Plant Circular RNA Database

Detail information of Zm00001d022381_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d022381_circ_g.1
					
						ID in PlantcircBase
						zma_circ_002627
					
						Alias
						circ1232
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 176482076-176484603  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d022381						
					
						Parent gene annotation
						
							NADPH-dependent thioredoxin reductase 3
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d022381_circ_g.2 						
					
						Support reads
						3
					
						Tissues
						seedling leaves
					
						Exon boundary  
						
							No-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-TA							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
						Zm00001d022381_T010:6
Zm00001d022381_T018:6
Zm00001d022381_T016:7
Zm00001d022381_T014:6
Zm00001d022381_T015:5
Zm00001d022381_T008:6
Zm00001d022381_T019:5
Zm00001d022381_T017:6
Zm00001d022381_T011:6
Zm00001d022381_T005:6
Zm00001d022381_T006:6

General Information
CircRNA Name	Zm00001d022381_circ_g.1
ID in PlantcircBase	zma_circ_002627
Alias	circ1232
Organism	Zea mays
Position	chr7: 176482076-176484603 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d022381
Parent gene annotation	NADPH-dependent thioredoxin reductase 3
Parent gene strand	+
Alternative splicing	Zm00001d022381_circ_g.2
Support reads	3
Tissues	seedling leaves
Exon boundary	No-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-TA 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	Zm00001d022381_T010:6 Zm00001d022381_T018:6 Zm00001d022381_T016:7 Zm00001d022381_T014:6 Zm00001d022381_T015:5 Zm00001d022381_T008:6 Zm00001d022381_T019:5 Zm00001d022381_T017:6 Zm00001d022381_T011:6 Zm00001d022381_T005:6 Zm00001d022381_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  
						
							TTGTTGAAATTGACATCGAGGAGGATCCTGAAATAGCAGAAGCTGCAGGCATCATGGGAACACC
TTGTGTTCAATTTTTTAAGAACAAAGAAATGCTCAGggtgaaatgtcatagtctaattattgca
actggagctacggctaagcgcctccgtctgcctcgtgaagatgaattttggagtagaggcatca
gcgcatgt

									
								

					

