						
							 carbonic anhydrase1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d044095_circ_ag.1 Zm00001d044095_circ_ag.2 Zm00001d044095_circ_ag.3 Zm00001d044095_circ_ag.4 Zm00001d044096_circ_g.1 Zm00001d044096_circ_ag.1 Zm00001d044096_circ_ag.2 Zm00001d044096_circ_ag.3 Zm00001d044096_circ_ag.4 Zm00001d044099_circ_g.1 Zm00001d044099_circ_g.2 Zm00001d044099_circ_g.3 Zm00001d044099_circ_g.4 Zm00001d044099_circ_g.5 Zm00001d044099_circ_g.6 Zm00001d044099_circ_g.7 Zm00001d044099_circ_g.8 Zm00001d044099_circ_g.9 Zm00001d044099_circ_g.10 Zm00001d044099_circ_g.11 Zm00001d044099_circ_g.12 Zm00001d044099_circ_g.13 Zm00001d044099_circ_g.14 Zm00001d044099_circ_g.15 Zm00001d044099_circ_g.16 Zm00001d044099_circ_g.17 Zm00001d044099_circ_g.18 Zm00001d044099_circ_g.19 Zm00001d044099_circ_g.20 Zm00001d044099_circ_g.22 Zm00001d044099_circ_g.23 Zm00001d044099_circ_g.24 Zm00001d044099_circ_g.25 Zm00001d044099_circ_g.26 Zm00001d044099_circ_g.27 Zm00001d044099_circ_g.28 Zm00001d044099_circ_g.29 						
					
						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  
						
							CT-AC							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
						Zm00001d044099_T001:3
Zm00001d044099_T002:6
Zm00001d044099_T004:6

General Information
CircRNA Name	Zm00001d044099_circ_g.21
ID in PlantcircBase	zma_circ_007866
Alias	Zm03circ00117, GRMZM2G121878_C4
Organism	Zea mays
Position	chr3: 219078261-219080201 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d044099
Parent gene annotation	carbonic anhydrase1
Parent gene strand	-
Alternative splicing	Zm00001d044095_circ_ag.1 Zm00001d044095_circ_ag.2 Zm00001d044095_circ_ag.3 Zm00001d044095_circ_ag.4 Zm00001d044096_circ_g.1 Zm00001d044096_circ_ag.1 Zm00001d044096_circ_ag.2 Zm00001d044096_circ_ag.3 Zm00001d044096_circ_ag.4 Zm00001d044099_circ_g.1 Zm00001d044099_circ_g.2 Zm00001d044099_circ_g.3 Zm00001d044099_circ_g.4 Zm00001d044099_circ_g.5 Zm00001d044099_circ_g.6 Zm00001d044099_circ_g.7 Zm00001d044099_circ_g.8 Zm00001d044099_circ_g.9 Zm00001d044099_circ_g.10 Zm00001d044099_circ_g.11 Zm00001d044099_circ_g.12 Zm00001d044099_circ_g.13 Zm00001d044099_circ_g.14 Zm00001d044099_circ_g.15 Zm00001d044099_circ_g.16 Zm00001d044099_circ_g.17 Zm00001d044099_circ_g.18 Zm00001d044099_circ_g.19 Zm00001d044099_circ_g.20 Zm00001d044099_circ_g.22 Zm00001d044099_circ_g.23 Zm00001d044099_circ_g.24 Zm00001d044099_circ_g.25 Zm00001d044099_circ_g.26 Zm00001d044099_circ_g.27 Zm00001d044099_circ_g.28 Zm00001d044099_circ_g.29
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	CT-AC 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	Zm00001d044099_T001:3 Zm00001d044099_T002:6 Zm00001d044099_T004:6

			
						 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  
						
							GGTGCTGCAGAGAACAAACAGCTCAGGTGACTTACTCATAGACCTCGGTCTTGAACTTCTGGAA
CCCGCTCTTCAAGCGCTCGACGGTGGGGTCCATGCCaggctcccatgtgacgaactgccctttg
acgaagtcgtagtgggcgccaaccagcttgagcgtcccgccggccagcccttccttgacgaagg
ggtagctc

									
								

					

						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: 609
Transcript exons: 219078261-219078392,219078523-219078628,219078774-219078
913,219079014-219079130,219079960-219080008,219080137-21
9080201
AGGCTCCCATGTGACGAACTGCCCTTTGACGAAGTCGTAGTGGGCGCCAACCAGCTTGAGCGTC
CCGCCGGCCAGCCCTTCCTTGACGAAGGGGTAGCTCTTGAGGTTCTGGAGCGACACGTTCACGG
CCTCCTTCTCCAGGATGGAGCACTGGTCATCGAACGGCACCGATGCGTGCTCTTTCTTCACCTT
GTTCTTGGCAGGGCTGCCGATCCTGACCCAGTCCTCCACGAAGTGGAAGTTGTCGGGCGCGCCG
TCCTTGAGGGAGAGGAGCGCCCTGATGCCACCGCAGCAGCTGTGGCCAATGACCACGATGACCT
GCACCTTGAGCGCGCACACGGCGTACTCGATGGCGGACCCGGTGCCGGCGTACTTGATCTTGTC
GTAGGGTGGGACCATGGAGGCGATGTTGCGGACGGTGAATGCCTCGCCGGGCTGCAGGCCCAGT
GTCACCGACGGGCACACGCGGGAGTCGGAGCAGGCGAACACCATGTACCTGGGGCTCTGGCCGG
ACTTGAGAGGCTCGAACAGCTCCGGCTTCTTGTCATAGACCTCGGTCTTGAACTTCTGGAACCC
GCTCTTCAAGCGCTCGACGGTGGGGTCCATGCC
						
					

						Genomic sequence
						
							AGGCTCCCATGTGACGAACTGCCCTTTGACGAAGTCGTAGTGGGCGCCAACCAGCTTGAGCGTC
CCGCCGGCCAGCCCTTCCTTGACGAAGGGGTAGCTCTTGAGGTTCTGGAGCGACACGTTCACGG
CCTCCTGCAGAAACACACACACACAATTAAAGGTCGATGATGATCCTTGAATTTGTTCGTTGAT
GAGCGAAACCAATAATATATAATCCATTATTCATACGGTCGGTGTGTGTGCGTGCGTTTACGTT
ACGTACCTTCTCCAGGATGGAGCACTGGTCATCGAACGGCACCGATGCGTGCTCTTTCTTCACC
TTGTTCTTGGCAGGGCTGCCGATCCTGACCCAGTCCTCCACGAAGTGGCTGGATATACATGGCC
AGATTTAAACCAACGACAGACAACACGCTGAGCAGGTTACACTACACGGGGTTCTAATTTTTTT
CTCTCTCTCTAAATAAAACTGCTATATATATTTTTTATACGCATTTTACGATGACTACTGCTTA
CAAGTTGTCGGGCGCGCCGTCCTTGAGGGAGAGGAGCGCCCTGATGCCACCGCAGCAGCTGTGG
CCAATGACCACGATGACCTGCACCTTGAGCGCGCACACGGCGTACTCGATGGCGGACCCGGTGC
CGGCGTACTTGATCTGCAGTTTGGCCAAAACGGAAGACGACCGTGTGAGTAATATTAGTGTGGC
TGATACCACCGTTGCATGCGTCGATCGGTGTTTGCTCGTACGTACGTACCTTGTCGTAGGGTGG
GACCATGGAGGCGATGTTGCGGACGGTGAATGCCTCGCCGGGCTGCAGGCCCAGTGTCACCGAC
GGGCACACGCGGGAGTCGGAGCAGGCGAACACCATGTACTGCAGCGGAGGGGAAATCAGTCACC
GTCAGGTCGGTGAAAAGAGGGAGGAGCACGTACGCAAAACCAAGTTCGATCGGTTTCCCATGGC
TCTTATCGATAAGCAGGTAAGCAGATCATCGGCCCTGGTCATCTCATCAGTGGAAGATTTCTGG
CGCCCCAAAAAGGCGGCAAGCTTTTGATTGAGTTTCGATTTGACCCTCCTCCTCTGGCTCTGTA
AGTACTAGTATTAGTTGCGACGAGGATGCTCTACGCGCGCTCTGGTTTCCGTGTGGCTCTCTAG
CACGCTGGTCTATCTTTATCCCATTATATTCCCTGCTGGCGGCCAATAGCAAGAACATTTCCGT
TCCGGGCATCATCAGGAGGCGTGATGCTGCTGCCATATCTTCCACAAAAATTGGGACATCTGTA
GTGTAGCATATTTCCTCGAGGACCGGCAACAGGCCCAACATTTATGCACCTAACTTTTTTGCAA
GGGGTGCGAGAGGGGAAGGGGACACGTCCAAGCCAACTACTCACGATGACGACAGGATCCCGTG
AGGTGGGGCGAGGGACAGTGCTGGACGCCTGGACCACACATTAGCCATGGAATGCTGATAATAC
ACACCTAGTATTATCTGCATGGTTCCCCTTGCAGCTTTGGTCCAGGGGAGACAGGGTGGATGCT
GAATAGTGCAGGTGCGGCAGGGTGTTGCAGCAGCAATGGTGATGAGCTACAGAGCTAGTAATAG
GAACGAGCAACTAGTACTACTCAATCTTTTGGCCCAGTTGGCCGGAGTCGCTATAGACACACAA
CAAAATATATATAAAAAAACATTAGCAGCGCATACCCTGGGGCTCTGGCCGGACTTGAGAGGCT
CGAACAGCTCCGGCTTCTTGCTGCGAACAAAGATCAGCGGAGCACATGATCAGTCGGAGTCGGA
GCTCACTGAATTCACAAACAAACAAAAAAGGAAATAGAAACCAAACGCGGGTGCTGCAGAGAAC
AAACAGCTCAGGTGACTTACTCATAGACCTCGGTCTTGAACTTCTGGAACCCGCTCTTCAAGCG
CTCGACGGTGGGGTCCATGCC
						