						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
						
							GGTGAAATGTCATAGTCTAATTATTGCAACTGGAGCTACGGCTAAGCGCCTCCGTCTGCCTCGT
GAAGATGAATTTTGGAGTAGAGGCATCAGCGCATGTGCAATATGTGATGGAGCTTCACCACTTT
TCAAGGGCCAGGTTCTTGCAGTTGTTGGGGGTGGTGATGTAGCTACAGAGGAAGCAGTATATTT
GACAAAATATGCTCGACATGTTCATTTACTAGTTAGAAAGGATCAGCTACGGGCTTCCAAAGCT
ATGCAGGACAGGTAAAATAATTTCAATTCTTTTTCCTAAGAATATTCTGTTCTGTTCACACAGA
CATACTACCAGCAGATTGCCAGTATTTCACTTATCTTGGGCATCAGCACTTATTAGGAGTGATA
GTGGATTGAATTATCTCCTTTTAGAAGGGCAGGCCTGGTGTAAGAGCTGTCTCCCTGAGTCACC
AATCTGTGAACATTGTATTATTTTAGGCTAGGTCTATTGCTTTCGAGTAGTGGTTATACAGGTG
GCATTGTAAAATGCTGTATTTAGCCAATAAGCTACAGTTTGTTGGATGTGAGCTAGTAATTATG
GTAACTATGTTAGTTAGTGTTAGCTGTTTGCCAATTTAAATACTAAAAATCATAGTATTAGTTG
AGTTTTCATAGATCCTGCAGATCATCAATTTTGGGAACTTATCTGTAGATTAAATTATTATGTT
CTTTGAAGGACGTGAGCTCCTCTTCAGTCACTTGAAATATTAATGAGGTAAACTTCCAATTCGC
TGGATGTTTGGTTAACAGGTTGATTATGGCGAATGTTTCAGAGTACTCAACAACCCCAACATAA
CAGTACATTTCAATACAGAAGCCATGGATGTTGTTAGCAATGACAAAGGGCAGATGTCTGGCGT
TCATCTGAAGAGAAGAGATACAGGAGAAGAATCAGTTCTTACTGTGAAAGGTTTATTTTATGGC
ATAGGACATACTCCAAACAGTCAGCTGTTGCAGGGCCAAATCGAACTTGATAGTGCTGGCTATA
TTTTAGTTAAAGAGGGCTCAGCCAAAACTTCAGTTGATGGTGTATTCGCTGCTGGTGATGTTCA
GGTAACTCCATCATTCACCTTCTGTATGGAACTTGTTCATGGTTTGCAATATATCTTATATTCC
GAAGCTCCATTGGCACCATCATGTCATGTTTTTGTTATCACATATCATTTCTTGATGTCTTAAG
AAGGAAACTGCTACAGCCAAGTATTTGCAAGATACCTAAGTATAAAATGCAGTATACATTGTGC
AAGATATACATTTGTGAAATTGAGATATTTCTATGGCCATTTTGGTTTTTATGCTTCTCCAGTG
TGTACCTGCAGGATCATGAATGGAGACAAGCTATTACTGCAGCTGGATCTGGATGCATAGCTGC
TTTGTCAGTTGAAAGATACTTAGTTGCCAATGATCTTCTTGTCGAATTTCACCAGGTAGTCCTT
TTTCCCCACAGTAGCTATTTCATTATGACATCTGGTGCACATACCAACTTCATTTTGCCTTGGA
CACTATTATAATGGAGGATGACTGTACAATCTTTACTGGATCCACAGTATCGTGAACAGCTGCA
ATCATCTACTTTTGTTATTTTGACTGGTATTTCTAGTTTATGTATCATCACATGTCAGCATTGC
CATGTAGCCACATTGGAATTTATTCATATATGAAAATTTGAACATAGGCTTTCATCACTTCTTA
TATCACATGGTTGATTCACTTGTACCATCTTTTGCTGGTTATTTTCTGTACTAACCCCAATCAA
GTTTACAAGGTACTGTTCTTTCTCATAATTTTTTAATTTAAATGCAGCCTGTTCAAGAAGAAAC
AAAGAAGGATATTACAGATAAAGATGTTCAAATGGGCTTTGACATTTCTCACAGAAAACACAAG
GGACAGGTATTTATGCATAGATTGACCCACATGATGAAAATGTTAATTTGAAAACTGACACTGA
GCTTTCTTCCTTTGCAGTATGCACTCCGCAAACTGTACCATGAGAGTCCACGACTCATTTGTGT
TCTATACACTTCTCCCACATGTGGTCCTTGCAGAACCTTAAAACCAATTTTGAGCAAGGTTGGT
TCCTGAAGTTGGTACTGTATCTGATTGGTCTAATTTAAGGGCTCATATTCTTTTTAAAACAACC
TACCAATCAACCTTAAAGCACCTTCTTTTTACAATGGTAATAGGATACATACAACTTGGGTGTT
AAAATAAAATCAACATATAGCTTCACAACATTGTGTGTGGTACGGCGACTAGCAGACACATGCT
GCTATTGTGATGCAAAATTCTCATTTTATGATCTGTGTATCTTAGTTTAGGTTGCTTGTTTTAT
TACTTGCTAATTGCTAATTTATCTTGCAGGTCATAGACGAGTACGGCGAGTTTGTTCATCTTGT
TGAAATTGACATCGAGGAGGATCCTGAAATAGCAGAAGCTGCAGGCATCATGGGAACACCTTGT
GTTCAATTTTTTAAGAACAAAGAAATGCTCAG
						
					

			
		