					

			
		

Sequences
Splice junction sequence	GGTGCTGCAGAGAACAAACAGCTCAGGTGACTTACTCATAGACCTCGGTCTTGAACTTCTGGAA CCCGCTCTTCAAGCGCTCGACGGTGGGGTCCATGCCaggctcccatgtgacgaactgccctttg acgaagtcgtagtgggcgccaaccagcttgagcgtcccgccggccagcccttccttgacgaagg ggtagctc
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: 609 Transcript exons: 219078261-219078392,219078523-219078628,219078774-219078 913,219079014-219079130,219079960-219080008,219080137-21 9080201 AGGCTCCCATGTGACGAACTGCCCTTTGACGAAGTCGTAGTGGGCGCCAACCAGCTTGAGCGTC CCGCCGGCCAGCCCTTCCTTGACGAAGGGGTAGCTCTTGAGGTTCTGGAGCGACACGTTCACGG CCTCCTTCTCCAGGATGGAGCACTGGTCATCGAACGGCACCGATGCGTGCTCTTTCTTCACCTT GTTCTTGGCAGGGCTGCCGATCCTGACCCAGTCCTCCACGAAGTGGAAGTTGTCGGGCGCGCCG TCCTTGAGGGAGAGGAGCGCCCTGATGCCACCGCAGCAGCTGTGGCCAATGACCACGATGACCT GCACCTTGAGCGCGCACACGGCGTACTCGATGGCGGACCCGGTGCCGGCGTACTTGATCTTGTC GTAGGGTGGGACCATGGAGGCGATGTTGCGGACGGTGAATGCCTCGCCGGGCTGCAGGCCCAGT GTCACCGACGGGCACACGCGGGAGTCGGAGCAGGCGAACACCATGTACCTGGGGCTCTGGCCGG ACTTGAGAGGCTCGAACAGCTCCGGCTTCTTGTCATAGACCTCGGTCTTGAACTTCTGGAACCC GCTCTTCAAGCGCTCGACGGTGGGGTCCATGCC
Genomic sequence	AGGCTCCCATGTGACGAACTGCCCTTTGACGAAGTCGTAGTGGGCGCCAACCAGCTTGAGCGTC CCGCCGGCCAGCCCTTCCTTGACGAAGGGGTAGCTCTTGAGGTTCTGGAGCGACACGTTCACGG CCTCCTGCAGAAACACACACACACAATTAAAGGTCGATGATGATCCTTGAATTTGTTCGTTGAT GAGCGAAACCAATAATATATAATCCATTATTCATACGGTCGGTGTGTGTGCGTGCGTTTACGTT ACGTACCTTCTCCAGGATGGAGCACTGGTCATCGAACGGCACCGATGCGTGCTCTTTCTTCACC TTGTTCTTGGCAGGGCTGCCGATCCTGACCCAGTCCTCCACGAAGTGGCTGGATATACATGGCC AGATTTAAACCAACGACAGACAACACGCTGAGCAGGTTACACTACACGGGGTTCTAATTTTTTT CTCTCTCTCTAAATAAAACTGCTATATATATTTTTTATACGCATTTTACGATGACTACTGCTTA CAAGTTGTCGGGCGCGCCGTCCTTGAGGGAGAGGAGCGCCCTGATGCCACCGCAGCAGCTGTGG CCAATGACCACGATGACCTGCACCTTGAGCGCGCACACGGCGTACTCGATGGCGGACCCGGTGC CGGCGTACTTGATCTGCAGTTTGGCCAAAACGGAAGACGACCGTGTGAGTAATATTAGTGTGGC TGATACCACCGTTGCATGCGTCGATCGGTGTTTGCTCGTACGTACGTACCTTGTCGTAGGGTGG GACCATGGAGGCGATGTTGCGGACGGTGAATGCCTCGCCGGGCTGCAGGCCCAGTGTCACCGAC GGGCACACGCGGGAGTCGGAGCAGGCGAACACCATGTACTGCAGCGGAGGGGAAATCAGTCACC GTCAGGTCGGTGAAAAGAGGGAGGAGCACGTACGCAAAACCAAGTTCGATCGGTTTCCCATGGC TCTTATCGATAAGCAGGTAAGCAGATCATCGGCCCTGGTCATCTCATCAGTGGAAGATTTCTGG CGCCCCAAAAAGGCGGCAAGCTTTTGATTGAGTTTCGATTTGACCCTCCTCCTCTGGCTCTGTA AGTACTAGTATTAGTTGCGACGAGGATGCTCTACGCGCGCTCTGGTTTCCGTGTGGCTCTCTAG CACGCTGGTCTATCTTTATCCCATTATATTCCCTGCTGGCGGCCAATAGCAAGAACATTTCCGT TCCGGGCATCATCAGGAGGCGTGATGCTGCTGCCATATCTTCCACAAAAATTGGGACATCTGTA GTGTAGCATATTTCCTCGAGGACCGGCAACAGGCCCAACATTTATGCACCTAACTTTTTTGCAA GGGGTGCGAGAGGGGAAGGGGACACGTCCAAGCCAACTACTCACGATGACGACAGGATCCCGTG AGGTGGGGCGAGGGACAGTGCTGGACGCCTGGACCACACATTAGCCATGGAATGCTGATAATAC ACACCTAGTATTATCTGCATGGTTCCCCTTGCAGCTTTGGTCCAGGGGAGACAGGGTGGATGCT GAATAGTGCAGGTGCGGCAGGGTGTTGCAGCAGCAATGGTGATGAGCTACAGAGCTAGTAATAG GAACGAGCAACTAGTACTACTCAATCTTTTGGCCCAGTTGGCCGGAGTCGCTATAGACACACAA CAAAATATATATAAAAAAACATTAGCAGCGCATACCCTGGGGCTCTGGCCGGACTTGAGAGGCT CGAACAGCTCCGGCTTCTTGCTGCGAACAAAGATCAGCGGAGCACATGATCAGTCGGAGTCGGA GCTCACTGAATTCACAAACAAACAAAAAAGGAAATAGAAACCAAACGCGGGTGCTGCAGAGAAC AAACAGCTCAGGTGACTTACTCATAGACCTCGGTCTTGAACTTCTGGAACCCGCTCTTCAAGCG CTCGACGGTGGGGTCCATGCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.06287211

Conservation Information
Conserved circRNAs	NA
PMCS	0.06287211

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							219080200-219078263(-)
219078272-219080139(-)
						