Sequences
Splice junction sequence	TTGTTGAAATTGACATCGAGGAGGATCCTGAAATAGCAGAAGCTGCAGGCATCATGGGAACACC TTGTGTTCAATTTTTTAAGAACAAAGAAATGCTCAGggtgaaatgtcatagtctaattattgca actggagctacggctaagcgcctccgtctgcctcgtgaagatgaattttggagtagaggcatca gcgcatgt
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	GGTGAAATGTCATAGTCTAATTATTGCAACTGGAGCTACGGCTAAGCGCCTCCGTCTGCCTCGT GAAGATGAATTTTGGAGTAGAGGCATCAGCGCATGTGCAATATGTGATGGAGCTTCACCACTTT TCAAGGGCCAGGTTCTTGCAGTTGTTGGGGGTGGTGATGTAGCTACAGAGGAAGCAGTATATTT GACAAAATATGCTCGACATGTTCATTTACTAGTTAGAAAGGATCAGCTACGGGCTTCCAAAGCT ATGCAGGACAGGTAAAATAATTTCAATTCTTTTTCCTAAGAATATTCTGTTCTGTTCACACAGA CATACTACCAGCAGATTGCCAGTATTTCACTTATCTTGGGCATCAGCACTTATTAGGAGTGATA GTGGATTGAATTATCTCCTTTTAGAAGGGCAGGCCTGGTGTAAGAGCTGTCTCCCTGAGTCACC AATCTGTGAACATTGTATTATTTTAGGCTAGGTCTATTGCTTTCGAGTAGTGGTTATACAGGTG GCATTGTAAAATGCTGTATTTAGCCAATAAGCTACAGTTTGTTGGATGTGAGCTAGTAATTATG GTAACTATGTTAGTTAGTGTTAGCTGTTTGCCAATTTAAATACTAAAAATCATAGTATTAGTTG AGTTTTCATAGATCCTGCAGATCATCAATTTTGGGAACTTATCTGTAGATTAAATTATTATGTT CTTTGAAGGACGTGAGCTCCTCTTCAGTCACTTGAAATATTAATGAGGTAAACTTCCAATTCGC TGGATGTTTGGTTAACAGGTTGATTATGGCGAATGTTTCAGAGTACTCAACAACCCCAACATAA CAGTACATTTCAATACAGAAGCCATGGATGTTGTTAGCAATGACAAAGGGCAGATGTCTGGCGT TCATCTGAAGAGAAGAGATACAGGAGAAGAATCAGTTCTTACTGTGAAAGGTTTATTTTATGGC ATAGGACATACTCCAAACAGTCAGCTGTTGCAGGGCCAAATCGAACTTGATAGTGCTGGCTATA TTTTAGTTAAAGAGGGCTCAGCCAAAACTTCAGTTGATGGTGTATTCGCTGCTGGTGATGTTCA GGTAACTCCATCATTCACCTTCTGTATGGAACTTGTTCATGGTTTGCAATATATCTTATATTCC GAAGCTCCATTGGCACCATCATGTCATGTTTTTGTTATCACATATCATTTCTTGATGTCTTAAG AAGGAAACTGCTACAGCCAAGTATTTGCAAGATACCTAAGTATAAAATGCAGTATACATTGTGC AAGATATACATTTGTGAAATTGAGATATTTCTATGGCCATTTTGGTTTTTATGCTTCTCCAGTG TGTACCTGCAGGATCATGAATGGAGACAAGCTATTACTGCAGCTGGATCTGGATGCATAGCTGC TTTGTCAGTTGAAAGATACTTAGTTGCCAATGATCTTCTTGTCGAATTTCACCAGGTAGTCCTT TTTCCCCACAGTAGCTATTTCATTATGACATCTGGTGCACATACCAACTTCATTTTGCCTTGGA CACTATTATAATGGAGGATGACTGTACAATCTTTACTGGATCCACAGTATCGTGAACAGCTGCA ATCATCTACTTTTGTTATTTTGACTGGTATTTCTAGTTTATGTATCATCACATGTCAGCATTGC CATGTAGCCACATTGGAATTTATTCATATATGAAAATTTGAACATAGGCTTTCATCACTTCTTA TATCACATGGTTGATTCACTTGTACCATCTTTTGCTGGTTATTTTCTGTACTAACCCCAATCAA GTTTACAAGGTACTGTTCTTTCTCATAATTTTTTAATTTAAATGCAGCCTGTTCAAGAAGAAAC AAAGAAGGATATTACAGATAAAGATGTTCAAATGGGCTTTGACATTTCTCACAGAAAACACAAG GGACAGGTATTTATGCATAGATTGACCCACATGATGAAAATGTTAATTTGAAAACTGACACTGA GCTTTCTTCCTTTGCAGTATGCACTCCGCAAACTGTACCATGAGAGTCCACGACTCATTTGTGT TCTATACACTTCTCCCACATGTGGTCCTTGCAGAACCTTAAAACCAATTTTGAGCAAGGTTGGT TCCTGAAGTTGGTACTGTATCTGATTGGTCTAATTTAAGGGCTCATATTCTTTTTAAAACAACC TACCAATCAACCTTAAAGCACCTTCTTTTTACAATGGTAATAGGATACATACAACTTGGGTGTT AAAATAAAATCAACATATAGCTTCACAACATTGTGTGTGGTACGGCGACTAGCAGACACATGCT GCTATTGTGATGCAAAATTCTCATTTTATGATCTGTGTATCTTAGTTTAGGTTGCTTGTTTTAT TACTTGCTAATTGCTAATTTATCTTGCAGGTCATAGACGAGTACGGCGAGTTTGTTCATCTTGT TGAAATTGACATCGAGGAGGATCCTGAAATAGCAGAAGCTGCAGGCATCATGGGAACACCTTGT GTTCAATTTTTTAAGAACAAAGAAATGCTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.033238149

Conservation Information
Conserved circRNAs	NA
PMCS	0.033238149

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2017b

circRNA

Detail information of Zm00001d022381_circ_g.1

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