						Potential amino acid sequence
						
							MDPTVERLKSGFQKFKTEVYDKKPELFEPLKSGQSPRYMVFACSDSRVCPSVTLGLQPGEAFTV
RNIASMVPPYDKIKYAGTGSAIEYAVCALKVQVIVVIGHSCCGGIRALLSLKDGAPDNFHFVED
WVRIGSPAKNKVKKEHASVPFDDQCSILEKEAVNVSLQNLKSYPFVKEGLAGGTLKLVGAHYDF
VKGQFVTWEPGMDPTVERLKSGFQKFKTEVYDKKPELFEPLKSGQSPRYMVFACSDSRVCPSVT
LGLQPGEAFTVRNIASMVPPYDKIKYAGTGSAIEYAVCALKVQVIVVIGHSCCGGIRALLSLKD
GAPDNFHFVEDWVRIGSPAKNKVKKEHASVPFDDQCSILEKEAVNVSLQNLKSYPFVKEGLAGG
TLKLVGAHYDFVKGQFVTWEPGMDPTVERLKSGFQKFKTEVYDKKPELFEPLKSGQSPRYMVFA
CSDSRVCPSVTLGLQPGEAFTVRNIASMVPPYDKIKYAGTGSAIEYAVCALKVQVIVVIGHSCC
GGIRALLSLKDGAPDNFHFVEDWVRIGSPAKNKVKKEHASVPFDDQCSILEKEAVNVSLQNLKS
YPFVKEGLAGGTLKLVGAHYDFVKGQFVTWEPGMDPTVERLKSGFQKFKTEVYDKKPELFEPLK
SGQSPRYMVFACSDSRVCPSVTLGLQPGEAFTVRNIASMVPPYDKIKYAGTGSAIEYAVCALKV
QVIVVIGHSCCGGIRALLSLKDGAPDNFHFVEDWVRIGSPAKNKVKKEHASVPFDDQCSILEKE
AVNVSLQNLKSYPFVKEGLAGGTLKLVGAHYDFVKGQFVTWEP(-)
MGAWHGPHRRALEERVPEVQDRGL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	219080200-219078263(-) 219078272-219080139(-)
Potential amino acid sequence	MDPTVERLKSGFQKFKTEVYDKKPELFEPLKSGQSPRYMVFACSDSRVCPSVTLGLQPGEAFTV RNIASMVPPYDKIKYAGTGSAIEYAVCALKVQVIVVIGHSCCGGIRALLSLKDGAPDNFHFVED WVRIGSPAKNKVKKEHASVPFDDQCSILEKEAVNVSLQNLKSYPFVKEGLAGGTLKLVGAHYDF VKGQFVTWEPGMDPTVERLKSGFQKFKTEVYDKKPELFEPLKSGQSPRYMVFACSDSRVCPSVT LGLQPGEAFTVRNIASMVPPYDKIKYAGTGSAIEYAVCALKVQVIVVIGHSCCGGIRALLSLKD GAPDNFHFVEDWVRIGSPAKNKVKKEHASVPFDDQCSILEKEAVNVSLQNLKSYPFVKEGLAGG TLKLVGAHYDFVKGQFVTWEPGMDPTVERLKSGFQKFKTEVYDKKPELFEPLKSGQSPRYMVFA CSDSRVCPSVTLGLQPGEAFTVRNIASMVPPYDKIKYAGTGSAIEYAVCALKVQVIVVIGHSCC GGIRALLSLKDGAPDNFHFVEDWVRIGSPAKNKVKKEHASVPFDDQCSILEKEAVNVSLQNLKS YPFVKEGLAGGTLKLVGAHYDFVKGQFVTWEPGMDPTVERLKSGFQKFKTEVYDKKPELFEPLK SGQSPRYMVFACSDSRVCPSVTLGLQPGEAFTVRNIASMVPPYDKIKYAGTGSAIEYAVCALKV QVIVVIGHSCCGGIRALLSLKDGAPDNFHFVEDWVRIGSPAKNKVKKEHASVPFDDQCSILEKE AVNVSLQNLKSYPFVKEGLAGGTLKLVGAHYDFVKGQFVTWEP(-) MGAWHGPHRRALEERVPEVQDRGL*(-)
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 Zm00001d044099_circ_g.21

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